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Conserved domains on  [gi|1811020197|ref|XP_032318437|]
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nuclear pore complex protein Nup153 isoform X1 [Camelus ferus]

Protein Classification

zinc finger Ran-binding domain-containing protein( domain architecture ID 13755470)

zinc finger Ran-binding domain-containing protein similar to Arabidopsis thaliana chloroplastic zinc finger protein VAR3, which is involved in C-to-U editing of chloroplastic RNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nup153 pfam08604
Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and ...
 114-631 0e+00

Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and Nup154 from fission yeast. These have been demonstrated to be functionally equivalent.


:

Pssm-ID: 462533 [Multi-domain]  Cd Length: 507  Bit Score: 680.84  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  114 PSTTSTASNYPDVLTRPSLHRSHLNFSMLESPALHSQPSTSSAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 193
Cdd:pfam08604    1 PSTSRSALNFQDVLTRPSLHRSHLNFTVLDSPALFCQPSTSTAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  194 DKDIAVSKNTSVPPLWSPEAERSHSLSQHTATSSKKPAFNLSAFGALSPSLGNSSILKTSQLGDSPFYPGKTTYGGaAAA 273
Cdd:pfam08604   81 DKDIPVSKTVSLPLLWSPEAERSHSLSQHSASSSKKPAFNLSAFGTLSPSLGNSSVLNTSQLGDSPFYPGKTTYGG-AAA 159

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  274 VRQPKLRNTSYQAPVRRQMKAKQLNVQSYGVTSSTARRILQSLEKMSSPLADAKRIPSVFSSPLNSPLDRSGIDTpTDFQ 353
Cdd:pfam08604  160 VRSSRVRGTPYQAPVRRQIKAKPANAQSYGVTSSTARRILQSLEKMSSPLADAKRIPSTVSSPLSSPLDRSDLDI-TNFQ 238

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  354 AKREKVDSQYPPVQRLMTPKPVSIATNRTVYFKPSLTPSGELRKTNQRIDKKHSTgYEKNVTPGKSRE-RESGLPYPNFS 432
Cdd:pfam08604  239 SKRKKVDSQYPPVQKLVTPKAISVSGNRSVYFKPSLTPSGQSNKTSRRVDKDHRE-TEVRQSPEQAVEpSESSLSYPKFS 317

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  433 MSAANGLSSGVGSGGGKMRRERTRFVASKP-QEEEEMEVPVLPKISLPITSSSLPTFSFSSSVITTSSPSSISPSQSLTN 511
Cdd:pfam08604  318 TPASNSLSSGGNGGGGKMRRERGRRPSSKPaEEDEVVEVPVLPKISLPISTASLPTFNFSSPTSSTSSSSPPSVTKSAEN 397

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  512 KVQMTSPNSTGSPLFRFSSPIVKSTEADVLPP-SSIGFTFSVPVAKTAELSGSSGISEPStsssvsfiikqITAQDITTV 590
Cdd:pfam08604  398 KAQKQPPSTSGSPAFTFSSPIVKSTEASVPPPsPSIGFTFSVPVAKTAELSGSSGTSVVS-----------VVSTETTTV 466

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|.
gi 1811020197  591 NSTSCKKKPDEDCEGPFTPAKTLKEGSVLDVLKSPGFTSPK 631
Cdd:pfam08604  467 NSTSNKKEEEEEFEGPFKPAKVLKQGSVLDILKSPGFASPK 507
Nup_retrotrp_bd pfam10599
Retro-transposon transporting motif; This is the highly conserved C-terminal motif ...
 1398-1484 8.08e-19

Retro-transposon transporting motif; This is the highly conserved C-terminal motif GRKIxxxxxRRKx of nucleoporins that plays a critical and unique role in the nuclear import of retro-transposons in both yeasts and higher organizms. It would appear that the arginine residues at positions 2 and 9-10 constitute a bipartite nuclear localization signal, with two basic peptide motifs separated by an interchangeable spacer sequence, that is crucial for the retro-transposon activity.


:

Pssm-ID: 371156  Cd Length: 86  Bit Score: 82.42  E-value: 8.08e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1398 PNSSSAFQFGSSTTSFNFTNNNPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFsssgtSVSGRKIK 1477
Cdd:pfam10599    5 PDPASVFGFGSSNTNFNFTNNNPSTPFGFGASPSTPQAANPPSAFTPPAFSQSPASFNVGSNGSNMF-----SVSGRKIA 79


                   ....*..
gi 1811020197 1478 TAVRRKK 1484
Cdd:pfam10599   80 QMRRRRR 86
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
733-761 6.95e-10

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 55.44  E-value: 6.95e-10
                           10        20
                   ....*....|....*....|....*....
gi 1811020197  733 AGTWDCDTCLVQNKPEAIKCVACETPKPG 761
Cdd:pfam00641    2 EGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
861-890 3.55e-09

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 53.12  E-value: 3.55e-09
                           10        20        30
                   ....*....|....*....|....*....|
gi 1811020197  861 PEGSWDCNVCLVENKADATKCVACESAKPG 890
Cdd:pfam00641    1 REGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
805-832 8.57e-09

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 52.35  E-value: 8.57e-09
                           10        20
                   ....*....|....*....|....*...
gi 1811020197  805 GSWECPVCCVSNNAEDNKCVSCMSEKPG 832
Cdd:pfam00641    3 GDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
671-697 1.23e-06

Zn-finger in Ran binding protein and others;


:

Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 46.19  E-value: 1.23e-06
                           10        20
                   ....*....|....*....|....*..
gi 1811020197  671 SWQCDTCLLQNKVTDDKCVACQATKLP 697
Cdd:pfam00641    4 DWDCSKCLVQNFATSTKCVACQAPKPD 30
PPE super family cl35037
PPE-repeat protein [Function unknown];
1270-1473 2.01e-06

PPE-repeat protein [Function unknown];


The actual alignment was detected with superfamily member COG5651:

Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 51.82  E-value: 2.01e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1270 ATTSSSGTAVTPF------IFGPGASSN--NTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAF---GANQTPTFGQ 1338
Cdd:COG5651    155 AAASAAAVALTPFtqppptITNPGGLLGaqNAGSGNTSSNPGFANLGLTGLNQVGIGGLNSGSGPIGlnsGPGNTGFAGT 234

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1339 SQGASQPNLpGFGSMSSSAALFSAGSQPAPPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSAFQFGSSTTSFNFTNN 1418
Cdd:COG5651    235 GAAAGAAAA-AAAAAAAAGAGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAG 313

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1811020197 1419 NPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFSSSGTSVSG 1473
Cdd:COG5651    314 GAAGAAGATGAGAALGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGG 368
 
Name Accession Description Interval E-value
Nup153 pfam08604
Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and ...
 114-631 0e+00

Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and Nup154 from fission yeast. These have been demonstrated to be functionally equivalent.


Pssm-ID: 462533 [Multi-domain]  Cd Length: 507  Bit Score: 680.84  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  114 PSTTSTASNYPDVLTRPSLHRSHLNFSMLESPALHSQPSTSSAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 193
Cdd:pfam08604    1 PSTSRSALNFQDVLTRPSLHRSHLNFTVLDSPALFCQPSTSTAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  194 DKDIAVSKNTSVPPLWSPEAERSHSLSQHTATSSKKPAFNLSAFGALSPSLGNSSILKTSQLGDSPFYPGKTTYGGaAAA 273
Cdd:pfam08604   81 DKDIPVSKTVSLPLLWSPEAERSHSLSQHSASSSKKPAFNLSAFGTLSPSLGNSSVLNTSQLGDSPFYPGKTTYGG-AAA 159

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  274 VRQPKLRNTSYQAPVRRQMKAKQLNVQSYGVTSSTARRILQSLEKMSSPLADAKRIPSVFSSPLNSPLDRSGIDTpTDFQ 353
Cdd:pfam08604  160 VRSSRVRGTPYQAPVRRQIKAKPANAQSYGVTSSTARRILQSLEKMSSPLADAKRIPSTVSSPLSSPLDRSDLDI-TNFQ 238

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  354 AKREKVDSQYPPVQRLMTPKPVSIATNRTVYFKPSLTPSGELRKTNQRIDKKHSTgYEKNVTPGKSRE-RESGLPYPNFS 432
Cdd:pfam08604  239 SKRKKVDSQYPPVQKLVTPKAISVSGNRSVYFKPSLTPSGQSNKTSRRVDKDHRE-TEVRQSPEQAVEpSESSLSYPKFS 317

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  433 MSAANGLSSGVGSGGGKMRRERTRFVASKP-QEEEEMEVPVLPKISLPITSSSLPTFSFSSSVITTSSPSSISPSQSLTN 511
Cdd:pfam08604  318 TPASNSLSSGGNGGGGKMRRERGRRPSSKPaEEDEVVEVPVLPKISLPISTASLPTFNFSSPTSSTSSSSPPSVTKSAEN 397

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  512 KVQMTSPNSTGSPLFRFSSPIVKSTEADVLPP-SSIGFTFSVPVAKTAELSGSSGISEPStsssvsfiikqITAQDITTV 590
Cdd:pfam08604  398 KAQKQPPSTSGSPAFTFSSPIVKSTEASVPPPsPSIGFTFSVPVAKTAELSGSSGTSVVS-----------VVSTETTTV 466

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|.
gi 1811020197  591 NSTSCKKKPDEDCEGPFTPAKTLKEGSVLDVLKSPGFTSPK 631
Cdd:pfam08604  467 NSTSNKKEEEEEFEGPFKPAKVLKQGSVLDILKSPGFASPK 507
Nup_retrotrp_bd pfam10599
Retro-transposon transporting motif; This is the highly conserved C-terminal motif ...
 1398-1484 8.08e-19

Retro-transposon transporting motif; This is the highly conserved C-terminal motif GRKIxxxxxRRKx of nucleoporins that plays a critical and unique role in the nuclear import of retro-transposons in both yeasts and higher organizms. It would appear that the arginine residues at positions 2 and 9-10 constitute a bipartite nuclear localization signal, with two basic peptide motifs separated by an interchangeable spacer sequence, that is crucial for the retro-transposon activity.


Pssm-ID: 371156  Cd Length: 86  Bit Score: 82.42  E-value: 8.08e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1398 PNSSSAFQFGSSTTSFNFTNNNPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFsssgtSVSGRKIK 1477
Cdd:pfam10599    5 PDPASVFGFGSSNTNFNFTNNNPSTPFGFGASPSTPQAANPPSAFTPPAFSQSPASFNVGSNGSNMF-----SVSGRKIA 79


                   ....*..
gi 1811020197 1478 TAVRRKK 1484
Cdd:pfam10599   80 QMRRRRR 86
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
733-761 6.95e-10

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 55.44  E-value: 6.95e-10
                           10        20
                   ....*....|....*....|....*....
gi 1811020197  733 AGTWDCDTCLVQNKPEAIKCVACETPKPG 761
Cdd:pfam00641    2 EGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
861-890 3.55e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 53.12  E-value: 3.55e-09
                           10        20        30
                   ....*....|....*....|....*....|
gi 1811020197  861 PEGSWDCNVCLVENKADATKCVACESAKPG 890
Cdd:pfam00641    1 REGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
805-832 8.57e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 52.35  E-value: 8.57e-09
                           10        20
                   ....*....|....*....|....*...
gi 1811020197  805 GSWECPVCCVSNNAEDNKCVSCMSEKPG 832
Cdd:pfam00641    3 GDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
671-697 1.23e-06

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 46.19  E-value: 1.23e-06
                           10        20
                   ....*....|....*....|....*..
gi 1811020197  671 SWQCDTCLLQNKVTDDKCVACQATKLP 697
Cdd:pfam00641    4 DWDCSKCLVQNFATSTKCVACQAPKPD 30
PPE COG5651
PPE-repeat protein [Function unknown];
1270-1473 2.01e-06

PPE-repeat protein [Function unknown];


Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 51.82  E-value: 2.01e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1270 ATTSSSGTAVTPF------IFGPGASSN--NTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAF---GANQTPTFGQ 1338
Cdd:COG5651    155 AAASAAAVALTPFtqppptITNPGGLLGaqNAGSGNTSSNPGFANLGLTGLNQVGIGGLNSGSGPIGlnsGPGNTGFAGT 234

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1339 SQGASQPNLpGFGSMSSSAALFSAGSQPAPPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSAFQFGSSTTSFNFTNN 1418
Cdd:COG5651    235 GAAAGAAAA-AAAAAAAAGAGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAG 313

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1811020197 1419 NPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFSSSGTSVSG 1473
Cdd:COG5651    314 GAAGAAGATGAGAALGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGG 368
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 734-758 3.95e-06

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 44.62  E-value: 3.95e-06
                            10        20
                    ....*....|....*....|....*
gi 1811020197   734 GTWDCDTCLVQNKPEAIKCVACETP 758
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGAP 25
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 863-885 1.40e-05

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 43.08  E-value: 1.40e-05
                            10        20
                    ....*....|....*....|...
gi 1811020197   863 GSWDCNVCLVENKADATKCVACE 885
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACG 23
ser_rich_anae_1 NF033849
serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 ...
 1222-1417 8.99e-05

serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 amino acids), which a highly serine-rich central region that averages over 300 aa in length. Species encoding members of this family of proteins tend to be anaerobic bacteria, including Gram-positive bacteria of the human gut microbiome and Chloroflexi from marine sediments.


Pssm-ID: 468206 [Multi-domain]  Cd Length: 1122  Bit Score: 47.31  E-value: 8.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1222 GSSTSTSSapvhAFVFGQASNPVSSSAFGNSAESSTSQSLLFSQ-ESKPATTSSSGTAVTPFIFGPGASSNNTATSGFNf 1300
Cdd:NF033849   316 GTSTTDSS----SHSQSSSYNVSSGTGVSSSHSDGTSQSTSISHsESSSESTGTSVGHSTSSSVSSSESSSRSSSSGVS- 390

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1301 gatttsssagsSFVFGTGPSAPSASPAFGANQ-------TPTFGQSQGASQPNLPGFGSMSSSAALFSAGSqpappTFGT 1373
Cdd:NF033849   391 -----------GGFSGGIAGGGVTSEGLGASQggsegwgSGDSVQSVSQSYGSSSSTGTSSGHSDSSSHST-----SSGQ 454

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 1811020197 1374 VSSSSQPPVFGQQPGQSAfGSGTApNSSSAFQFGSSTTSFNFTN 1417
Cdd:NF033849   455 ADSVSQGTSWSEGTGTSQ-GQSVG-TSESWSTSQSETDSVGDST 496
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 805-826 3.48e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 39.22  E-value: 3.48e-04
                            10        20
                    ....*....|....*....|..
gi 1811020197   805 GSWECPVCCVSNNAEDNKCVSC 826
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFAC 22
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 670-693 4.44e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 38.84  E-value: 4.44e-04
                            10        20
                    ....*....|....*....|....
gi 1811020197   670 SSWQCDTCLLQNKVTDDKCVACQA 693
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGA 24
KREPA2 cd23959
Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of ...
 1221-1439 8.17e-03

Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of the parasitic protozoan's KREPA RNA editing catalytic complex (RECC). Kinetoplastid RNA editing (KRE) proteins occur as pairs or sets of related proteins in multiple complexes. KREPA complex is composed of six components (KREPA1-6), which share a conserved C-terminal region containing an oligonucleotide-binding (OB)-fold-like domain. KREPAs are responsible for the site-specific insertion and deletion of U nucleotides in the kinetoplastid mitochondria pre-messenger RNA. Apart from the conserved C-terminal OB-fold domain, KREPA1, KREPA2, and KREPA3 contain two conserved C2H2 zinc-finger domains. KREPA2 and kinetoplastid RNA editing ligase 1 (KREL1) are specific for ligation post-U-deletion and are paralogous to KREL2 and KREPA1 that are specific for ligation post-U-insertion. KREPA2, is critical for RECC stability and KREL1 integration into the complex.


Pssm-ID: 467780 [Multi-domain]  Cd Length: 424  Bit Score: 40.62  E-value: 8.17e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1221 FGSSTSTSSAPVHAFVFGQASNPVSSSAFGNSAESSTSQ-------SLLFSQESKPATTSSSGTavtpfiFGPGASSNNT 1293
Cdd:cd23959     46 FAARPSDQEEPLYGAVSPEGENPFDGPGLVTASTVSDCYvgnanfyEVDMSDAFAMAPDESLGP------FRAARVPNPF 119

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1294 ATSGFNFGATTTSSSAGSSFVfgtgpsAPSASPAFGANQTPTFGQSQGASQPNLPgfgSMSSSAALFSAGSQPAPPTFGT 1373
Cdd:cd23959    120 SASSSTQRETHKTAQVAPPKA------EPQTAPVTPFGQLPMFGQHPPPAKPLPA---AAAAQQSSASPGEVASPFASGT 190

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1811020197 1374 VSSSSQPPvfgqqPGQSAFGSGTAPNSSSAFQFGSSTTSfnftnnnPSGVFTFGANPSTPAASAQP 1439
Cdd:cd23959    191 VSASPFAT-----ATDTAPSSGAPDGFPAEASAPSPFAA-------PASAASFPAAPVANGEAATP 244
 
Name Accession Description Interval E-value
Nup153 pfam08604
Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and ...
 114-631 0e+00

Nucleoporin Nup153-like; This family contains both the nucleoporin Nup153 from human and Nup154 from fission yeast. These have been demonstrated to be functionally equivalent.


Pssm-ID: 462533 [Multi-domain]  Cd Length: 507  Bit Score: 680.84  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  114 PSTTSTASNYPDVLTRPSLHRSHLNFSMLESPALHSQPSTSSAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 193
Cdd:pfam08604    1 PSTSRSALNFQDVLTRPSLHRSHLNFTVLDSPALFCQPSTSTAFPIGSSGFSLVKEIKDSTSQHDDDNISTTSGFSSRAS 80

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  194 DKDIAVSKNTSVPPLWSPEAERSHSLSQHTATSSKKPAFNLSAFGALSPSLGNSSILKTSQLGDSPFYPGKTTYGGaAAA 273
Cdd:pfam08604   81 DKDIPVSKTVSLPLLWSPEAERSHSLSQHSASSSKKPAFNLSAFGTLSPSLGNSSVLNTSQLGDSPFYPGKTTYGG-AAA 159

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  274 VRQPKLRNTSYQAPVRRQMKAKQLNVQSYGVTSSTARRILQSLEKMSSPLADAKRIPSVFSSPLNSPLDRSGIDTpTDFQ 353
Cdd:pfam08604  160 VRSSRVRGTPYQAPVRRQIKAKPANAQSYGVTSSTARRILQSLEKMSSPLADAKRIPSTVSSPLSSPLDRSDLDI-TNFQ 238

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  354 AKREKVDSQYPPVQRLMTPKPVSIATNRTVYFKPSLTPSGELRKTNQRIDKKHSTgYEKNVTPGKSRE-RESGLPYPNFS 432
Cdd:pfam08604  239 SKRKKVDSQYPPVQKLVTPKAISVSGNRSVYFKPSLTPSGQSNKTSRRVDKDHRE-TEVRQSPEQAVEpSESSLSYPKFS 317

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  433 MSAANGLSSGVGSGGGKMRRERTRFVASKP-QEEEEMEVPVLPKISLPITSSSLPTFSFSSSVITTSSPSSISPSQSLTN 511
Cdd:pfam08604  318 TPASNSLSSGGNGGGGKMRRERGRRPSSKPaEEDEVVEVPVLPKISLPISTASLPTFNFSSPTSSTSSSSPPSVTKSAEN 397

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197  512 KVQMTSPNSTGSPLFRFSSPIVKSTEADVLPP-SSIGFTFSVPVAKTAELSGSSGISEPStsssvsfiikqITAQDITTV 590
Cdd:pfam08604  398 KAQKQPPSTSGSPAFTFSSPIVKSTEASVPPPsPSIGFTFSVPVAKTAELSGSSGTSVVS-----------VVSTETTTV 466

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|.
gi 1811020197  591 NSTSCKKKPDEDCEGPFTPAKTLKEGSVLDVLKSPGFTSPK 631
Cdd:pfam08604  467 NSTSNKKEEEEEFEGPFKPAKVLKQGSVLDILKSPGFASPK 507
Nup_retrotrp_bd pfam10599
Retro-transposon transporting motif; This is the highly conserved C-terminal motif ...
 1398-1484 8.08e-19

Retro-transposon transporting motif; This is the highly conserved C-terminal motif GRKIxxxxxRRKx of nucleoporins that plays a critical and unique role in the nuclear import of retro-transposons in both yeasts and higher organizms. It would appear that the arginine residues at positions 2 and 9-10 constitute a bipartite nuclear localization signal, with two basic peptide motifs separated by an interchangeable spacer sequence, that is crucial for the retro-transposon activity.


Pssm-ID: 371156  Cd Length: 86  Bit Score: 82.42  E-value: 8.08e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1398 PNSSSAFQFGSSTTSFNFTNNNPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFsssgtSVSGRKIK 1477
Cdd:pfam10599    5 PDPASVFGFGSSNTNFNFTNNNPSTPFGFGASPSTPQAANPPSAFTPPAFSQSPASFNVGSNGSNMF-----SVSGRKIA 79


                   ....*..
gi 1811020197 1478 TAVRRKK 1484
Cdd:pfam10599   80 QMRRRRR 86
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
733-761 6.95e-10

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 55.44  E-value: 6.95e-10
                           10        20
                   ....*....|....*....|....*....
gi 1811020197  733 AGTWDCDTCLVQNKPEAIKCVACETPKPG 761
Cdd:pfam00641    2 EGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
861-890 3.55e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 53.12  E-value: 3.55e-09
                           10        20        30
                   ....*....|....*....|....*....|
gi 1811020197  861 PEGSWDCNVCLVENKADATKCVACESAKPG 890
Cdd:pfam00641    1 REGDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
805-832 8.57e-09

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 52.35  E-value: 8.57e-09
                           10        20
                   ....*....|....*....|....*...
gi 1811020197  805 GSWECPVCCVSNNAEDNKCVSCMSEKPG 832
Cdd:pfam00641    3 GDWDCSKCLVQNFATSTKCVACQAPKPD 30
zf-RanBP pfam00641
Zn-finger in Ran binding protein and others;
671-697 1.23e-06

Zn-finger in Ran binding protein and others;


Pssm-ID: 395516 [Multi-domain]  Cd Length: 30  Bit Score: 46.19  E-value: 1.23e-06
                           10        20
                   ....*....|....*....|....*..
gi 1811020197  671 SWQCDTCLLQNKVTDDKCVACQATKLP 697
Cdd:pfam00641    4 DWDCSKCLVQNFATSTKCVACQAPKPD 30
PPE COG5651
PPE-repeat protein [Function unknown];
1270-1473 2.01e-06

PPE-repeat protein [Function unknown];


Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 51.82  E-value: 2.01e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1270 ATTSSSGTAVTPF------IFGPGASSN--NTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAF---GANQTPTFGQ 1338
Cdd:COG5651    155 AAASAAAVALTPFtqppptITNPGGLLGaqNAGSGNTSSNPGFANLGLTGLNQVGIGGLNSGSGPIGlnsGPGNTGFAGT 234

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1339 SQGASQPNLpGFGSMSSSAALFSAGSQPAPPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSAFQFGSSTTSFNFTNN 1418
Cdd:COG5651    235 GAAAGAAAA-AAAAAAAAGAGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAG 313

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*
gi 1811020197 1419 NPSGVFTFGANPSTPAASAQPSGSGGFPFNPSPAVFTVGSNGKNVFSSSGTSVSG 1473
Cdd:COG5651    314 GAAGAAGATGAGAALGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGG 368
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 734-758 3.95e-06

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 44.62  E-value: 3.95e-06
                            10        20
                    ....*....|....*....|....*
gi 1811020197   734 GTWDCDTCLVQNKPEAIKCVACETP 758
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGAP 25
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 863-885 1.40e-05

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 43.08  E-value: 1.40e-05
                            10        20
                    ....*....|....*....|...
gi 1811020197   863 GSWDCNVCLVENKADATKCVACE 885
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACG 23
PPE COG5651
PPE-repeat protein [Function unknown];
1174-1378 8.95e-05

PPE-repeat protein [Function unknown];


Pssm-ID: 444372 [Multi-domain]  Cd Length: 385  Bit Score: 46.81  E-value: 8.95e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1174 QPAKPSFAFGAQTSTTADQ------------GPAKPVFSFLNNNSSNSSTPATSASGGLFGSSTSTSSAPVHAFVFGQAS 1241
Cdd:COG5651    173 TITNPGGLLGAQNAGSGNTssnpgfanlgltGLNQVGIGGLNSGSGPIGLNSGPGNTGFAGTGAAAGAAAAAAAAAAAAG 252

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1242 NPVSSSAFGNSAESSTSQSLLFSQESKPATTSSSGTAVTPFIFGPGASSNNTATSGFNFGATTTSSSAgssfvFGTGPSA 1321
Cdd:COG5651    253 AGASAALASLAATLLNASSLGLAATAASSAATNLGLAGSPLGLAGGGAGAAAATGLGLGAGGAAGAAG-----ATGAGAA 327

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 1811020197 1322 PSASPAFGANQTPTFGQSQGASQPNLPGFGSMSSSAALFSAGSQPAPPTFGTVSSSS 1378
Cdd:COG5651    328 LGAGAAAAAAGAAAGAGAAAAAAAGGAGGGGGGALGAGGGGGSAGAAAGAASGGGAA 384
ser_rich_anae_1 NF033849
serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 ...
 1222-1417 8.99e-05

serine-rich protein; This serine-rich protein belongs to a family with large size (over 1000 amino acids), which a highly serine-rich central region that averages over 300 aa in length. Species encoding members of this family of proteins tend to be anaerobic bacteria, including Gram-positive bacteria of the human gut microbiome and Chloroflexi from marine sediments.


Pssm-ID: 468206 [Multi-domain]  Cd Length: 1122  Bit Score: 47.31  E-value: 8.99e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1222 GSSTSTSSapvhAFVFGQASNPVSSSAFGNSAESSTSQSLLFSQ-ESKPATTSSSGTAVTPFIFGPGASSNNTATSGFNf 1300
Cdd:NF033849   316 GTSTTDSS----SHSQSSSYNVSSGTGVSSSHSDGTSQSTSISHsESSSESTGTSVGHSTSSSVSSSESSSRSSSSGVS- 390

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1301 gatttsssagsSFVFGTGPSAPSASPAFGANQ-------TPTFGQSQGASQPNLPGFGSMSSSAALFSAGSqpappTFGT 1373
Cdd:NF033849   391 -----------GGFSGGIAGGGVTSEGLGASQggsegwgSGDSVQSVSQSYGSSSSTGTSSGHSDSSSHST-----SSGQ 454

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....
gi 1811020197 1374 VSSSSQPPVFGQQPGQSAfGSGTApNSSSAFQFGSSTTSFNFTN 1417
Cdd:NF033849   455 ADSVSQGTSWSEGTGTSQ-GQSVG-TSESWSTSQSETDSVGDST 496
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 805-826 3.48e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 39.22  E-value: 3.48e-04
                            10        20
                    ....*....|....*....|..
gi 1811020197   805 GSWECPVCCVSNNAEDNKCVSC 826
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFAC 22
ZnF_RBZ smart00547
Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. ...
 670-693 4.44e-04

Zinc finger domain; Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.


Pssm-ID: 197784 [Multi-domain]  Cd Length: 25  Bit Score: 38.84  E-value: 4.44e-04
                            10        20
                    ....*....|....*....|....
gi 1811020197   670 SSWQCDTCLLQNKVTDDKCVACQA 693
Cdd:smart00547    1 GDWECPACTFLNFASRSKCFACGA 24
Chi1 COG3469
Chitinase [Carbohydrate transport and metabolism];
1211-1425 6.51e-04

Chitinase [Carbohydrate transport and metabolism];


Pssm-ID: 442692 [Multi-domain]  Cd Length: 534  Bit Score: 43.97  E-value: 6.51e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1211 TPATSASGGLFGSSTSTSSAPVHAFVFGQASNPVSSSAFGNSAESSTsqsllfsqeskpATTSSSGTAVTPFIFGPGASS 1290
Cdd:COG3469     18 TAVTLLGAAATAASVTLTAATATTVVSTTGSVVVAASGSAGSGTGTT------------AASSTAATSSTTSTTATATAA 85

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1291 NNTATSGFNFGATTTSSSAGSSFVFGTGPSAPSASPAFGANQTPTFGQSQGASQPNLPGFGSM---SSSAALFSAGSQPA 1367
Cdd:COG3469     86 AAAATSTSATLVATSTASGANTGTSTVTTTSTGAGSVTSTTSSTAGSTTTSGASATSSAGSTTtttTVSGTETATGGTTT 165

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1811020197 1368 PPTFGTVSSSSQPPVFGQQPGQSAFGSGTAPNSSSafqfgSSTTSFNFTNNNPSGVFT 1425
Cdd:COG3469    166 TSTTTTTTSASTTPSATTTATATTASGATTPSATT-----TATTTGPPTPGLPKHVLV 218
KREPA2 cd23959
Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of ...
 1221-1439 8.17e-03

Kinetoplastid RNA Editing Protein A2 (KREPA2); The KREPA2 (TbMP63) protein is a component of the parasitic protozoan's KREPA RNA editing catalytic complex (RECC). Kinetoplastid RNA editing (KRE) proteins occur as pairs or sets of related proteins in multiple complexes. KREPA complex is composed of six components (KREPA1-6), which share a conserved C-terminal region containing an oligonucleotide-binding (OB)-fold-like domain. KREPAs are responsible for the site-specific insertion and deletion of U nucleotides in the kinetoplastid mitochondria pre-messenger RNA. Apart from the conserved C-terminal OB-fold domain, KREPA1, KREPA2, and KREPA3 contain two conserved C2H2 zinc-finger domains. KREPA2 and kinetoplastid RNA editing ligase 1 (KREL1) are specific for ligation post-U-deletion and are paralogous to KREL2 and KREPA1 that are specific for ligation post-U-insertion. KREPA2, is critical for RECC stability and KREL1 integration into the complex.


Pssm-ID: 467780 [Multi-domain]  Cd Length: 424  Bit Score: 40.62  E-value: 8.17e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1221 FGSSTSTSSAPVHAFVFGQASNPVSSSAFGNSAESSTSQ-------SLLFSQESKPATTSSSGTavtpfiFGPGASSNNT 1293
Cdd:cd23959     46 FAARPSDQEEPLYGAVSPEGENPFDGPGLVTASTVSDCYvgnanfyEVDMSDAFAMAPDESLGP------FRAARVPNPF 119

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1811020197 1294 ATSGFNFGATTTSSSAGSSFVfgtgpsAPSASPAFGANQTPTFGQSQGASQPNLPgfgSMSSSAALFSAGSQPAPPTFGT 1373
Cdd:cd23959    120 SASSSTQRETHKTAQVAPPKA------EPQTAPVTPFGQLPMFGQHPPPAKPLPA---AAAAQQSSASPGEVASPFASGT 190

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1811020197 1374 VSSSSQPPvfgqqPGQSAFGSGTAPNSSSAFQFGSSTTSfnftnnnPSGVFTFGANPSTPAASAQP 1439
Cdd:cd23959    191 VSASPFAT-----ATDTAPSSGAPDGFPAEASAPSPFAA-------PASAASFPAAPVANGEAATP 244
 
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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