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Conserved domains on  [gi|1002253782|ref|XP_015631135|]
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pentatricopeptide repeat-containing protein At5g46580, chloroplastic [Oryza sativa Japonica Group]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN03218 super family cl33664
maturation of RBCL 1; Provisional
 197-500 4.74e-27

maturation of RBCL 1; Provisional


The actual alignment was detected with superfamily member PLN03218:

Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 117.67  E-value: 4.74e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  197 DMLASGVPLDNITYSTLITAARRCRQFDKAVEWFERMyASDGVLPDEVTYSAILDVYAQLGMKE---EVLALFdRARGSG 273
Cdd:PLN03218   497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM-RSKNVKPDRVVFNALISACGQSGAVDrafDVLAEM-KAETHP 574

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  274 WKPDHVAFAVLAKMFGEAGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTA 353
Cdd:PLN03218   575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  354 LAKIYGRARWGRDALQLWEQMREKKLPADNILCNTLLSMCADVGLVGEAEQLFSEMKDPDLgdvpKPDKWSYTAMINIYG 433
Cdd:PLN03218   655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL----RPTVSTMNALITALC 730

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1002253782  434 SSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKPDDRLCGCLLS 500
Cdd:PLN03218   731 EGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITG 797
SMR super family cl46904
Small MutS-related domain;
601-668 1.13e-07

Small MutS-related domain;


The actual alignment was detected with superfamily member smart00463:

Pssm-ID: 481244 [Multi-domain]  Cd Length: 80  Bit Score: 49.60  E-value: 1.13e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  601 EWSLDLRSLSVGAAKTAFDDWMKTIREHEeeeaLPQTFSVYTGSSTHKFA--QGLATAVASHLEQVGAPF 668
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKG----LEQKLVIITGKGKHSLGgkSGVKPALKEHLRVESFRF 66
PPR_2 super family cl38385
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 171-216 1.78e-03

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


The actual alignment was detected with superfamily member pfam13041:

Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 36.57  E-value: 1.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002253782 171 DTIVFNVALKSLRAARQWPQAERLALDMLASGVPLDNITYSTLITA 216
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 197-500 4.74e-27

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 117.67  E-value: 4.74e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  197 DMLASGVPLDNITYSTLITAARRCRQFDKAVEWFERMyASDGVLPDEVTYSAILDVYAQLGMKE---EVLALFdRARGSG 273
Cdd:PLN03218   497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM-RSKNVKPDRVVFNALISACGQSGAVDrafDVLAEM-KAETHP 574

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  274 WKPDHVAFAVLAKMFGEAGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTA 353
Cdd:PLN03218   575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  354 LAKIYGRARWGRDALQLWEQMREKKLPADNILCNTLLSMCADVGLVGEAEQLFSEMKDPDLgdvpKPDKWSYTAMINIYG 433
Cdd:PLN03218   655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL----RPTVSTMNALITALC 730

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1002253782  434 SSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKPDDRLCGCLLS 500
Cdd:PLN03218   731 EGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITG 797
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 424-469 7.16e-11

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 57.76  E-value: 7.16e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002253782 424 SYTAMINIYGSSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGK 469
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 177-486 1.95e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 58.97  E-value: 1.95e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 177 VALKSLRAARQWPQAERL--ALDMLASGVPLDNITYSTLITAA---RRCRQFDKAVEWFERMYASDgvlPDEVTYSAIL- 250
Cdd:COG2956     7 AALGWYFKGLNYLLNGQPdkAIDLLEEALELDPETVEAHLALGnlyRRRGEYDRAIRIHQKLLERD---PDRAEALLELa 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 251 DVYAQLGMKEEVLALFDRARGSgwKPDHV-AFAVLAKMFGEAGDYDGIQFVFKEMREVGiKPNIFVYNALLEALGKTGKP 329
Cdd:COG2956    84 QDYLKAGLLDRAEELLEKLLEL--DPDDAeALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 330 GLARNLFEEmtAEGVEPN-ARTLTALAKIYGRARWGRDALQLWEQMREkklpadnilcntllsmcadvglvgeaeqlfse 408
Cdd:COG2956   161 DEAIEALEK--ALKLDPDcARALLLLAELYLEQGDYEEAIAALERALE-------------------------------- 206

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1002253782 409 mKDPDLGDVpkpdkwsYTAMINIYGSSGDADRALQLFAEMVEsgIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAK 486
Cdd:COG2956   207 -QDPDYLPA-------LPRLAELYEKLGDPEEALELLRKALE--LDPSDDLLLALADLLERKEGLEAALALLERQLRR 274
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 424-457 1.06e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 48.22  E-value: 1.06e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1002253782 424 SYTAMINIYGSSGDADRALQLFAEMVESGIEPNI 457
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
SMR smart00463
Small MutS-related domain;
601-668 1.13e-07

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 49.60  E-value: 1.13e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  601 EWSLDLRSLSVGAAKTAFDDWMKTIREHEeeeaLPQTFSVYTGSSTHKFA--QGLATAVASHLEQVGAPF 668
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKG----LEQKLVIITGKGKHSLGgkSGVKPALKEHLRVESFRF 66
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 171-216 1.78e-03

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 36.57  E-value: 1.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002253782 171 DTIVFNVALKSLRAARQWPQAERLALDMLASGVPLDNITYSTLITA 216
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
 
Name Accession Description Interval E-value
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 197-500 4.74e-27

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 117.67  E-value: 4.74e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  197 DMLASGVPLDNITYSTLITAARRCRQFDKAVEWFERMyASDGVLPDEVTYSAILDVYAQLGMKE---EVLALFdRARGSG 273
Cdd:PLN03218   497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIM-RSKNVKPDRVVFNALISACGQSGAVDrafDVLAEM-KAETHP 574

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  274 WKPDHVAFAVLAKMFGEAGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTA 353
Cdd:PLN03218   575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  354 LAKIYGRARWGRDALQLWEQMREKKLPADNILCNTLLSMCADVGLVGEAEQLFSEMKDPDLgdvpKPDKWSYTAMINIYG 433
Cdd:PLN03218   655 LVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL----RPTVSTMNALITALC 730

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1002253782  434 SSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKPDDRLCGCLLS 500
Cdd:PLN03218   731 EGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITG 797
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 281-501 1.13e-21

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 100.72  E-value: 1.13e-21
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  281 FAVLAKMFGEAGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTALakIYGR 360
Cdd:PLN03218   440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGAL--IDGC 517

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  361 ARWGR--DALQLWEQMREKKLPADNILCNTLLSMCADVGLVGEAEQLFSEMKDPdlgDVP-KPDKWSYTAMINIYGSSGD 437
Cdd:PLN03218   518 ARAGQvaKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAE---THPiDPDHITVGALMKACANAGQ 594

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1002253782  438 ADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKPDDRLCGCLLSV 501
Cdd:PLN03218   595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV 658
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 261-490 5.30e-19

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 91.86  E-value: 5.30e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  261 EVLALfdrARGSGWKPDHVAFAVLAKMFGEAGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMT 340
Cdd:PLN03218   458 RVLRL---VQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMR 534

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  341 AEGVEPNARTLTALAKIYGRARWGRDALQLWEQMREKKLP--ADNILCNTLLSMCADVGLVGEAEQLFSEMKDPDLGDVP 418
Cdd:PLN03218   535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPidPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTP 614

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1002253782  419 KpdkwSYTAMINIYGSSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKP 490
Cdd:PLN03218   615 E----VYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKL 682
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 171-467 1.29e-16

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 84.16  E-value: 1.29e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  171 DTIVFNvALKSlrAARQWPQAER----LAlDMLASGVPL--DNITYSTLITAARRCRQFDKAVEWFERM----------- 233
Cdd:PLN03218   541 DRVVFN-ALIS--ACGQSGAVDRafdvLA-EMKAETHPIdpDHITVGALMKACANAGQVDRAKEVYQMIheynikgtpev 616

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  234 ---------------YA--------SDGVLPDEVTYSAILDVYAQLGMKEEVLALFDRARGSGWKPDHVAFAVLAKMFGE 290
Cdd:PLN03218   617 ytiavnscsqkgdwdFAlsiyddmkKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSN 696

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  291 AGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTALAKIYGRARWGRDALQL 370
Cdd:PLN03218   697 AKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDL 776

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  371 WEQMREKKLPADNILCNTLLSMC-----ADVGLvGEAEQLFsemkdpDLGDVPKPDKWSytaminiygssgdaDRALQLF 445
Cdd:PLN03218   777 LSQAKEDGIKPNLVMCRCITGLClrrfeKACAL-GEPVVSF------DSGRPQIENKWT--------------SWALMVY 835

                          330       340
                   ....*....|....*....|..
gi 1002253782  446 AEMVESGIEPNIMSYTIVIQCL 467
Cdd:PLN03218   836 RETISAGTLPTMEVLSQVLGCL 857
PLN03077 PLN03077
Protein ECB2; Provisional
 160-488 3.22e-13

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 73.35  E-value: 3.22e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 160 LRALPDGAFPLDTIVFnVALKSL----RAARQWPQAERLALDMLAS-GVPLDNITYSTLItaarrcrQFDKAVE-W--FE 231
Cdd:PLN03077   74 LESMQELRVPVDEDAY-VALFRLcewkRAVEEGSRVCSRALSSHPSlGVRLGNAMLSMFV-------RFGELVHaWyvFG 145

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 232 RMYASDgvlpdEVTYSAILDVYAQLGMKEEVLALFDRARGSGWKPDHVAFAVLAKMFGEAGDYDGIQFVFKEMREVGIKP 311
Cdd:PLN03077  146 KMPERD-----LFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFEL 220

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 312 NIFVYNALLEALGKTGKPGLARNLFEEMTA--------------------EG-----------VEPNARTLTAL---AKI 357
Cdd:PLN03077  221 DVDVVNALITMYVKCGDVVSARLVFDRMPRrdciswnamisgyfengeclEGlelfftmrelsVDPDLMTITSVisaCEL 300

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 358 YGRARWGRDalqLWEQMREKKLPADNILCNTLLSMCADVGLVGEAEQLFSEMKDPDLgdvpkpdkWSYTAMINIYGSSGD 437
Cdd:PLN03077  301 LGDERLGRE---MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDA--------VSWTAMISGYEKNGL 369

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1002253782 438 ADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGL 488
Cdd:PLN03077  370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGL 420
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 205-491 6.60e-13

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 72.21  E-value: 6.60e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 205 LDNITYSTLITAARRCRQ--FDKAVEWFermYASDGVLPDEVTYSAILDVYAQLGMKEEVLALFDRArgsgwkPDHVAFA 282
Cdd:PLN03081  121 LPASTYDALVEACIALKSirCVKAVYWH---VESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM------PERNLAS 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 283 VLAKMFG--EAGDYDGIQFVFKEMREVGIKP-----------------------------------NIFVYNALLEALGK 325
Cdd:PLN03081  192 WGTIIGGlvDAGNYREAFALFREMWEDGSDAeprtfvvmlrasaglgsaragqqlhccvlktgvvgDTFVSCALIDMYSK 271

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 326 TGKPGLARNLFEEMtaegvePNARTLTALAKIYGRARWGR--DALQLWEQMREKKLPADNILCNTLLSMCADVGLVGEAE 403
Cdd:PLN03081  272 CGDIEDARCVFDGM------PEKTTVAWNSMLAGYALHGYseEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK 345

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 404 QLFSEMKDPDLGDvpkpDKWSYTAMINIYGSSGDADRALQLFAEMVESgiepNIMSYTIVIQCLGKAGRIQEAVDVLEAG 483
Cdd:PLN03081  346 QAHAGLIRTGFPL----DIVANTALVDLYSKWGRMEDARNVFDRMPRK----NLISWNALIAGYGNHGRGTKAVEMFERM 417


                  ....*...
gi 1002253782 484 MAKGLKPD 491
Cdd:PLN03081  418 IAEGVAPN 425
PLN03077 PLN03077
Protein ECB2; Provisional
 167-500 4.09e-12

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 69.49  E-value: 4.09e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 167 AFPLDTIVFNVALKSLRAARQWPQAERLALDMLASgvplDNITYSTLITAARRCRQFDKAVEWFeRMYASDGVLPDEVTY 246
Cdd:PLN03077  318 GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGLPDKALETY-ALMEQDNVSPDEITI 392

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 247 SAILDVYAQLGMKEEVLALFDRARGSGwkpdHVAFAVLA----KMFGEAGDYDGIQFVFKEMREvgikPNIFVYNALLEA 322
Cdd:PLN03077  393 ASVLSACACLGDLDVGVKLHELAERKG----LISYVVVAnaliEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAG 464

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 323 LGKTGKPGLARNLFEEMTAEgVEPNARTLT-ALAKIygrARWGrdALQLWEQMREKKLPA----DNILCNTLLSMCADVG 397
Cdd:PLN03077  465 LRLNNRCFEALIFFRQMLLT-LKPNSVTLIaALSAC---ARIG--ALMCGKEIHAHVLRTgigfDGFLPNALLDLYVRCG 538

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 398 LVGEAEQLFSemkdpdlgdVPKPDKWSYTAMINIYGSSGDADRALQLFAEMVESG------------------------- 452
Cdd:PLN03077  539 RMNYAWNQFN---------SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGvnpdevtfisllcacsrsgmvtqgl 609

                         330       340       350       360       370
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1002253782 453 -----------IEPNIMSYTIVIQCLGKAGRIQEAVDVLEAgMAkgLKPDDRLCGCLLS 500
Cdd:PLN03077  610 eyfhsmeekysITPNLKHYACVVDLLGRAGKLTEAYNFINK-MP--ITPDPAVWGALLN 665
PLN03077 PLN03077
Protein ECB2; Provisional
 176-518 1.28e-11

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 67.95  E-value: 1.28e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 176 NVALKSLRAARQWPQAERLALDMLASGVPLDNITYSTLItaaRRCrqfdkavEWfermyaSDGVLPDEVTYSAILDVYAQ 255
Cdd:PLN03077   55 NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALF---RLC-------EW------KRAVEEGSRVCSRALSSHPS 118

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 256 LGMK--EEVLALFDRargsgwkpdhvafavlakmFGEAGDydgIQFVFKEMREvgikPNIFVYNALLEALGKTGKPGLAR 333
Cdd:PLN03077  119 LGVRlgNAMLSMFVR-------------------FGELVH---AWYVFGKMPE----RDLFSWNVLVGGYAKAGYFDEAL 172

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 334 NLFEEMTAEGVEPNARTLTALAKIYGrarwgrdALQLWEQMREKKL-------PADNILCNTLLSMCADVGLVGEAEQLF 406
Cdd:PLN03077  173 CLYHRMLWAGVRPDVYTFPCVLRTCG-------GIPDLARGREVHAhvvrfgfELDVDVVNALITMYVKCGDVVSARLVF 245

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 407 SEMkdpdlgdvPKPDKWSYTAMINIYGSSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAK 486
Cdd:PLN03077  246 DRM--------PRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT 317

                         330       340       350
                  ....*....|....*....|....*....|...
gi 1002253782 487 GLKPDDRLCGCLLSV-VALSSGDETEVILACLE 518
Cdd:PLN03077  318 GFAVDVSVCNSLIQMyLSLGSWGEAEKVFSRME 350
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 424-469 7.16e-11

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 57.76  E-value: 7.16e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002253782 424 SYTAMINIYGSSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGK 469
Cdd:pfam13041   5 TYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILINGLCK 50
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 220-476 8.81e-11

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 65.28  E-value: 8.81e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 220 CRQFDKAVEWFERMYASDGVLPDEVTYSAILDVYAQLGMKEEVLALFDRARGSGWKPDHVAFAVLAKMFGEAGDYDGIQF 299
Cdd:PLN03081  100 CGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARR 179

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 300 VFKEMREvgikPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTALAKI---YGRARWGRdalQLWEQMRE 376
Cdd:PLN03081  180 LFDEMPE----RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRAsagLGSARAGQ---QLHCCVLK 252

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 377 KKLPADNILCNTLLSMCADVGLVGEAEQLFSEMkdpdlgdvPKPDKWSYTAMINIYGSSGDADRALQLFAEMVESGIEPN 456
Cdd:PLN03081  253 TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM--------PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID 324

                         250       260
                  ....*....|....*....|
gi 1002253782 457 IMSYTIVIQCLGKAGRIQEA 476
Cdd:PLN03081  325 QFTFSIMIRIFSRLALLEHA 344
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 311-356 8.68e-10

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 54.68  E-value: 8.68e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1002253782 311 PNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNART----LTALAK 356
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTytilINGLCK 50
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 177-486 1.95e-09

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 58.97  E-value: 1.95e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 177 VALKSLRAARQWPQAERL--ALDMLASGVPLDNITYSTLITAA---RRCRQFDKAVEWFERMYASDgvlPDEVTYSAIL- 250
Cdd:COG2956     7 AALGWYFKGLNYLLNGQPdkAIDLLEEALELDPETVEAHLALGnlyRRRGEYDRAIRIHQKLLERD---PDRAEALLELa 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 251 DVYAQLGMKEEVLALFDRARGSgwKPDHV-AFAVLAKMFGEAGDYDGIQFVFKEMREVGiKPNIFVYNALLEALGKTGKP 329
Cdd:COG2956    84 QDYLKAGLLDRAEELLEKLLEL--DPDDAeALRLLAEIYEQEGDWEKAIEVLERLLKLG-PENAHAYCELAELYLEQGDY 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 330 GLARNLFEEmtAEGVEPN-ARTLTALAKIYGRARWGRDALQLWEQMREkklpadnilcntllsmcadvglvgeaeqlfse 408
Cdd:COG2956   161 DEAIEALEK--ALKLDPDcARALLLLAELYLEQGDYEEAIAALERALE-------------------------------- 206

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1002253782 409 mKDPDLGDVpkpdkwsYTAMINIYGSSGDADRALQLFAEMVEsgIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAK 486
Cdd:COG2956   207 -QDPDYLPA-------LPRLAELYEKLGDPEEALELLRKALE--LDPSDDLLLALADLLERKEGLEAALALLERQLRR 274
PLN03081 PLN03081
pentatricopeptide (PPR) repeat-containing protein; Provisional
 224-488 2.09e-09

pentatricopeptide (PPR) repeat-containing protein; Provisional


Pssm-ID: 215563 [Multi-domain]  Cd Length: 697  Bit Score: 60.65  E-value: 2.09e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 224 DKAVEWFERMYASdGVLPDEVTYSAILDVYAQLGMKEEVLALFDRARGSGWKPDHVAFAVLAKMFGEAGDYDGIQFVFKE 303
Cdd:PLN03081  307 EEALCLYYEMRDS-GVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDR 385

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 304 MRevgiKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTAlakiygrarwgrdalqlweqmrekklpadn 383
Cdd:PLN03081  386 MP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLA------------------------------ 431

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 384 ilcntLLSMCADVGLVGEAEQLFSEMKDpDLGdvPKPDKWSYTAMINIYGSSGDADRA---------------------- 441
Cdd:PLN03081  432 -----VLSACRYSGLSEQGWEIFQSMSE-NHR--IKPRAMHYACMIELLGREGLLDEAyamirrapfkptvnmwaallta 503

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1002253782 442 ------LQLFAEMVES--GIEP-NIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGL 488
Cdd:PLN03081  504 crihknLELGRLAAEKlyGMGPeKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGL 559
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 367-522 7.91e-09

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 56.25  E-value: 7.91e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 367 ALQLWEQMREKKLPADNILCNTLLSMCAdvglvgEAEQLFSEMKDPDLGDVPK-----------PDKWSYTAMINIYGSS 435
Cdd:pfam17177  30 ALALYDAAKAEGVRLAQYHYNVLLYLCS------KAADATDLKPQLAADRGFEvfeamkaqgvsPNEATYTAVARLAAAK 103

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 436 GDADRALQLFAEMVESGIEPNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKPDDRLCGCLLSVVAlSSGDETEViLA 515
Cdd:pfam17177 104 GDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSA-KAGRADKV-YA 181


                  ....*..
gi 1002253782 516 CLEKVRS 522
Cdd:pfam17177 182 YLHRLRD 188
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 300-359 8.97e-09

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 52.36  E-value: 8.97e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 300 VFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTALAKIYG 359
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIG 61
PLN03218 PLN03218
maturation of RBCL 1; Provisional
 309-491 4.33e-08

maturation of RBCL 1; Provisional


Pssm-ID: 215636 [Multi-domain]  Cd Length: 1060  Bit Score: 56.81  E-value: 4.33e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  309 IKPNIFVYNALLealgKTGKPGLARNLFEEMtaegvepNARTLTALAKIY--------GRARWGRDALQLWEQMREKKLP 380
Cdd:PLN03218   370 SPEYIDAYNRLL----RDGRIKDCIDLLEDM-------EKRGLLDMDKIYhakffkacKKQRAVKEAFRFAKLIRNPTLS 438

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  381 ADNILcntlLSMCADVGLVGEAEQLFSEMKDPDLgdvpKPDKWSYTAMINIYGSSGDADRALQLFAEMVESGIEPNIMSY 460
Cdd:PLN03218   439 TFNML----MSVCASSQDIDGALRVLRLVQEAGL----KADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTF 510

                          170       180       190
                   ....*....|....*....|....*....|.
gi 1002253782  461 TIVIQCLGKAGRIQEAVDVLEAGMAKGLKPD 491
Cdd:PLN03218   511 GALIDGCARAGQVAKAFGAYGIMRSKNVKPD 541
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 265-325 7.30e-08

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 49.66  E-value: 7.30e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002253782 265 LFDRARGSGWKPDHVAFAVLAKMFGEAGDYDGIQFVFKEMREVGIKPNIFVYNALLEALGK 325
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 424-457 1.06e-07

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 48.22  E-value: 1.06e-07
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1002253782 424 SYTAMINIYGSSGDADRALQLFAEMVESGIEPNI 457
Cdd:TIGR00756   2 TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
SMR smart00463
Small MutS-related domain;
601-668 1.13e-07

Small MutS-related domain;


Pssm-ID: 214676 [Multi-domain]  Cd Length: 80  Bit Score: 49.60  E-value: 1.13e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782  601 EWSLDLRSLSVGAAKTAFDDWMKTIREHEeeeaLPQTFSVYTGSSTHKFA--QGLATAVASHLEQVGAPF 668
Cdd:smart00463   1 KWSLDLHGLTVEEALTALDKFLNNARLKG----LEQKLVIITGKGKHSLGgkSGVKPALKEHLRVESFRF 66
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 405-469 4.98e-07

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 47.35  E-value: 4.98e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1002253782 405 LFSEMKDPDLgdvpKPDKWSYTAMINIYGSSGDADRALQLFAEMVESGIEPNIMSYTIVIQCLGK 469
Cdd:pfam13812   2 ILREMVRDGI----QLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 300-481 9.03e-07

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 50.09  E-value: 9.03e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 300 VFKEMREVGIKPNIFVYNALL-----EALGKTGKPGLA----RNLFEEMTAEGVEPNARTLTALAKIYGRARWGRDALQL 370
Cdd:pfam17177  33 LYDAAKAEGVRLAQYHYNVLLylcskAADATDLKPQLAadrgFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGDLAFDL 112

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 371 WEQMREKKLPadnilcntllsmcadvglvgeaeqlfsemkdpdlgdvpkPDKWSYTAMINIYGSSGDADRALQLFAEMVE 450
Cdd:pfam17177 113 VKEMEAAGVS---------------------------------------PRLRSYSPALHAYCEAGDADKAYEVEEHMLA 153

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1002253782 451 SGIEPNIMSYTIVIQCLGKAGRIQEAVDVLE 481
Cdd:pfam17177 154 HGVELEEPELAALLKVSAKAGRADKVYAYLH 184
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 206-255 9.46e-07

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 45.82  E-value: 9.46e-07
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 1002253782 206 DNITYSTLITAARRCRQFDKAVEWFERMYaSDGVLPDEVTYSAILDVYAQ 255
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMK-KRGVKPNVYTYTILINGLCK 50
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 423-453 1.17e-06

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 45.15  E-value: 1.17e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1002253782 423 WSYTAMINIYGSSGDADRALQLFAEMVESGI 453
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 226-361 1.25e-06

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 49.70  E-value: 1.25e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 226 AVEWFERMyASDGVLPDEVTYSAIL----------DVYAQLGMKEeVLALFDRARGSGWKPDHVAFAVLAKMFGEAGDYD 295
Cdd:pfam17177  30 ALALYDAA-KAEGVRLAQYHYNVLLylcskaadatDLKPQLAADR-GFEVFEAMKAQGVSPNEATYTAVARLAAAKGDGD 107

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1002253782 296 GIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTALAKIYGRA 361
Cdd:pfam17177 108 LAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAHGVELEEPELAALLKVSAKA 173
PLN03077 PLN03077
Protein ECB2; Provisional
 199-414 2.17e-06

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 51.00  E-value: 2.17e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 199 LASGVPLDNITYSTLITAARRCRQFDKAVEWFERMYAsdgvlpDEVTYSAILDVYAQLGMKEEVLALFDRARGSGWKPDH 278
Cdd:PLN03077  516 LRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEK------DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDE 589

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 279 VAFAVLAKMFGEAGDY-DGIQFVFKEMREVGIKPNIFVYNALLEALGKTGKPGLARNLFEEMTaegVEPNARTLTAL--- 354
Cdd:PLN03077  590 VTFISLLCACSRSGMVtQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMP---ITPDPAVWGALlna 666

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 355 AKIYGRARWGRDALQLWEQMREKKLPADNILCNtllsMCADVGLVGEAEQLFSEMKDPDL 414
Cdd:PLN03077  667 CRIHRHVELGELAAQHIFELDPNSVGYYILLCN----LYADAGKWDEVARVRKTMRENGL 722
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 314-348 7.75e-06

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 42.83  E-value: 7.75e-06
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1002253782 314 FVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNA 348
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 193-253 7.99e-06

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 43.89  E-value: 7.99e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002253782 193 RLALDMLASGVPLDNITYSTLITAARRCRQFDKAVEWFERMyASDGVLPDEVTYSAILDVY 253
Cdd:pfam13812   1 SILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERM-KKKGIKPTLDTYNAILGVI 60
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 382-430 1.02e-05

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 43.12  E-value: 1.02e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1002253782 382 DNILCNTLLSMCADVGLVGEAEQLFSEMKDPDLgdvpKPDKWSYTAMIN 430
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGV----KPNVYTYTILIN 46
PPR_long pfam17177
Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large ...
 161-292 2.52e-05

Pentacotripeptide-repeat region of PRORP; Pentatricopeptide repeat (PPR) proteins are a large family of modular RNA-binding proteins which mediate several aspects of gene expression primarily in organelles but also in the nucleus. PPR_long is the region of Arabidopsis protein-only RNase P (PRORP) enzyme that consists of up to eleven alpha-helices. PRORPs are a class of RNA processing enzymes that catalyze maturation of the 5' end of precursor tRNAs in Eukaryotes. All PPR proteins contain tandemly repeated sequence motifs (the PPR motifs) which can vary in number. The series of helix-turn-helix motifs formed by PPR motifs throughout the protein produces a superheros with a central groove that allows the protein to bind RNA. Proteins containing PPR motifs are known to have roles in transcription, RNA processing, splicing, stability, editing, and translation. Over a decade after the discovery of PPR proteins, the super-helical structure was confirmed. The protein-only mitochondrial RNase P crystal structure from Arabidopsis thaliana (PRORP1) confirmed the role of its PPR motifs in pre-tRNA binding and suggest it has evolved independently from other RNase P proteins that rely on catalytic RNA.


Pssm-ID: 407303 [Multi-domain]  Cd Length: 212  Bit Score: 45.85  E-value: 2.52e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 161 RALPDGAFPLDTIVFNVAlKSLRAARQWPQAERLALDMLASGVPLDNITYSTLITAARRCRQFDKAVEWFERMYASdGVL 240
Cdd:pfam17177  80 AMKAQGVSPNEATYTAVA-RLAAAKGDGDLAFDLVKEMEAAGVSPRLRSYSPALHAYCEAGDADKAYEVEEHMLAH-GVE 157

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1002253782 241 PDEVTYSAILDVYAQLGMKEEVLALFDRARGSGWKPDHVAFAVLAKMF-GEAG 292
Cdd:pfam17177 158 LEEPELAALLKVSAKAGRADKVYAYLHRLRDAVRQVSESTAGVLEEWFrSEAA 210
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 241-325 2.69e-05

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 41.97  E-value: 2.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 241 PDEVTYSAILDVYAQLGMKEEVLALFDrargsgwkpdhvafavlakmfgeagdydgiqfvfkEMREVGIKPNIFVYNALL 320
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFN-----------------------------------EMKKRGVKPNVYTYTILI 45


                  ....*
gi 1002253782 321 EALGK 325
Cdd:pfam13041  46 NGLCK 50
PPR_3 pfam13812
Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat ...
 335-395 3.85e-05

Pentatricopeptide repeat domain; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. In the case of the Arabidopsis protein UniProtKB:Q66GI4, the repeated helices in this N-terminal region, of protein-only RNase P (PRORP) enzymes, form the pentatricopeptide repeat (PPR) domain which enhances pre-tRNA binding affinity. PROPRP enzymes process precursor tRNAs in human mitochondria and in all tRNA-using compartments of Arabidopsis thaliana.


Pssm-ID: 316342 [Multi-domain]  Cd Length: 63  Bit Score: 41.96  E-value: 3.85e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1002253782 335 LFEEMTAEGVEPNARTLTALAKIYGRARWGRDALQLWEQMREKKLPADNILCNTLLSMCAD 395
Cdd:pfam13812   2 ILREMVRDGIQLNVNTYTHLLHAYANVGNLKLALEIFERMKKKGIKPTLDTYNAILGVIGG 62
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 452-481 4.35e-05

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 40.79  E-value: 4.35e-05
                          10        20        30
                  ....*....|....*....|....*....|
gi 1002253782 452 GIEPNIMSYTIVIQCLGKAGRIQEAVDVLE 481
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLD 31
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
209-391 6.76e-05

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 45.00  E-value: 6.76e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 209 TYSTLITAARRCRQFDKAVEWFERMYASDgvlPDE-VTYSAILDVYAQLGMKEEVLALFDRARGSgwKPDHV-AFAVLAK 286
Cdd:COG0457    10 AYNNLGLAYRRLGRYEEAIEDYEKALELD---PDDaEALYNLGLAYLRLGRYEEALADYEQALEL--DPDDAeALNNLGL 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 287 MFGEAGDYDGIQFVFKemREVGIKP-NIFVYNALLEALGKTGKPGLARNLFEEmtAEGVEPN-ARTLTALAKIYGRARWG 364
Cdd:COG0457    85 ALQALGRYEEALEDYD--KALELDPdDAEALYNLGLALLELGRYDEAIEAYER--ALELDPDdADALYNLGIALEKLGRY 160

                         170       180
                  ....*....|....*....|....*..
gi 1002253782 365 RDALQLWEQMREKKLPADNILCNTLLS 391
Cdd:COG0457   161 EEALELLEKLEAAALAALLAAALGEAA 187
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 244-277 1.49e-04

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 39.36  E-value: 1.49e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1002253782 244 VTYSAILDVYAQLGMKEEVLALFDRARGSGWKPD 277
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 455-492 3.30e-04

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 38.88  E-value: 3.30e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1002253782 455 PNIMSYTIVIQCLGKAGRIQEAVDVLEAGMAKGLKPDD 492
Cdd:pfam13041   1 PDVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNV 38
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 458-492 4.65e-04

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 37.82  E-value: 4.65e-04
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1002253782 458 MSYTIVIQCLGKAGRIQEAVDVLEaGM-AKGLKPDD 492
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFK-EMkERGIEPDV 35
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 314-344 5.81e-04

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 37.44  E-value: 5.81e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1002253782 314 FVYNALLEALGKTGKPGLARNLFEEMTAEGV 344
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKGI 31
PPR TIGR00756
pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR ...
 208-243 1.26e-03

pentatricopeptide repeat domain (PPR motif); This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. This family has a similar consensus to the TPR domain (tetratricopeptide), pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.


Pssm-ID: 273253 [Multi-domain]  Cd Length: 35  Bit Score: 36.66  E-value: 1.26e-03
                          10        20        30
                  ....*....|....*....|....*....|....*.
gi 1002253782 208 ITYSTLITAARRCRQFDKAVEWFERMYaSDGVLPDE 243
Cdd:TIGR00756   1 VTYNTLIDGLCKAGRVEEALELFKEMK-ERGIEPDV 35
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 308-340 1.41e-03

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 36.55  E-value: 1.41e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1002253782 308 GIKPNIFVYNALLEALGKTGKPGLARNLFEEMT 340
Cdd:pfam12854   2 GLKPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
PPR_2 pfam13041
PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is ...
 171-216 1.78e-03

PPR repeat family; This repeat has no known function. It is about 35 amino acids long and is found in up to 18 copies in some proteins. The family appears to be greatly expanded in plants and fungi. The repeat has been called PPR.


Pssm-ID: 463778 [Multi-domain]  Cd Length: 50  Bit Score: 36.57  E-value: 1.78e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 1002253782 171 DTIVFNVALKSLRAARQWPQAERLALDMLASGVPLDNITYSTLITA 216
Cdd:pfam13041   2 DVVTYNTLINGYCKKGKVEEAFKLFNEMKKRGVKPNVYTYTILING 47
PPR_1 pfam12854
PPR repeat; This family matches additional variants of the PPR repeat that were not captured ...
 419-449 2.40e-03

PPR repeat; This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known.


Pssm-ID: 403914 [Multi-domain]  Cd Length: 34  Bit Score: 35.78  E-value: 2.40e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 1002253782 419 KPDKWSYTAMINIYGSSGDADRALQLFAEMV 449
Cdd:pfam12854   4 KPDVVTYNTLINGLCRAGRVDEAFELLDEME 34
BepA COG4783
Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell ...
 180-306 3.53e-03

Outer membrane protein chaperone/metalloprotease BepA/YfgC, contains M48 and TPR domains [Cell wall/membrane/envelope biogenesis, Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443813 [Multi-domain]  Cd Length: 139  Bit Score: 38.25  E-value: 3.53e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 180 KSLRAARQWPQAERLALDMLASgVPLDNITYSTLITAARRCRQFDKAVEWFERMYASDgvlPDEVTYSAIL-DVYAQLGM 258
Cdd:COG4783    12 QALLLAGDYDEAEALLEKALEL-DPDNPEAFALLGEILLQLGDLDEAIVLLHEALELD---PDEPEARLNLgLALLKAGD 87

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1002253782 259 KEEVLALFDRARGSGwkPDHV-AFAVLAKMFGEAGDYDGIQFVFKEMRE 306
Cdd:COG4783    88 YDEALALLEKALKLD--PEHPeAYLRLARAYRALGRPDEAIAALEKALE 134
PLN03077 PLN03077
Protein ECB2; Provisional
 206-497 4.49e-03

Protein ECB2; Provisional


Pssm-ID: 215561 [Multi-domain]  Cd Length: 857  Bit Score: 40.22  E-value: 4.49e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 206 DNITYSTLITAARRCRQFDKAVEWFERMYASdgVLPDEVTYSAILDVYAQLGM---KEEVLALFDRArGSGWKpDHVAFA 282
Cdd:PLN03077  454 DVISWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIGAlmcGKEIHAHVLRT-GIGFD-GFLPNA 529

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 283 VLaKMFGEAG--DYDGIQFVFKEmREVGikpnifVYNALLEALGKTGKPGLARNLFEEMTAEGVEPNARTLTALAKIYGR 360
Cdd:PLN03077  530 LL-DLYVRCGrmNYAWNQFNSHE-KDVV------SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 361 ARWGRDALQLWEQMREKKLPADNI---LCntLLSMCADVGLVGEAEQLFSEMkdpdlgdvP-KPDKWSYTAMIN---IYG 433
Cdd:PLN03077  602 SGMVTQGLEYFHSMEEKYSITPNLkhyAC--VVDLLGRAGKLTEAYNFINKM--------PiTPDPAVWGALLNacrIHR 671

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1002253782 434 SSGDADRALQLFAEMvesgiEPNIMSYTIVIQCL-GKAGRIQEAVDVLEAGMAKGLKPDDrlcGC 497
Cdd:PLN03077  672 HVELGELAAQHIFEL-----DPNSVGYYILLCNLyADAGKWDEVARVRKTMRENGLTVDP---GC 728
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 244-273 4.49e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 35.13  E-value: 4.49e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 1002253782 244 VTYSAILDVYAQLGMKEEVLALFDRARGSG 273
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEMKEKG 30
PPR pfam01535
PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up ...
 208-233 5.05e-03

PPR repeat; This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309 that may be involved in RNA stabilization. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein Swiss:O49549 that has a domain organization similar to the human BRCA1 protein. The repeat has been called PPR.


Pssm-ID: 366695 [Multi-domain]  Cd Length: 31  Bit Score: 35.13  E-value: 5.05e-03
                          10        20
                  ....*....|....*....|....*.
gi 1002253782 208 ITYSTLITAARRCRQFDKAVEWFERM 233
Cdd:pfam01535   1 VTYNSLISGYCKNGKLEEALELFKEM 26
Mtf2 pfam19189
Mtf2 family; This family appears to be distantly related to PPR repeats.
 292-376 5.20e-03

Mtf2 family; This family appears to be distantly related to PPR repeats.


Pssm-ID: 437034  Cd Length: 195  Bit Score: 38.93  E-value: 5.20e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 292 GDYDGIQFVFKEMREVGIKP-----NIFVYNALLEALGKTGK--PGLaRNLFEEMTAEGVEPNARTLTALAKIY------ 358
Cdd:pfam19189  85 RDPHLALAIFEYAKRLSIESyvlgcTTDVYNELLRTRWEGFRdlYGV-LSLLEEMKVNGVQGDLETREILEKIRrevgeq 163

                          90       100
                  ....*....|....*....|....
gi 1002253782 359 ------GRARWGRDALQLWEQMRE 376
Cdd:pfam19189 164 endpkgVGVLWSKEDKRDLDELEK 187
LapB COG2956
Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal ...
 431-534 8.18e-03

Lipopolysaccharide biosynthesis regulator YciM/LapB, contains six TPR domains and a C-terminal metal-binding domain [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442196 [Multi-domain]  Cd Length: 275  Bit Score: 38.94  E-value: 8.18e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 431 IYGSSGDADRALQLFAEMVESGIEpNIMSYTIVIQCLGKAGRIQEAVDVLEAgmAKGLKPDDRLCGCLLSVVALSSGDET 510
Cdd:COG2956    85 DYLKAGLLDRAEELLEKLLELDPD-DAEALRLLAEIYEQEGDWEKAIEVLER--LLKLGPENAHAYCELAELYLEQGDYD 161

                          90       100
                  ....*....|....*....|....*..
gi 1002253782 511 EVIlACLEKVRS---NLVKLIRMLGDA 534
Cdd:COG2956   162 EAI-EALEKALKldpDCARALLLLAEL 187
TPR COG0457
Tetratricopeptide (TPR) repeat [General function prediction only];
182-408 8.77e-03

Tetratricopeptide (TPR) repeat [General function prediction only];


Pssm-ID: 440225 [Multi-domain]  Cd Length: 245  Bit Score: 38.45  E-value: 8.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 182 LRAARQWPQAER-----LALDmlasgvPLDNITYSTLITAARRCRQFDKAVEWFERMYASDgvLPDEVTYSAILDVYAQL 256
Cdd:COG0457    18 YRRLGRYEEAIEdyekaLELD------PDDAEALYNLGLAYLRLGRYEEALADYEQALELD--PDDAEALNNLGLALQAL 89

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1002253782 257 GMKEEVLALFDRARGSgwKPDHV-AFAVLAKMFGEAGDYDGIQFVFKEMREvgIKPN-IFVYNALLEALGKTGKPGLARN 334
Cdd:COG0457    90 GRYEEALEDYDKALEL--DPDDAeALYNLGLALLELGRYDEAIEAYERALE--LDPDdADALYNLGIALEKLGRYEEALE 165

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1002253782 335 LFEEMT-AEGVEPNARTLTALAKIYGRARWGRDALQLWEQMREKKLPADNILCNTLLSMCADVGLVGEAEQLFSE 408
Cdd:COG0457   166 LLEKLEaAALAALLAAALGEAALALAAAEVLLALLLALEQALRKKLAILTLAALAELLLLALALLLALRLAALAL 240
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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