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Conserved domains on  [gi|1194507382|gb|OUC44969|]
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hypothetical protein D917_08719, partial [Trichinella nativa]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
BRCT_TopBP1_rpt6 cd17727
sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 43-116 9.63e-36

sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the sixth BRCT domain.


:

Pssm-ID: 349359 [Multi-domain]  Cd Length: 75  Bit Score: 118.47  E-value: 9.63e-36
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1194507382  43 LSGVVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKAIEAGCALVHPRWLYQCK 116
Cdd:cd17727     1 LKGVVICVSKKLSKRQGELNKIAASLGAEYRWTYDESCTHFIYQGKANDTNREYKSAKEQGKFIVSPHWLYACK 74
 
Name Accession Description Interval E-value
BRCT_TopBP1_rpt6 cd17727
sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 43-116 9.63e-36

sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the sixth BRCT domain.


Pssm-ID: 349359 [Multi-domain]  Cd Length: 75  Bit Score: 118.47  E-value: 9.63e-36
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1194507382  43 LSGVVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKAIEAGCALVHPRWLYQCK 116
Cdd:cd17727     1 LKGVVICVSKKLSKRQGELNKIAASLGAEYRWTYDESCTHFIYQGKANDTNREYKSAKEQGKFIVSPHWLYACK 74
BRCT smart00292
breast cancer carboxy-terminal domain;
41-115 1.42e-09

breast cancer carboxy-terminal domain;


Pssm-ID: 214602 [Multi-domain]  Cd Length: 78  Bit Score: 51.61  E-value: 1.42e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1194507382   41 KPLSGVVIVVSSDLLHLQM-ELHQLVIQLGGFYCWHFD-PSCTHFICQGTNVEKtREGYKAIEAGCALVHPRWLYQC 115
Cdd:smart00292   2 KLFKGKTFYITGSFDKEERdELKELIEALGGKVTSSLSsKTTTHVIVGSPEGGK-LELLKAIALGIPIVKEEWLLDC 77
BRCT pfam00533
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ...
 41-115 1.65e-05

BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilized head-to-tail BRCT-BRCT oligomerization mode. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants.


Pssm-ID: 425736 [Multi-domain]  Cd Length: 75  Bit Score: 40.74  E-value: 1.65e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1194507382  41 KPLSGVVIVVSSDLlhlQM---ELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTregyKAIEAGCALVHPRWLYQC 115
Cdd:pfam00533   4 KLFSGKTFVITGLD---GLerdELKELIEKLGGKVTDSLSKKTTHVIVEARTKKYL----KAKELGIPIVTEEWLLDC 74
 
Name Accession Description Interval E-value
BRCT_TopBP1_rpt6 cd17727
sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 43-116 9.63e-36

sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the sixth BRCT domain.


Pssm-ID: 349359 [Multi-domain]  Cd Length: 75  Bit Score: 118.47  E-value: 9.63e-36
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1194507382  43 LSGVVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKAIEAGCALVHPRWLYQCK 116
Cdd:cd17727     1 LKGVVICVSKKLSKRQGELNKIAASLGAEYRWTYDESCTHFIYQGKANDTNREYKSAKEQGKFIVSPHWLYACK 74
BRCT cd00027
C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The ...
 46-115 3.36e-13

C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The BRCT (BRCA1 C-terminus) domain is found within many DNA damage repair and cell cycle checkpoint proteins. BRCT domains interact with each other forming homo/hetero BRCT multimers, but are also involved in BRCT-non-BRCT interactions and interactions within DNA strand breaks. BRCT tandem repeats bind to phosphopeptides; it has been shown that the repeats in human BRCA1 bind specifically to pS-X-X-F motifs, mediating the interaction between BRCA1 and the DNA helicase BACH1, or BRCA1 and CtIP, a transcriptional corepressor. It is assumed that BRCT repeats play similar roles in many signaling pathways associated with the response to DNA damage.


Pssm-ID: 349339 [Multi-domain]  Cd Length: 68  Bit Score: 60.45  E-value: 3.36e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1194507382  46 VVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREgyKAIEAGCALVHPRWLYQC 115
Cdd:cd00027     1 LVICFSGLDDEEREELKKLIEALGGKVSESLSSKVTHLIAKSPSGEKYYL--AALAWGIPIVSPEWLLDC 68
BRCT_TopBP1_rpt2_like cd17731
second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 41-115 3.35e-10

second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the second BRCT domain.


Pssm-ID: 349363 [Multi-domain]  Cd Length: 77  Bit Score: 52.93  E-value: 3.35e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1194507382  41 KPLSGVVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTRegyKAIEAGCA-LVHPRWLYQC 115
Cdd:cd17731     1 PPFKGLVICVTGFDSEERKEIQQLVEQNGGSYSPDLSKNCTHLIAGSPSGQKYE---FARKWNSIhIVTPEWLYDS 73
BRCT smart00292
breast cancer carboxy-terminal domain;
41-115 1.42e-09

breast cancer carboxy-terminal domain;


Pssm-ID: 214602 [Multi-domain]  Cd Length: 78  Bit Score: 51.61  E-value: 1.42e-09
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1194507382   41 KPLSGVVIVVSSDLLHLQM-ELHQLVIQLGGFYCWHFD-PSCTHFICQGTNVEKtREGYKAIEAGCALVHPRWLYQC 115
Cdd:smart00292   2 KLFKGKTFYITGSFDKEERdELKELIEALGGKVTSSLSsKTTTHVIVGSPEGGK-LELLKAIALGIPIVKEEWLLDC 77
BRCT_CTDP1 cd17729
BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar ...
 43-124 1.76e-08

BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar proteins; CTDP1 (EC 3.1.3.16), also termed TFIIF-associating CTD phosphatase, or TFIIF- associating RNA polymerase C-terminal domain phosphatase (FCP1), promotes the activity of RNA polymerase II through processively dephosphorylating 'Ser-2' and 'Ser-5' of the heptad repeats YSPTSPS in the C-terminal domain of the largest RNA polymerase II subunit. It plays a role in the exit from mitosis by dephosphorylating crucial mitotic substrates (USP44, CDC20 and WEE1) that are required for M-phase-promoting factor (MPF)/CDK1 inactivation.


Pssm-ID: 349361 [Multi-domain]  Cd Length: 97  Bit Score: 49.07  E-value: 1.76e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1194507382  43 LSGVVIVVSSDL-LHLQME---LHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKaiEAGCALVHPRWLYQCKIR 118
Cdd:cd17729    14 LKGCVIVFSGVIpTGIDPErsrLWKLAESLGAKVVTDLSPRTTHLVAAKLGTEKVKQALK--MPGIHVVHPDWLWACAER 91


                  ....*.
gi 1194507382 119 GCRVSE 124
Cdd:cd17729    92 WERVDE 97
BRCT_TopBP1_rpt7 cd17738
seventh BRCT domain of DNA topoisomerase 2-binding protein 1; TopBP1, also termed DNA ...
 47-116 3.96e-07

seventh BRCT domain of DNA topoisomerase 2-binding protein 1; TopBP1, also termed DNA topoisomerase II-beta-binding protein 1, or DNA topoisomerase II-binding protein 1, functions in DNA replication and damage response. It binds double-stranded DNA breaks and nicks as well as single-stranded DNA. TopBP1 contains six copies of BRCT domain. The family corresponds to the seventh BRCT domain. The Trp-X-X-X-Cys/Ser signature motif of the BRCT family is missing in this group.


Pssm-ID: 349370 [Multi-domain]  Cd Length: 75  Bit Score: 44.87  E-value: 3.96e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1194507382  47 VIVVSSDLLHLQMELHQLVIQLGGFYC--WHFDPSCTHFICqgtnvEKTREGYK---AIEAGCALVHPRWLYQCK 116
Cdd:cd17738     3 VFLLSGFSEDEKKELISIIEKLGGKVLdsDEFDPKCTHLIC-----GKPSRSEKflaACAAGKWILHPSYIEASA 72
BRCT_XRCC1_rpt1 cd17725
First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar ...
 45-127 1.39e-05

First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar proteins; XRCC1 is a DNA repair protein that corrects defective DNA strand-break repair and sister chromatid exchange following treatment with ionizing radiation and alkylating agents. It forms homodimers and interacts with polynucleotide kinase (PNK), DNA polymerase-beta (POLB), DNA ligase III (LIG3), APTX, APLF, and APEX1. XRCC1 contains an N-terminal XRCC1-specific domain and two BRCT domains. This family corresponds to the first one.


Pssm-ID: 349357 [Multi-domain]  Cd Length: 80  Bit Score: 41.11  E-value: 1.39e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1194507382  45 GVVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKaieAGCALVHPRWLYQCKIRGCRVSE 124
Cdd:cd17725     1 GVVFVLSGFQNPFRGELRDKALEMGAKYRPDWTADCTHLICAFANTPKYKQVKG---AGGIIVSKEWILDCYKKKKRLPW 77


                  ...
gi 1194507382 125 SGY 127
Cdd:cd17725    78 KRY 80
BRCT pfam00533
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ...
 41-115 1.65e-05

BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage. The BRCT domain of XRCC1 forms a homodimer in the crystal structure. This suggests that pairs of BRCT domains associate as homo- or heterodimers. BRCT domains are often found as tandem-repeat pairs. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilized head-to-tail BRCT-BRCT oligomerization mode. This conserved tandem BRCT architecture facilitates formation of the canonical BRCT phospho-peptide interaction cleft at a groove between the BRCT domains. Disease associated missense and nonsense mutations in the BRCA1 BRCT domains disrupt peptide binding by directly occluding this peptide binding groove, or by disrupting key conserved BRCT core folding determinants.


Pssm-ID: 425736 [Multi-domain]  Cd Length: 75  Bit Score: 40.74  E-value: 1.65e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1194507382  41 KPLSGVVIVVSSDLlhlQM---ELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTregyKAIEAGCALVHPRWLYQC 115
Cdd:pfam00533   4 KLFSGKTFVITGLD---GLerdELKELIEKLGGKVTDSLSKKTTHVIVEARTKKYL----KAKELGIPIVTEEWLLDC 74
BRCT_PAXIP1_rpt2 cd17710
second BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also ...
 43-124 1.25e-04

second BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also termed PAX transactivation activation domain-interacting protein (PTIP), is involved in DNA damage response and in transcriptional regulation through histone methyltransferase (HMT) complexes. It also facilitates ATM-mediated activation of p53 and promotes cellular resistance to ionizing radiation. PAXIP1 contains six BRCT repeats. This family corresponds to the second BRCT domain.


Pssm-ID: 349342 [Multi-domain]  Cd Length: 81  Bit Score: 38.37  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1194507382  43 LSGVVI----VVSSDLLhlqmELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKaiEAGCALVHPRWLYQCKIR 118
Cdd:cd17710     2 FSGVVVcpsqISAEDRL----KLWAMVTFHGGKCQLNLDKKCTHLVTGKASGAKYECALK--HEGIKIVTPDWVTDCIKA 75


                  ....*.
gi 1194507382 119 GCRVSE 124
Cdd:cd17710    76 KTLLDE 81
BRCT_BRC1_like_rpt4 cd18438
fourth BRCT domain of Schizosaccharomyces pombe BRCT-containing protein 1 (BRC1) and similar ...
 61-116 5.48e-03

fourth BRCT domain of Schizosaccharomyces pombe BRCT-containing protein 1 (BRC1) and similar proteins; Schizosaccharomyces pombe BRC1 is required for mitotic fidelity, specifically in the G2 phase of the cell cycle. It plays a role in chromatin organization. Members in this family contains six BRCT domains. This family corresponds to the fourth repeat.


Pssm-ID: 349391 [Multi-domain]  Cd Length: 68  Bit Score: 33.90  E-value: 5.48e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1194507382  61 LHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTRegyKAIEAGCALVHPRWLYQCK 116
Cdd:cd18438    16 LEKLILALGATYTKNLKPDNTHLITASPEGEKYE---AAKEWNIPIVNHLWLYDSY 68
PTCB-BRCT pfam12738
twin BRCT domain; This is a BRCT domain that appears in duplicate in most member sequences. ...
 46-111 6.14e-03

twin BRCT domain; This is a BRCT domain that appears in duplicate in most member sequences. BRCT domains are peptide- and phosphopeptide-binding modules. BRCT domains are present in a number of proteins involved in DNA checkpoint controls and DNA repair.


Pssm-ID: 463687 [Multi-domain]  Cd Length: 63  Bit Score: 33.33  E-value: 6.14e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1194507382  46 VVIVVS----SDLLHLQMelhqLVIQLGGFYCWHFDPSCTHFICQGTNVEKTRegyKAIEAGCALVHPRW 111
Cdd:pfam12738   1 LVICVTgfdgDDREGLQK----LIEAMGAEYTKDLTKSVTHLICKSGEGEKYE---KAKEWGIPVVSPLW 63
BRCT_microcephalin_rpt2 cd17736
second BRCT domain of microcephalin and similar proteins; Microcephalin is a DNA damage ...
 47-120 9.01e-03

second BRCT domain of microcephalin and similar proteins; Microcephalin is a DNA damage response protein involved in regulation of CHK1 and BRCA1. It has been implicated in chromosome condensation and DNA damage induced cellular responses. It may play a role in neurogenesis and regulation of the size of the cerebral cortex. Microcephalin contains three BRCT repeats. This family corresponds to the second repeat.


Pssm-ID: 349368 [Multi-domain]  Cd Length: 76  Bit Score: 33.33  E-value: 9.01e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1194507382  47 VIVVSSDLLHLQMELHQLVIQLGGF-YCWHFDPSCTHFICqGTNvEKTREGYKAIEAGCALVHPRWLYQCKIRGC 120
Cdd:cd17736     2 TLVMTSVHSEEQELLESVVKKLGGFrVEDSVTEKTTHVVV-GSP-RRTLNVLLGIARGCWILSPDWVLESLEAGK 74
BRCT_BRC1_like_rpt2 cd18436
second BRCT domain of Schizosaccharomyces pombe BRCT-containing protein 1 (BRC1) and similar ...
 44-115 9.13e-03

second BRCT domain of Schizosaccharomyces pombe BRCT-containing protein 1 (BRC1) and similar proteins; Schizosaccharomyces pombe BRC1 is required for mitotic fidelity, specifically in the G2 phase of the cell cycle. It plays a role in chromatin organization. The family also includes Cryptococcus neoformans DNA ligase 4 (LIG4, also known as DNA ligase IV or polydeoxyribonucleotide synthase [ATP] 4), which is involved in dsDNA break repair, and plays a role in non-homologous integration (NHI) pathways where it is required in the final step of non-homologus end-joining. Members in this family contains six BRCT domains. This family corresponds to the second repeat.


Pssm-ID: 349389 [Multi-domain]  Cd Length: 75  Bit Score: 33.36  E-value: 9.13e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1194507382  44 SGVVIVVSSDLLHLQMELHQLVIQLGGFYCWHFDPSCTHFICQGTNVEKTREGYKAIEAGCALVHPRWLYQC 115
Cdd:cd18436     2 SGVVITCSDLPSGDKEAIYGGVLALGGQYSDELTRDVTHLIALSPDGDKYKTALKRPELNIKIVLPHWFDDC 73
 
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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