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Conserved domains on  [gi|528504363|ref|XP_005158406|]
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CCR4-NOT transcription complex subunit 3 isoform X2 [Danio rerio]

Protein Classification

CNOT2/3/5 family protein( domain architecture ID 10513407)

CNOT2/3/5 family protein is a component of the CCR4-NOT complex which is one of the major cellular mRNA deadenylases and is linked to various cellular processes including bulk mRNA degradation, miRNA-mediated repression, translational repression during translational initiation and general transcription regulation

Gene Ontology:  GO:0006355|GO:0030014
PubMed:  38009591|32299921|33138308|22027279|28271483

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Not3 pfam04065
Not1 N-terminal domain, CCR4-Not complex component;
3-229 1.67e-141

Not1 N-terminal domain, CCR4-Not complex component;


:

Pssm-ID: 461155 [Multi-domain]  Cd Length: 228  Bit Score: 419.26  E-value: 1.67e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHNAANANQKEKYEADLKKEIKKLQRLRDQIKTWVASNEIKDKRQLVENRK 82
Cdd:pfam04065   1 AARKLQQEIDRTLKKVAEGLEEFDDIYEKLESATNSSQKEKLEADLKKEIKKLQRLRDQIKTWLSSNDIKDKKKLLENRK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   83 LIETQMERFKVVERETKTKAYSKEGLGLAQ--KVDPAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDK 160
Cdd:pfam04065  81 LIEEAMERFKAVEKESKTKAFSKEGLSLAAasKLDPKEKEKAEARDWLSDSIDELNRQIEALEAEIESLQAQKKKKKKDS 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 528504363  161 EKQdRIEELKRLIERHRYHIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEENEFLYDDL 229
Cdd:pfam04065 161 EKA-RLEELEKLIERHKFHIEKLELILRLLENGELDPEQVDDIKEDIEYYVESNQDPDFVEDEDIYDDL 228
NOT2_3_5 pfam04153
NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that ...
 768-893 5.22e-56

NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.


:

Pssm-ID: 461199  Cd Length: 121  Bit Score: 188.58  E-value: 5.22e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  768 AAWTHMPHPSDSERIRQYLMRNPCPTPpfhhQMPPHHSDSIEFYQRLSTETLFFIFYYLEGTKAQYLSAKALKKQSWRFH 847
Cdd:pfam04153   1 YSTFNSPWPLDAERPYEPDFRNPACYP----QEPLPRLESPEKFSKFDDETLFYIFYSMPGDYAQYLAAKELKKRSWRYH 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 528504363  848 TKYMMWFQRHEEPKTITDEFEQGTYIYFDYeKWGQRKKEGFTFEYR 893
Cdd:pfam04153  77 KKLRTWFTRDEEPKVITNEYERGTYIYFDY-TWEQRRKKDFTLDYE 121
Atrophin-1 super family cl38111
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 632-807 8.72e-04

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


The actual alignment was detected with superfamily member pfam03154:

Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 43.22  E-value: 8.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  632 QTLDNGPSLLSSITLPPSTPSPAFTDSTPGGGSllnGPHSYTPNTEAIKAPePPSSLKAMAERAALGLALDGEIPSLHLT 711
Cdd:pfam03154 165 QILQTQPPVLQAQSGAASPPSPPPPGTTQAATA---GPTPSAPSVPPQGSP-ATSQPPNQTQSTAAPHTLIQQTPTLHPQ 240

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  712 DRDSlelfSGSSAPPGPTTAPQPAVSEVSLPPSL--GACPLGPTPLtkeqlyqqamqEAAWTHMPHPSDSERIRQYLMRN 789
Cdd:pfam03154 241 RLPS----PHPPLQPMTQPPPPSQVSPQPLPQPSlhGQMPPMPHSL-----------QTGPSHMQHPVPPQPFPLTPQSS 305

                         170
                  ....*....|....*...
gi 528504363  790 PCPTPPFHHQMPPHHSDS 807
Cdd:pfam03154 306 QSQVPPGPSPAAPGQSQQ 323
 
Name Accession Description Interval E-value
Not3 pfam04065
Not1 N-terminal domain, CCR4-Not complex component;
3-229 1.67e-141

Not1 N-terminal domain, CCR4-Not complex component;


Pssm-ID: 461155 [Multi-domain]  Cd Length: 228  Bit Score: 419.26  E-value: 1.67e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHNAANANQKEKYEADLKKEIKKLQRLRDQIKTWVASNEIKDKRQLVENRK 82
Cdd:pfam04065   1 AARKLQQEIDRTLKKVAEGLEEFDDIYEKLESATNSSQKEKLEADLKKEIKKLQRLRDQIKTWLSSNDIKDKKKLLENRK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   83 LIETQMERFKVVERETKTKAYSKEGLGLAQ--KVDPAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDK 160
Cdd:pfam04065  81 LIEEAMERFKAVEKESKTKAFSKEGLSLAAasKLDPKEKEKAEARDWLSDSIDELNRQIEALEAEIESLQAQKKKKKKDS 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 528504363  161 EKQdRIEELKRLIERHRYHIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEENEFLYDDL 229
Cdd:pfam04065 161 EKA-RLEELEKLIERHKFHIEKLELILRLLENGELDPEQVDDIKEDIEYYVESNQDPDFVEDEDIYDDL 228
NOT2_3_5 pfam04153
NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that ...
 768-893 5.22e-56

NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.


Pssm-ID: 461199  Cd Length: 121  Bit Score: 188.58  E-value: 5.22e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  768 AAWTHMPHPSDSERIRQYLMRNPCPTPpfhhQMPPHHSDSIEFYQRLSTETLFFIFYYLEGTKAQYLSAKALKKQSWRFH 847
Cdd:pfam04153   1 YSTFNSPWPLDAERPYEPDFRNPACYP----QEPLPRLESPEKFSKFDDETLFYIFYSMPGDYAQYLAAKELKKRSWRYH 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 528504363  848 TKYMMWFQRHEEPKTITDEFEQGTYIYFDYeKWGQRKKEGFTFEYR 893
Cdd:pfam04153  77 KKLRTWFTRDEEPKVITNEYERGTYIYFDY-TWEQRRKKDFTLDYE 121
CDC36 COG5601
General negative regulator of transcription subunit [Transcription];
814-896 6.59e-14

General negative regulator of transcription subunit [Transcription];


Pssm-ID: 227888  Cd Length: 172  Bit Score: 70.78  E-value: 6.59e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363 814 LSTETLFFIFYYLEGTKAQYLSAKALKKQSWRFHTKYMMW--FQRHEEPKTITDEFEQGTYIYFDYEKWGQRKKEgFTFE 891
Cdd:COG5601   89 FHDETLFYIFYSFPNDVLQEKAYDELLKRNWRFHKMLKCWltFNPGMSPATADHVKERGSYVFFDPFSWSKVSLD-FLLD 167


                 ....*
gi 528504363 892 YRYLE 896
Cdd:COG5601  168 YKAVR 172
Mplasa_alph_rch TIGR04523
helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of ...
 3-170 7.06e-07

helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of Mycoplasma species. Members average 750 amino acids in length, including signal peptide. Sequences are predicted (Jpred 3) to be almost entirely alpha-helical. These sequences show strong periodicity (consistent with long alpha helical structures) and low complexity rich in D,E,N,Q, and K. Genes encoding these proteins are often found in tandem. The function is unknown.


Pssm-ID: 275316 [Multi-domain]  Cd Length: 745  Bit Score: 53.10  E-value: 7.06e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIwkklhnaananqkEKYEADLKKEIKKLQRLRDQIKTWVA--SNEIKD-KRQLVE 79
Cdd:TIGR04523 420 EKELLEKEIERLKETIIKNNSEIKDL-------------TNQDSVKELIIKNLDNTRESLETQLKvlSRSINKiKQNLEQ 486

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   80 NRKLIETQMERFKVVERETKTkayskeglgLAQKVD---PAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRK- 155
Cdd:TIGR04523 487 KQKELKSKEKELKKLNEEKKE---------LEEKVKdltKKISSLKEKIEKLESEKKEKESKISDLEDELNKDDFELKKe 557

                         170
                  ....*....|....*..
gi 528504363  156 --KKGDKEKQDRIEELK 170
Cdd:TIGR04523 558 nlEKEIDEKNKEIEELK 574
COG4372 COG4372
Uncharacterized protein, contains DUF3084 domain [Function unknown];
16-238 4.94e-05

Uncharacterized protein, contains DUF3084 domain [Function unknown];


Pssm-ID: 443500 [Multi-domain]  Cd Length: 370  Bit Score: 46.43  E-value: 4.94e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  16 KKVAEGVEQFEDIWKKLHNAAN-----ANQKEKYEADLKKEIKKLQRLRDQIKtwvasneiKDKRQLVENRKLIETQMER 90
Cdd:COG4372   31 EQLRKALFELDKLQEELEQLREeleqaREELEQLEEELEQARSELEQLEEELE--------ELNEQLQAAQAELAQAQEE 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  91 FKVVERETKTkayskeglgLAQKVDPAQKEK---EETEQWLTNTIDTLNMQVDQFESEVESLSVQTrkkkgdKEKQDRIE 167
Cdd:COG4372  103 LESLQEEAEE---------LQEELEELQKERqdlEQQRKQLEAQIAELQSEIAEREEELKELEEQL------ESLQEELA 167

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 528504363 168 ELKRliERHRYHIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEENEFLYDDLDLEDIPATL 238
Cdd:COG4372  168 ALEQ--ELQALSEAEAEQALDELLKEANRNAEKEEELAEAEKLIESLPRELAEELLEAKDSLEAKLGLALS 236
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
4-209 1.93e-04

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 45.44  E-value: 1.93e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   4 KRKLQGEIDRCLKKVAEgveqFEDIWKKLHnaanaNQKEKYEADLKKE--IKKLQRLRDQIKTWVASNEIKDKRQLVENR 81
Cdd:PRK03918 454 LEEYTAELKRIEKELKE----IEEKERKLR-----KELRELEKVLKKEseLIKLKELAEQLKELEEKLKKYNLEELEKKA 524

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  82 KLIETQMERF-------KVVERE-TKTKAYSKEGLGLAQKVDPAQKEKEEteqwLTNTIDTLNMQ-VDQFESEVESLSVQ 152
Cdd:PRK03918 525 EEYEKLKEKLiklkgeiKSLKKElEKLEELKKKLAELEKKLDELEEELAE----LLKELEELGFEsVEELEERLKELEPF 600

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 528504363 153 TRK----KKGDKEKQDRIEELKRL---IERHRYHIRMLETILRMLDNdsiQVDAIHKIKDDVEY 209
Cdd:PRK03918 601 YNEylelKDAEKELEREEKELKKLeeeLDKAFEELAETEKRLEELRK---ELEELEKKYSEEEY 661
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 632-807 8.72e-04

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 43.22  E-value: 8.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  632 QTLDNGPSLLSSITLPPSTPSPAFTDSTPGGGSllnGPHSYTPNTEAIKAPePPSSLKAMAERAALGLALDGEIPSLHLT 711
Cdd:pfam03154 165 QILQTQPPVLQAQSGAASPPSPPPPGTTQAATA---GPTPSAPSVPPQGSP-ATSQPPNQTQSTAAPHTLIQQTPTLHPQ 240

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  712 DRDSlelfSGSSAPPGPTTAPQPAVSEVSLPPSL--GACPLGPTPLtkeqlyqqamqEAAWTHMPHPSDSERIRQYLMRN 789
Cdd:pfam03154 241 RLPS----PHPPLQPMTQPPPPSQVSPQPLPQPSlhGQMPPMPHSL-----------QTGPSHMQHPVPPQPFPLTPQSS 305

                         170
                  ....*....|....*...
gi 528504363  790 PCPTPPFHHQMPPHHSDS 807
Cdd:pfam03154 306 QSQVPPGPSPAAPGQSQQ 323
PHA03247 PHA03247
large tegument protein UL36; Provisional
 538-816 3.02e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.46  E-value: 3.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  538 QSALQGSTQVPVSPVGTAPGGGTGESGLGGNGSSSGVSGGVGTNVAPARPPSGLKQNGATSYSAVVADNTPDSSLSSASQ 617
Cdd:PHA03247 2726 AAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPA 2805

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  618 SQNSHSSssssstnqtldnGPSLLSSITLPPSTPSPAFTDSTPGGGSLLNGPHSYTPNTEAIKAPEPPSSLKAMAERAAL 697
Cdd:PHA03247 2806 DPPAAVL------------APAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAA 2873

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  698 GLALDGEIPSLHLTD-------------RDSLELFSGSSAPPGPTTAPQPAVSEVSLP----PSLGACPLGPTPLTKEQL 760
Cdd:PHA03247 2874 KPAAPARPPVRRLARpavsrstesfalpPDQPERPPQPQAPPPPQPQPQPPPPPQPQPppppPPRPQPPLAPTTDPAGAG 2953

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 528504363  761 YQQAMQEAAWTHMPHPSDSERIRQylmRNPCPTPPFHHQMPPHHSDSIEFYQRLST 816
Cdd:PHA03247 2954 EPSGAVPQPWLGALVPGRVAVPRF---RVPQPAPSREAPASSTPPLTGHSLSRVSS 3006
 
Name Accession Description Interval E-value
Not3 pfam04065
Not1 N-terminal domain, CCR4-Not complex component;
3-229 1.67e-141

Not1 N-terminal domain, CCR4-Not complex component;


Pssm-ID: 461155 [Multi-domain]  Cd Length: 228  Bit Score: 419.26  E-value: 1.67e-141
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHNAANANQKEKYEADLKKEIKKLQRLRDQIKTWVASNEIKDKRQLVENRK 82
Cdd:pfam04065   1 AARKLQQEIDRTLKKVAEGLEEFDDIYEKLESATNSSQKEKLEADLKKEIKKLQRLRDQIKTWLSSNDIKDKKKLLENRK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   83 LIETQMERFKVVERETKTKAYSKEGLGLAQ--KVDPAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDK 160
Cdd:pfam04065  81 LIEEAMERFKAVEKESKTKAFSKEGLSLAAasKLDPKEKEKAEARDWLSDSIDELNRQIEALEAEIESLQAQKKKKKKDS 160

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 528504363  161 EKQdRIEELKRLIERHRYHIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEENEFLYDDL 229
Cdd:pfam04065 161 EKA-RLEELEKLIERHKFHIEKLELILRLLENGELDPEQVDDIKEDIEYYVESNQDPDFVEDEDIYDDL 228
NOT2_3_5 pfam04153
NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that ...
 768-893 5.22e-56

NOT2 / NOT3 / NOT5 family; NOT1, NOT2, NOT3, NOT4 and NOT5 form a nuclear complex that negatively regulates the basal and activated transcription of many genes. This family includes NOT2, NOT3 and NOT5.


Pssm-ID: 461199  Cd Length: 121  Bit Score: 188.58  E-value: 5.22e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  768 AAWTHMPHPSDSERIRQYLMRNPCPTPpfhhQMPPHHSDSIEFYQRLSTETLFFIFYYLEGTKAQYLSAKALKKQSWRFH 847
Cdd:pfam04153   1 YSTFNSPWPLDAERPYEPDFRNPACYP----QEPLPRLESPEKFSKFDDETLFYIFYSMPGDYAQYLAAKELKKRSWRYH 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 528504363  848 TKYMMWFQRHEEPKTITDEFEQGTYIYFDYeKWGQRKKEGFTFEYR 893
Cdd:pfam04153  77 KKLRTWFTRDEEPKVITNEYERGTYIYFDY-TWEQRRKKDFTLDYE 121
CDC36 COG5601
General negative regulator of transcription subunit [Transcription];
814-896 6.59e-14

General negative regulator of transcription subunit [Transcription];


Pssm-ID: 227888  Cd Length: 172  Bit Score: 70.78  E-value: 6.59e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363 814 LSTETLFFIFYYLEGTKAQYLSAKALKKQSWRFHTKYMMW--FQRHEEPKTITDEFEQGTYIYFDYEKWGQRKKEgFTFE 891
Cdd:COG5601   89 FHDETLFYIFYSFPNDVLQEKAYDELLKRNWRFHKMLKCWltFNPGMSPATADHVKERGSYVFFDPFSWSKVSLD-FLLD 167


                 ....*
gi 528504363 892 YRYLE 896
Cdd:COG5601  168 YKAVR 172
Mplasa_alph_rch TIGR04523
helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of ...
 3-170 7.06e-07

helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of Mycoplasma species. Members average 750 amino acids in length, including signal peptide. Sequences are predicted (Jpred 3) to be almost entirely alpha-helical. These sequences show strong periodicity (consistent with long alpha helical structures) and low complexity rich in D,E,N,Q, and K. Genes encoding these proteins are often found in tandem. The function is unknown.


Pssm-ID: 275316 [Multi-domain]  Cd Length: 745  Bit Score: 53.10  E-value: 7.06e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIwkklhnaananqkEKYEADLKKEIKKLQRLRDQIKTWVA--SNEIKD-KRQLVE 79
Cdd:TIGR04523 420 EKELLEKEIERLKETIIKNNSEIKDL-------------TNQDSVKELIIKNLDNTRESLETQLKvlSRSINKiKQNLEQ 486

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   80 NRKLIETQMERFKVVERETKTkayskeglgLAQKVD---PAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRK- 155
Cdd:TIGR04523 487 KQKELKSKEKELKKLNEEKKE---------LEEKVKdltKKISSLKEKIEKLESEKKEKESKISDLEDELNKDDFELKKe 557

                         170
                  ....*....|....*..
gi 528504363  156 --KKGDKEKQDRIEELK 170
Cdd:TIGR04523 558 nlEKEIDEKNKEIEELK 574
Mplasa_alph_rch TIGR04523
helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of ...
 3-213 2.89e-05

helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of Mycoplasma species. Members average 750 amino acids in length, including signal peptide. Sequences are predicted (Jpred 3) to be almost entirely alpha-helical. These sequences show strong periodicity (consistent with long alpha helical structures) and low complexity rich in D,E,N,Q, and K. Genes encoding these proteins are often found in tandem. The function is unknown.


Pssm-ID: 275316 [Multi-domain]  Cd Length: 745  Bit Score: 47.71  E-value: 2.89e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKL---QGEIDRCLKKVAEGVEQFEDIWKKLHNAANanQKEK-YEADLKKEIKKLQRLRDQIKTwvasneikdkrQLV 78
Cdd:TIGR04523 265 IKKQLsekQKELEQNNKKIKELEKQLNQLKSEISDLNN--QKEQdWNKELKSELKNQEKKLEEIQN-----------QIS 331

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   79 ENRKLIETQMERFKVVERETKTKAYSKEGLG--LAQKVDPAQKEKEETEQW------LTNTIDTLNMQVDQFESEVESLS 150
Cdd:TIGR04523 332 QNNKIISQLNEQISQLKKELTNSESENSEKQreLEEKQNEIEKLKKENQSYkqeiknLESQINDLESKIQNQEKLNQQKD 411

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 528504363  151 VQTRKKKGDKE-KQDRIEELKRLIERHRYHIRMLETILRMLDndsIQVDAIHKIKDDVEYYIDS 213
Cdd:TIGR04523 412 EQIKKLQQEKElLEKEIERLKETIIKNNSEIKDLTNQDSVKE---LIIKNLDNTRESLETQLKV 472
COG4372 COG4372
Uncharacterized protein, contains DUF3084 domain [Function unknown];
16-238 4.94e-05

Uncharacterized protein, contains DUF3084 domain [Function unknown];


Pssm-ID: 443500 [Multi-domain]  Cd Length: 370  Bit Score: 46.43  E-value: 4.94e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  16 KKVAEGVEQFEDIWKKLHNAAN-----ANQKEKYEADLKKEIKKLQRLRDQIKtwvasneiKDKRQLVENRKLIETQMER 90
Cdd:COG4372   31 EQLRKALFELDKLQEELEQLREeleqaREELEQLEEELEQARSELEQLEEELE--------ELNEQLQAAQAELAQAQEE 102

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  91 FKVVERETKTkayskeglgLAQKVDPAQKEK---EETEQWLTNTIDTLNMQVDQFESEVESLSVQTrkkkgdKEKQDRIE 167
Cdd:COG4372  103 LESLQEEAEE---------LQEELEELQKERqdlEQQRKQLEAQIAELQSEIAEREEELKELEEQL------ESLQEELA 167

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 528504363 168 ELKRliERHRYHIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEENEFLYDDLDLEDIPATL 238
Cdd:COG4372  168 ALEQ--ELQALSEAEAEQALDELLKEANRNAEKEEELAEAEKLIESLPRELAEELLEAKDSLEAKLGLALS 236
Mplasa_alph_rch TIGR04523
helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of ...
 3-208 6.12e-05

helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of Mycoplasma species. Members average 750 amino acids in length, including signal peptide. Sequences are predicted (Jpred 3) to be almost entirely alpha-helical. These sequences show strong periodicity (consistent with long alpha helical structures) and low complexity rich in D,E,N,Q, and K. Genes encoding these proteins are often found in tandem. The function is unknown.


Pssm-ID: 275316 [Multi-domain]  Cd Length: 745  Bit Score: 46.94  E-value: 6.12e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHNAANANQKekyeadLKKEIKKLQRLRDQIKtwvasNEIKDKRQLVENrk 82
Cdd:TIGR04523 322 KLEEIQNQISQNNKIISQLNEQISQLKKELTNSESENSE------KQRELEEKQNEIEKLK-----KENQSYKQEIKN-- 388

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   83 lIETQMErfkvvERETKTKAYSKEGLGLAQKVDPAQKEKEETEQWLTN----------TIDTLNMQVDQFESEVESLsvq 152
Cdd:TIGR04523 389 -LESQIN-----DLESKIQNQEKLNQQKDEQIKKLQQEKELLEKEIERlketiiknnsEIKDLTNQDSVKELIIKNL--- 459

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 528504363  153 trKKKGDKEKQdRIEELKRLIERHRyhiRMLETILRMLDNDSIQVDAIHKIKDDVE 208
Cdd:TIGR04523 460 --DNTRESLET-QLKVLSRSINKIK---QNLEQKQKELKSKEKELKKLNEEKKELE 509
COG4487 COG4487
Uncharacterized conserved protein, contains DUF2130 domain [Function unknown];
16-175 1.20e-04

Uncharacterized conserved protein, contains DUF2130 domain [Function unknown];


Pssm-ID: 443580 [Multi-domain]  Cd Length: 425  Bit Score: 45.32  E-value: 1.20e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  16 KKVAEGVEQFEDIWKKLhNAANANQKEKYEADLKKEIKKLQRLRDQIKtwvasNEIKDKRQLVENRKLIETQMERFKVVE 95
Cdd:COG4487   33 KELAERLADAAKREAAL-ELAEAKAKAQLQEQVAEKDAEIAELRARLE-----AEERKKALAVAEEKEKELAALQEALAE 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  96 RETK---TKAYSKEGLGLAQKVDPAQKEKE-ETEQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDKE---KQDRIEE 168
Cdd:COG4487  107 KDAKlaeLQAKELELLKKERELEDAKREAElTVEKERDEELDELKEKLKKEEEEKQLAEKSLKVAEYEKQlkdMQEQIEE 186


                 ....*..
gi 528504363 169 LKRLIER 175
Cdd:COG4487  187 LKRKKEQ 193
COG1340 COG1340
Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown];
5-190 1.40e-04

Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown];


Pssm-ID: 440951 [Multi-domain]  Cd Length: 297  Bit Score: 44.90  E-value: 1.40e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   5 RKLQGEIDRCLKKVAEGVEQFEDIWKKLhnaANANQKEKYEADLKKEIkklQRLRDQIKTWVAS--------NEIKDKRQ 76
Cdd:COG1340   74 KELKEERDELNEKLNELREELDELRKEL---AELNKAGGSIDKLRKEI---ERLEWRQQTEVLSpeeekelvEKIKELEK 147

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  77 LVENRKLIETQMErfKVVERETKTKAYSKEGLGLAQKV----DPAQKEKEETEQwLTNTIDTLNMQVDQFESEVEslsvq 152
Cdd:COG1340  148 ELEKAKKALEKNE--KLKELRAELKELRKEAEEIHKKIkelaEEAQELHEEMIE-LYKEADELRKEADELHKEIV----- 219

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 528504363 153 trkkkgdkEKQDRIEELKRLIERHRYHIRMLETILRML 190
Cdd:COG1340  220 --------EAQEKADELHEEIIELQKELRELRKELKKL 249
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
4-209 1.93e-04

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 45.44  E-value: 1.93e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   4 KRKLQGEIDRCLKKVAEgveqFEDIWKKLHnaanaNQKEKYEADLKKE--IKKLQRLRDQIKTWVASNEIKDKRQLVENR 81
Cdd:PRK03918 454 LEEYTAELKRIEKELKE----IEEKERKLR-----KELRELEKVLKKEseLIKLKELAEQLKELEEKLKKYNLEELEKKA 524

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  82 KLIETQMERF-------KVVERE-TKTKAYSKEGLGLAQKVDPAQKEKEEteqwLTNTIDTLNMQ-VDQFESEVESLSVQ 152
Cdd:PRK03918 525 EEYEKLKEKLiklkgeiKSLKKElEKLEELKKKLAELEKKLDELEEELAE----LLKELEELGFEsVEELEERLKELEPF 600

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 528504363 153 TRK----KKGDKEKQDRIEELKRL---IERHRYHIRMLETILRMLDNdsiQVDAIHKIKDDVEY 209
Cdd:PRK03918 601 YNEylelKDAEKELEREEKELKKLeeeLDKAFEELAETEKRLEELRK---ELEELEKKYSEEEY 661
SMC_prok_A TIGR02169
chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of ...
 2-207 2.26e-04

chromosome segregation protein SMC, primarily archaeal type; SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent. [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]


Pssm-ID: 274009 [Multi-domain]  Cd Length: 1164  Bit Score: 45.06  E-value: 2.26e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363     2 ADKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHnaananQKEKYEADLKKEIKKLQRLRD-QIKTWVASNEIkDKRQLVEN 80
Cdd:TIGR02169  237 RQKEAIERQLASLEEELEKLTEEISELEKRLE------EIEQLLEELNKKIKDLGEEEQlRVKEKIGELEA-EIASLERS 309

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    81 RKLIETQMERFKvvERETKTKA----YSKEGLGLAQKVDPAQKEKEEteqwLTNTIDTLNMQVDQFESEVESLSVQTRKK 156
Cdd:TIGR02169  310 IAEKERELEDAE--ERLAKLEAeidkLLAEIEELEREIEEERKRRDK----LTEEYAELKEELEDLRAELEEVDKEFAET 383

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 528504363   157 KGD-KEKQDRIEELKRLIERHRYHIRMLETILRMLDNDSIQVDA-IHKIKDDV 207
Cdd:TIGR02169  384 RDElKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAaIAGIEAKI 436
COG4913 COG4913
Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];
1-177 2.44e-04

Uncharacterized conserved protein, contains a C-terminal ATPase domain [Function unknown];


Pssm-ID: 443941 [Multi-domain]  Cd Length: 1089  Bit Score: 44.91  E-value: 2.44e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    1 MADKRKLQGEIDRClkkvaegVEQFEDIwKKLHNAAnanqkekyeADLKKEIKKLQRLRDQIKTWvasneikdkRQLVEN 80
Cdd:COG4913   217 MLEEPDTFEAADAL-------VEHFDDL-ERAHEAL---------EDAREQIELLEPIRELAERY---------AAARER 270

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   81 RKLIETQMERFKVVERETKTKAYSKEGLGLAQKVDPAQKEKEETEQwltntidtlnmQVDQFESEVESLSVQTRKKKGDk 160
Cdd:COG4913   271 LAELEYLRAALRLWFAQRRLELLEAELEELRAELARLEAELERLEA-----------RLDALREELDELEAQIRGNGGD- 338

                         170
                  ....*....|....*..
gi 528504363  161 ekqdRIEELKRLIERHR 177
Cdd:COG4913   339 ----RLEQLEREIERLE 351
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 3-238 4.46e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 44.19  E-value: 4.46e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363     3 DKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHNAANA-NQKEKYEADLKKEIKKLQRLRDQIKTWVASNEIKDKRQLVENR 81
Cdd:pfam02463  230 DYLKLNEERIDLLQELLRDEQEEIESSKQEIEKEEEkLAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSELLKLERRK 309

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    82 KLIEtqmerFKVVERETKTKAYSKEGLGLAQKVDPAQKEKEEteqwltntidtLNMQVDQFESEVESLSVQTRKKKgdKE 161
Cdd:pfam02463  310 VDDE-----EKLKESEKEKKKAEKELKKEKEEIEELEKELKE-----------LEIKREAEEEEEEELEKLQEKLE--QL 371

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 528504363   162 KQDRIEELKRLIERHRYHIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEENEFLYDDLDLEDIPATL 238
Cdd:pfam02463  372 EEELLAKKKLESERLSSAAKLKEEELELKSEEEKEAQLLLELARQLEDLLKEEKKEELEILEEEEESIELKQGKLTE 448
MAD pfam05557
Mitotic checkpoint protein; This family consists of several eukaryotic mitotic checkpoint ...
 2-188 5.43e-04

Mitotic checkpoint protein; This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in yeast and higher eukaryotes. In S.cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated.


Pssm-ID: 461677 [Multi-domain]  Cd Length: 660  Bit Score: 43.58  E-value: 5.43e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    2 ADKRKLQGEIDRcLKKVAEGVEQFEdiwKKLHNAANANQKE--------KYEADLKKEIK----KLQRLRDQIKTwvASN 69
Cdd:pfam05557  38 ALKRQLDRESDR-NQELQKRIRLLE---KREAEAEEALREQaelnrlkkKYLEALNKKLNekesQLADAREVISC--LKN 111

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   70 EIKDKRQLVENRKL----IETQMERFKVVERETKTKAYSKEGLglAQKVDPAQKEKEETEQwltnTIDTLNMQVDQFESE 145
Cdd:pfam05557 112 ELSELRRQIQRAELelqsTNSELEELQERLDLLKAKASEAEQL--RQNLEKQQSSLAEAEQ----RIKELEFEIQSQEQD 185

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|...
gi 528504363  146 VESLsvqtrkkKGDKEKQDRIEELKRLIERHRYHIRMLETILR 188
Cdd:pfam05557 186 SEIV-------KNSKSELARIPELEKELERLREHNKHLNENIE 221
COG1340 COG1340
Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown];
41-175 6.77e-04

Uncharacterized coiled-coil protein, contains DUF342 domain [Function unknown];


Pssm-ID: 440951 [Multi-domain]  Cd Length: 297  Bit Score: 42.59  E-value: 6.77e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  41 KEKYEaDLKKEIKKLQRLRD----QIKTWVAS--------NEIKDK-RQLVENRKLIETQMERFKVVERETKTKAysKEg 107
Cdd:COG1340   14 EEKIE-ELREEIEELKEKRDelneELKELAEKrdelnaqvKELREEaQELREKRDELNEKVKELKEERDELNEKL--NE- 89

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 528504363 108 lgLAQKVDPAQKEKEEteqwltntIDTLNMQVDQFESEVESL--SVQTRKKKGDKEKQ--DRIEELKRLIER 175
Cdd:COG1340   90 --LREELDELRKELAE--------LNKAGGSIDKLRKEIERLewRQQTEVLSPEEEKElvEKIKELEKELEK 151
PRK01156 PRK01156
chromosome segregation protein; Provisional
 8-230 8.08e-04

chromosome segregation protein; Provisional


Pssm-ID: 100796 [Multi-domain]  Cd Length: 895  Bit Score: 43.35  E-value: 8.08e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   8 QGEIDRCLKKV-AEGVEQFEDIWKKLHNAANANQKEKYEADLKKEIKKLQRLRDQIKTWVasNEIKdkrqlvENRKLIET 86
Cdd:PRK01156 137 QGEMDSLISGDpAQRKKILDEILEINSLERNYDKLKDVIDMLRAEISNIDYLEEKLKSSN--LELE------NIKKQIAD 208

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  87 QMERFKVVERETKtkAYSKEGLGLAQKVDPAQKEKEETEQwLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDKEKQDRI 166
Cdd:PRK01156 209 DEKSHSITLKEIE--RLSIEYNNAMDDYNNLKSALNELSS-LEDMKNRYESEIKTAESDLSMELEKNNYYKELEERHMKI 285

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 528504363 167 EELKRLIERHRY--------HIRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDssqdpDFEENEFLYDDLD 230
Cdd:PRK01156 286 INDPVYKNRNYIndyfkyknDIENKKQILSNIDAEINKYHAIIKKLSVLQKDYN-----DYIKKKSRYDDLN 352
HEC1 COG5185
Chromosome segregation protein NDC80, interacts with SMC proteins [Cell cycle control, cell ...
 2-221 8.40e-04

Chromosome segregation protein NDC80, interacts with SMC proteins [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 444066 [Multi-domain]  Cd Length: 594  Bit Score: 43.02  E-value: 8.40e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   2 ADKRKLQGEIDRCLKKVAEGVEQFEDIwkKLHNAANANQKEK-YEADLKKEIKKLQRLRDQIKTWVASNEIKDK------ 74
Cdd:COG5185  239 QDPESELEDLAQTSDKLEKLVEQNTDL--RLEKLGENAESSKrLNENANNLIKQFENTKEKIAEYTKSIDIKKAteslee 316

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  75 --RQLVENRKLIETQMERFKVVERETKTKAYSKEGLGLAQKVDPAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQ 152
Cdd:COG5185  317 qlAAAEAEQELEESKRETETGIQNLTAEIEQGQESLTENLEAIKEEIENIVGEVELSKSSEELDSFKDTIESTKESLDEI 396

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 528504363 153 TR-----KKKGDKEKQDRIEELKRLIERHRyhiRMLETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDPDFEE 221
Cdd:COG5185  397 PQnqrgyAQEILATLEDTLKAADRQIEELQ---RQIEQATSSNEEVSKLLNELISELNKVMREADEESQSRLEE 467
Atrophin-1 pfam03154
Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian ...
 632-807 8.72e-04

Atrophin-1 family; Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteriztic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity.


Pssm-ID: 460830 [Multi-domain]  Cd Length: 991  Bit Score: 43.22  E-value: 8.72e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  632 QTLDNGPSLLSSITLPPSTPSPAFTDSTPGGGSllnGPHSYTPNTEAIKAPePPSSLKAMAERAALGLALDGEIPSLHLT 711
Cdd:pfam03154 165 QILQTQPPVLQAQSGAASPPSPPPPGTTQAATA---GPTPSAPSVPPQGSP-ATSQPPNQTQSTAAPHTLIQQTPTLHPQ 240

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  712 DRDSlelfSGSSAPPGPTTAPQPAVSEVSLPPSL--GACPLGPTPLtkeqlyqqamqEAAWTHMPHPSDSERIRQYLMRN 789
Cdd:pfam03154 241 RLPS----PHPPLQPMTQPPPPSQVSPQPLPQPSlhGQMPPMPHSL-----------QTGPSHMQHPVPPQPFPLTPQSS 305

                         170
                  ....*....|....*...
gi 528504363  790 PCPTPPFHHQMPPHHSDS 807
Cdd:pfam03154 306 QSQVPPGPSPAAPGQSQQ 323
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 22-196 9.18e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 43.04  E-value: 9.18e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    22 VEQFEDIWKKLHN-----AANANQKEKYEADLKKEIKKLQRLRDQIktWVASNEIKDKRQLVENRK-LIETQMERFKVVE 95
Cdd:pfam02463  144 IEIIAMMKPERRLeieeeAAGSRLKRKKKEALKKLIEETENLAELI--IDLEELKLQELKLKEQAKkALEYYQLKEKLEL 221

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    96 RETKTKAYSKEGL-----GLAQKVDPAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDKEKQDRIEELK 170
Cdd:pfam02463  222 EEEYLLYLDYLKLneeriDLLQELLRDEQEEIESSKQEIEKEEEKLAQVLKENKEEEKEKKLQEEELKLLAKEEEELKSE 301

                          170       180
                   ....*....|....*....|....*.
gi 528504363   171 RLIERHRYHIRMLETILRMLDNDSIQ 196
Cdd:pfam02463  302 LLKLERRKVDDEEKLKESEKEKKKAE 327
Mplasa_alph_rch TIGR04523
helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of ...
 37-208 1.07e-03

helix-rich Mycoplasma protein; Members of this family occur strictly within a subset of Mycoplasma species. Members average 750 amino acids in length, including signal peptide. Sequences are predicted (Jpred 3) to be almost entirely alpha-helical. These sequences show strong periodicity (consistent with long alpha helical structures) and low complexity rich in D,E,N,Q, and K. Genes encoding these proteins are often found in tandem. The function is unknown.


Pssm-ID: 275316 [Multi-domain]  Cd Length: 745  Bit Score: 42.70  E-value: 1.07e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   37 NANQKEKYEADLKKEIKKLQRLRDQIKtwvasNEIKDKRQLVE--NRKL--IETQMErfkvvERETKTKAYSKEGLGLAQ 112
Cdd:TIGR04523 118 QKNKLEVELNKLEKQKKENKKNIDKFL-----TEIKKKEKELEklNNKYndLKKQKE-----ELENELNLLEKEKLNIQK 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  113 KVDPAQKEKEETEQWLTNtIDTLNMQVDQFESEVESLSVQTRK-KKGDKEKQDRIEELKRLIERHRYHIRML----ETIL 187
Cdd:TIGR04523 188 NIDKIKNKLLKLELLLSN-LKKKIQKNKSLESQISELKKQNNQlKDNIEKKQQEINEKTTEISNTQTQLNQLkdeqNKIK 266

                         170       180
                  ....*....|....*....|.
gi 528504363  188 RMLDNDSIQVDAIHKIKDDVE 208
Cdd:TIGR04523 267 KQLSEKQKELEQNNKKIKELE 287
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
5-208 1.25e-03

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 42.74  E-value: 1.25e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   5 RKLQGEidrcLKKVAEGVEQFEDIWKKLHNAANanQKEKYEADLKKEIKKLQRLRDQIKtwvasnEIKDK-RQLVENRKL 83
Cdd:PRK03918 217 PELREE----LEKLEKEVKELEELKEEIEELEK--ELESLEGSKRKLEEKIRELEERIE------ELKKEiEELEEKVKE 284

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  84 IEtqmerfkvvERETKTKAYSKEGlGLAQKVDPAQKEKEETEQWLTNTIDTLNMQVDQFESEVESLSVQTRKKKGDKEKQ 163
Cdd:PRK03918 285 LK---------ELKEKAEEYIKLS-EFYEEYLDELREIEKRLSRLEEEINGIEERIKELEEKEERLEELKKKLKELEKRL 354

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|
gi 528504363 164 DRIEELKRLIERHRYHIRMLETILRMLDNDSIQ-----VDAIHKIKDDVE 208
Cdd:PRK03918 355 EELEERHELYEEAKAKKEELERLKKRLTGLTPEklekeLEELEKAKEEIE 404
PTZ00440 PTZ00440
reticulocyte binding protein 2-like protein; Provisional
 3-170 2.30e-03

reticulocyte binding protein 2-like protein; Provisional


Pssm-ID: 240419 [Multi-domain]  Cd Length: 2722  Bit Score: 42.13  E-value: 2.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    3 DKRKLQGEIDRCLKKVAEGVEQFEDIWKKLHNAANANQKEKYEADLKKEIKKLQRLRDQIKTWVA--------------- 67
Cdd:PTZ00440 1316 DAKKELEKTDNLIKQVEAKIEQAKEHKNKIYGSLEDKQIDDEIKKIEQIKEEISNKRKEINKYLSniksnkekcdlhvrn 1395

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   68 SNEIKDKRQLVENRKLIETQM----ERFKVVERETKTKAYSKEGLGLAQKVDPAQKEKEETEQWLTNTIDtlnmqvdqfe 143
Cdd:PTZ00440 1396 ASRGKDKIDFLNKHEAIEPSNskevNIIKITDNINKCKQYSNEAMETENKADENNDSIIKYEKEITNILN---------- 1465

                         170       180
                  ....*....|....*....|....*..
gi 528504363  144 sEVESLSVQTRKKKGDKEKQDRIEELK 170
Cdd:PTZ00440 1466 -NSSILGKKTKLEKKKKEATNIMDDIN 1491
PHA03247 PHA03247
large tegument protein UL36; Provisional
 538-816 3.02e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.46  E-value: 3.02e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  538 QSALQGSTQVPVSPVGTAPGGGTGESGLGGNGSSSGVSGGVGTNVAPARPPSGLKQNGATSYSAVVADNTPDSSLSSASQ 617
Cdd:PHA03247 2726 AAARQASPALPAAPAPPAVPAGPATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPA 2805

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  618 SQNSHSSssssstnqtldnGPSLLSSITLPPSTPSPAFTDSTPGGGSLLNGPHSYTPNTEAIKAPEPPSSLKAMAERAAL 697
Cdd:PHA03247 2806 DPPAAVL------------APAAALPPAASPAGPLPPPTSAQPTAPPPPPGPPPPSLPLGGSVAPGGDVRRRPPSRSPAA 2873

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  698 GLALDGEIPSLHLTD-------------RDSLELFSGSSAPPGPTTAPQPAVSEVSLP----PSLGACPLGPTPLTKEQL 760
Cdd:PHA03247 2874 KPAAPARPPVRRLARpavsrstesfalpPDQPERPPQPQAPPPPQPQPQPPPPPQPQPppppPPRPQPPLAPTTDPAGAG 2953

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 528504363  761 YQQAMQEAAWTHMPHPSDSERIRQylmRNPCPTPPFHHQMPPHHSDSIEFYQRLST 816
Cdd:PHA03247 2954 EPSGAVPQPWLGALVPGRVAVPRF---RVPQPAPSREAPASSTPPLTGHSLSRVSS 3006
PRK03918 PRK03918
DNA double-strand break repair ATPase Rad50;
38-234 4.64e-03

DNA double-strand break repair ATPase Rad50;


Pssm-ID: 235175 [Multi-domain]  Cd Length: 880  Bit Score: 40.82  E-value: 4.64e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  38 ANQKEKYEADLKKEIKKLQRLRDQIKTWVA-----SNEIKDKRQLVENRKL------IETQMERFKVVERETKTKAYSK- 105
Cdd:PRK03918 451 KELLEEYTAELKRIEKELKEIEEKERKLRKelrelEKVLKKESELIKLKELaeqlkeLEEKLKKYNLEELEKKAEEYEKl 530

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363 106 --EGLGLAQKVDPAQKEKEETEQwLTNTIDTLNMQVDQFESEVESLSVQTRkKKGDKEKQDRIEELKRLIERHRYHIRM- 182
Cdd:PRK03918 531 keKLIKLKGEIKSLKKELEKLEE-LKKKLAELEKKLDELEEELAELLKELE-ELGFESVEELEERLKELEPFYNEYLELk 608

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 528504363 183 -----LETILRMLDNDSIQVDAIHKIKDDVEYYIDSSQDpDFEENEFLYDDLDLEDI 234
Cdd:PRK03918 609 daekeLEREEKELKKLEEELDKAFEELAETEKRLEELRK-ELEELEKKYSEEEYEEL 664
EzrA pfam06160
Septation ring formation regulator, EzrA; During the bacterial cell cycle, the tubulin-like ...
 5-208 6.00e-03

Septation ring formation regulator, EzrA; During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerizes into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation. The structure contains 5 spectrin like alpha helical repeats.


Pssm-ID: 428797 [Multi-domain]  Cd Length: 542  Bit Score: 40.22  E-value: 6.00e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    5 RKLQGEIDRCLKKVAEGVEQFE---------DIWKKLHNAANanQKEKYEADLKK-EIKK----LQRLRDQIKTWVAS-- 68
Cdd:pfam06160 203 EELKTELPDQLEELKEGYREMEeegyalehlNVDKEIQQLEE--QLEENLALLENlELDEaeeaLEEIEERIDQLYDLle 280

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   69 NEIKDKRQLVENRKLIETQMERFKVVERETKT-------------------KAYSKEGLGLAQKVDPAQKE--------- 120
Cdd:pfam06160 281 KEVDAKKYVEKNLPEIEDYLEHAEEQNKELKEelervqqsytlnenelervRGLEKQLEELEKRYDEIVERleekevays 360

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  121 --KEETEQWLtNTIDTLNMQVDQFESEVESL--SVQTRKKKGDKEKQDrIEELKRLIERHR-------YHIR------ML 183
Cdd:pfam06160 361 elQEELEEIL-EQLEEIEEEQEEFKESLQSLrkDELEAREKLDEFKLE-LREIKRLVEKSNlpglpesYLDYffdvsdEI 438

                         250       260
                  ....*....|....*....|....*....
gi 528504363  184 ETILRMLDNDSIQVDAIHK----IKDDVE 208
Cdd:pfam06160 439 EDLADELNEVPLNMDEVNRlldeAQDDVD 467
rad50 TIGR00606
rad50; All proteins in this family for which functions are known are involvedin recombination, ...
 12-197 6.61e-03

rad50; All proteins in this family for which functions are known are involvedin recombination, recombinational repair, and/or non-homologous end joining.They are components of an exonuclease complex with MRE11 homologs. This family is distantly related to the SbcC family of bacterial proteins.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).


Pssm-ID: 129694 [Multi-domain]  Cd Length: 1311  Bit Score: 40.42  E-value: 6.61e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    12 DRCLKKVAEGVEQFEDIWKKLHNAANaNQKEkyeadLKKEIKKLQRLRDQI--KTWVASNEI----KDKRQLVENRKLIE 85
Cdd:TIGR00606  684 QRVFQTEAELQEFISDLQSKLRLAPD-KLKS-----TESELKKKEKRRDEMlgLAPGRQSIIdlkeKEIPELRNKLQKVN 757

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363    86 TQMERFK--VVERETktkayskeglgLAQKVDPaqkEKEETEQWLTNT--IDTLNMQVDQFESEVESLSV---------- 151
Cdd:TIGR00606  758 RDIQRLKndIEEQET-----------LLGTIMP---EEESAKVCLTDVtiMERFQMELKDVERKIAQQAAklqgsdldrt 823

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 528504363   152 --QTRKKKGDKEKQ-----DRIEELKRLIERHRYHIRMLETILRMLDNDSIQV 197
Cdd:TIGR00606  824 vqQVNQEKQEKQHEldtvvSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQI 876
mukB PRK04863
chromosome partition protein MukB;
42-209 6.76e-03

chromosome partition protein MukB;


Pssm-ID: 235316 [Multi-domain]  Cd Length: 1486  Bit Score: 40.33  E-value: 6.76e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363   42 EKYeADLKKEIKKLQRLRDQIKTWVASN-----------EIKDKRQlveNRKLIETQMERFKVVERETKTKA-YSKEGLG 109
Cdd:PRK04863  800 ERY-ATLSFDVQKLQRLHQAFSRFIGSHlavafeadpeaELRQLNR---RRVELERALADHESQEQQQRSQLeQAKEGLS 875

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 528504363  110 LAQKVDPaqkekeeteqwLTNTIDtlnmqVDQFESEVESLsvqtrkkkgdKEKQDRIEELKRLIERHRYHIRMLETILRM 189
Cdd:PRK04863  876 ALNRLLP-----------RLNLLA-----DETLADRVEEI----------REQLDEAEEAKRFVQQHGNALAQLEPIVSV 929

                         170       180
                  ....*....|....*....|
gi 528504363  190 LDNDSIQVDAihkIKDDVEY 209
Cdd:PRK04863  930 LQSDPEQFEQ---LKQDYQQ 946
 
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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