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Conserved domains on  [gi|18858235|ref|NP_572217|]
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XRCC1 [Drosophila melanogaster]

Protein Classification

XRCC1_N and BRCT_XRCC1_rpt1 domain-containing protein( domain architecture ID 13667285)

XRCC1_N and BRCT_XRCC1_rpt1 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XRCC1_N pfam01834
XRCC1 N terminal domain;
1-144 2.36e-69

XRCC1 N terminal domain;


:

Pssm-ID: 460356  Cd Length: 148  Bit Score: 221.34  E-value: 2.36e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235     1 MPIALFKSVREVSSEDAVHVAANLLKENAGKKWRTKAPGEKSAYVVLEFEEPQQITGIDIGNEHAAFIEVLVSRTG-CQA 79
Cdd:pfam01834   1 MPPIKLKHVVSCSSEDPVHPAENLLKSDTYRKWKCAKPGEKQASVELQLERASQITSIDIGNEGSAFVEVLVGRSSwPDD 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18858235    80 DDFRELLLSSSFMTPIESKNSSNPNRVRCFSSTSLAESALPEKWKLLQIVCTQPFNRHVPYGLSF 144
Cdd:pfam01834  81 QDFEVLLVTSSFMTPSESKNGTNRNRVRMFGKDKLNSSAAEEKWDRVKIVCTQPFNKTVQYGLSF 145
BRCT_XRCC1_rpt1 cd17725
First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar ...
 427-505 1.21e-46

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: 158.59  E-value: 1.21e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 427 GVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKG-KGKIVTRSWIEKCYELKKYLPWRRY 505
Cdd:cd17725   1 GVVFVLSGFQNPFRGELRDKALEMGAKYRPDWTADCTHLICAFANTPKYKQVKGaGGIIVSKEWILDCYKKKKRLPWKRY 80
U2AF_lg super family cl36941
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 285-379 1.41e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


The actual alignment was detected with superfamily member TIGR01642:

Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 44.88  E-value: 1.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   285 KKQRLSKHLEADKDRRRLEQEKERESR-KKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLRKEERSHSKEE 363
Cdd:TIGR01642  25 RRRSRDRSRFRDRHRRSRERSYREDSRpRDRRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVRSIEQHRRRLRDRSPSNQW 104

                          90
                  ....*....|....*.
gi 18858235   364 KSRRKEKSKHDHRSSD 379
Cdd:TIGR01642 105 RKDDKKRSLWDIKPPG 120
 
Name Accession Description Interval E-value
XRCC1_N pfam01834
XRCC1 N terminal domain;
1-144 2.36e-69

XRCC1 N terminal domain;


Pssm-ID: 460356  Cd Length: 148  Bit Score: 221.34  E-value: 2.36e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235     1 MPIALFKSVREVSSEDAVHVAANLLKENAGKKWRTKAPGEKSAYVVLEFEEPQQITGIDIGNEHAAFIEVLVSRTG-CQA 79
Cdd:pfam01834   1 MPPIKLKHVVSCSSEDPVHPAENLLKSDTYRKWKCAKPGEKQASVELQLERASQITSIDIGNEGSAFVEVLVGRSSwPDD 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18858235    80 DDFRELLLSSSFMTPIESKNSSNPNRVRCFSSTSLAESALPEKWKLLQIVCTQPFNRHVPYGLSF 144
Cdd:pfam01834  81 QDFEVLLVTSSFMTPSESKNGTNRNRVRMFGKDKLNSSAAEEKWDRVKIVCTQPFNKTVQYGLSF 145
BRCT_XRCC1_rpt1 cd17725
First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar ...
 427-505 1.21e-46

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: 158.59  E-value: 1.21e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 427 GVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKG-KGKIVTRSWIEKCYELKKYLPWRRY 505
Cdd:cd17725   1 GVVFVLSGFQNPFRGELRDKALEMGAKYRPDWTADCTHLICAFANTPKYKQVKGaGGIIVSKEWILDCYKKKKRLPWKRY 80
BRCT pfam00533
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ...
 424-494 1.95e-11

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: 60.00  E-value: 1.95e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18858235   424 LLKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAfKNTPKYNQVKGKG-KIVTRSWIEKCY 494
Cdd:pfam00533   5 LFSGKTFVITGLDGLERDELKELIEKLGGKVTDSLSKKTTHVIVE-ARTKKYLKAKELGiPIVTEEWLLDCI 75
BRCT smart00292
breast cancer carboxy-terminal domain;
424-494 8.58e-08

breast cancer carboxy-terminal domain;


Pssm-ID: 214602 [Multi-domain]  Cd Length: 78  Bit Score: 49.68  E-value: 8.58e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18858235    424 LLKGVVLVISGI-QNPDRADLRSKAVALGAKYKADWGSG-CTHLICAFKNTPKYNQVKGKG---KIVTRSWIEKCY 494
Cdd:smart00292   3 LFKGKTFYITGSfDKEERDELKELIEALGGKVTSSLSSKtTTHVIVGSPEGGKLELLKAIAlgiPIVKEEWLLDCL 78
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 285-379 1.41e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 44.88  E-value: 1.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   285 KKQRLSKHLEADKDRRRLEQEKERESR-KKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLRKEERSHSKEE 363
Cdd:TIGR01642  25 RRRSRDRSRFRDRHRRSRERSYREDSRpRDRRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVRSIEQHRRRLRDRSPSNQW 104

                          90
                  ....*....|....*.
gi 18858235   364 KSRRKEKSKHDHRSSD 379
Cdd:TIGR01642 105 RKDDKKRSLWDIKPPG 120
PTZ00121 PTZ00121
MAEBL; Provisional
 274-394 3.40e-04

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 43.98  E-value: 3.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   274 DEDVKDAEVNAKKQRLSKHLEADKDRRRLEQEKERESRKKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLR 353
Cdd:PTZ00121 1473 DEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELK 1552

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 18858235   354 KEERSHSKEEKSRRKEKSKHDHRSSDTSNSKESSRPTAQKR 394
Cdd:PTZ00121 1553 KAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEAR 1593
NRP1_C pfam20427
Nuclear speckle splicing regulatory protein 1, RS-like domain; This domain found at the ...
 281-389 3.34e-03

Nuclear speckle splicing regulatory protein 1, RS-like domain; This domain found at the C-terminal of Nuclear speckle splicing regulatory protein 1 (NRP1, also known as Nuclear speckle-related protein 70 and Coiled-coil domain-containing protein 55). This is the RS-like domain, that resembles the arginine/serine-rich (RS) domain in other SR proteins, interacts with two SR proteins and with target mRNA, being essential for NRP1 activity. NRP1 is a RNA-binding protein that mediates pre-mRNA alternative splicing regulation.


Pssm-ID: 466576 [Multi-domain]  Cd Length: 174  Bit Score: 38.67  E-value: 3.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   281 EVNAKKQRLSKHLEADKDRRRLEQEKE-RESRKKKSSRHSLDKSISKEDKPPAKEHNSSSrEKSTAKEEKEQLRKEErsH 359
Cdd:pfam20427  56 EASHRDSHWKRHEQEDKLRGRDQRERNdREWKREKYSSREQERDRQRNDHDRHSEKGEKE-EKSKEKEEHMKGRKER--Y 132

                          90       100       110
                  ....*....|....*....|....*....|
gi 18858235   360 SKEEKSRRKEKSKHDHRSSDTSNSKESSRP 389
Cdd:pfam20427 133 ENSDKYRDREKQEVSVQSSERNRDRKESSP 162
 
Name Accession Description Interval E-value
XRCC1_N pfam01834
XRCC1 N terminal domain;
1-144 2.36e-69

XRCC1 N terminal domain;


Pssm-ID: 460356  Cd Length: 148  Bit Score: 221.34  E-value: 2.36e-69
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235     1 MPIALFKSVREVSSEDAVHVAANLLKENAGKKWRTKAPGEKSAYVVLEFEEPQQITGIDIGNEHAAFIEVLVSRTG-CQA 79
Cdd:pfam01834   1 MPPIKLKHVVSCSSEDPVHPAENLLKSDTYRKWKCAKPGEKQASVELQLERASQITSIDIGNEGSAFVEVLVGRSSwPDD 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18858235    80 DDFRELLLSSSFMTPIESKNSSNPNRVRCFSSTSLAESALPEKWKLLQIVCTQPFNRHVPYGLSF 144
Cdd:pfam01834  81 QDFEVLLVTSSFMTPSESKNGTNRNRVRMFGKDKLNSSAAEEKWDRVKIVCTQPFNKTVQYGLSF 145
BRCT_XRCC1_rpt1 cd17725
First (central) BRCT domain in X-ray repair cross-complementing protein 1 (XRCC1) and similar ...
 427-505 1.21e-46

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: 158.59  E-value: 1.21e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 427 GVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKG-KGKIVTRSWIEKCYELKKYLPWRRY 505
Cdd:cd17725   1 GVVFVLSGFQNPFRGELRDKALEMGAKYRPDWTADCTHLICAFANTPKYKQVKGaGGIIVSKEWILDCYKKKKRLPWKRY 80
BRCT_TopBP1_rpt2_like cd17731
second BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 425-497 1.05e-12

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: 63.71  E-value: 1.05e-12
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 18858235 425 LKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKY------NQVkgkgKIVTRSWIEKCYELK 497
Cdd:cd17731   3 FKGLVICVTGFDSEERKEIQQLVEQNGGSYSPDLSKNCTHLIAGSPSGQKYefarkwNSI----HIVTPEWLYDSIEAG 77
BRCT cd00027
C-terminal domain of the breast cancer suppressor protein (BRCA1) and related domains; The ...
 428-493 1.32e-12

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: 63.15  E-value: 1.32e-12
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 18858235 428 VVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQ--VKGKGKIVTRSWIEKC 493
Cdd:cd00027   1 LVICFSGLDDEEREELKKLIEALGGKVSESLSSKVTHLIAKSPSGEKYYLaaLAWGIPIVSPEWLLDC 68
BRCT_CTDP1 cd17729
BRCT domain of RNA polymerase II subunit A C-terminal domain phosphatase (CTDP1) and similar ...
 423-504 1.52e-11

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: 61.01  E-value: 1.52e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 423 QLLKGVVLVISGI----QNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKGKG--KIVTRSWIEKCYEL 496
Cdd:cd17729  12 KVLKGCVIVFSGViptgIDPERSRLWKLAESLGAKVVTDLSPRTTHLVAAKLGTEKVKQALKMPgiHVVHPDWLWACAER 91


                ....*...
gi 18858235 497 kkylpWRR 504
Cdd:cd17729  92 -----WER 94
BRCT pfam00533
BRCA1 C Terminus (BRCT) domain; The BRCT domain is found predominantly in proteins involved in ...
 424-494 1.95e-11

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: 60.00  E-value: 1.95e-11
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18858235   424 LLKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAfKNTPKYNQVKGKG-KIVTRSWIEKCY 494
Cdd:pfam00533   5 LFSGKTFVITGLDGLERDELKELIEKLGGKVTDSLSKKTTHVIVE-ARTKKYLKAKELGiPIVTEEWLLDCI 75
BRCT_Rad4_rpt1 cd17740
first BRCT domain of Schizosaccharomyces pombe S-M checkpoint control protein Rad4 and similar ...
 425-495 9.90e-10

first BRCT domain of Schizosaccharomyces pombe S-M checkpoint control protein Rad4 and similar proteins; Rad4, also termed P74, or protein cut5, is an essential component for DNA replication and the checkpoint control system which couples the S and M phases. It may directly or indirectly interact with chromatin proteins to form the complex required for the initiation and/or progression of DNA synthesis. Rad4 contains four BRCT repeats. The family corresponds to the first one.


Pssm-ID: 349371  Cd Length: 82  Bit Score: 55.18  E-value: 9.90e-10
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 18858235 425 LKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQV---KGKGKIVTRSWIEKCYE 495
Cdd:cd17740   3 LSGIVLCCTSIPAEQRTEIATKASKMGAAYTADLTSDVTHLVAGQVNTTKYKFAarsRPDIKVMTVEWVEHLYE 76
BRCT smart00292
breast cancer carboxy-terminal domain;
424-494 8.58e-08

breast cancer carboxy-terminal domain;


Pssm-ID: 214602 [Multi-domain]  Cd Length: 78  Bit Score: 49.68  E-value: 8.58e-08
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18858235    424 LLKGVVLVISGI-QNPDRADLRSKAVALGAKYKADWGSG-CTHLICAFKNTPKYNQVKGKG---KIVTRSWIEKCY 494
Cdd:smart00292   3 LFKGKTFYITGSfDKEERDELKELIEALGGKVTSSLSSKtTTHVIVGSPEGGKLELLKAIAlgiPIVKEEWLLDCL 78
BRCT_TopBP1_rpt6 cd17727
sixth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 425-495 2.19e-07

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: 48.36  E-value: 2.19e-07
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18858235 425 LKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPK---YNQVKGKGK-IVTRSWIEKCYE 495
Cdd:cd17727   1 LKGVVICVSKKLSKRQGELNKIAASLGAEYRWTYDESCTHFIYQGKANDTnreYKSAKEQGKfIVSPHWLYACKE 75
BRCT_PAXIP1_rpt3 cd17711
third BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also ...
 427-501 2.30e-07

third 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 third BRCT domain.


Pssm-ID: 349343  Cd Length: 81  Bit Score: 48.41  E-value: 2.30e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 427 GVVLVISGIQN----PDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKGKGK-IVTRSWIEKCYELKKYLP 501
Cdd:cd17711   1 GCVFFIADYPEqmgdQEIATWKKVIEEHGGEVVDEYSPRVTHVICESQDSPEYQQALRDGKrVVTAYWLNDVLKRGKLLP 80
BRCT_Rev1 cd17719
BRCT domain of DNA repair protein Rev1 and similar proteins; REV1, also termed alpha ...
 424-507 2.97e-07

BRCT domain of DNA repair protein Rev1 and similar proteins; REV1, also termed alpha integrin-binding protein 80, or AIBP80, or Rev1-like terminal deoxycytidyl transferase, is a DNA template-dependent dCMP transferase required for mutagenesis induced by UV light.


Pssm-ID: 349351 [Multi-domain]  Cd Length: 87  Bit Score: 48.33  E-value: 2.97e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 424 LLKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSG-CTHLICAFKNTPKYNQVKGKG--KIVTRSWIEKCYELKKYL 500
Cdd:cd17719   1 IFKGVVIYVNGYTDPSADELKRLILLHGGQYEHYYSRSrVTHIIATNLPGSKIKKLKKARnyKVVRPEWIVDSIKAGRLL 80


                ....*..
gi 18858235 501 PWRRYAL 507
Cdd:cd17719  81 PEAPYLL 87
PTCB-BRCT pfam12738
twin BRCT domain; This is a BRCT domain that appears in duplicate in most member sequences. ...
 428-489 6.07e-07

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: 46.81  E-value: 6.07e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 18858235   428 VVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKGKG-KIVTRSW 489
Cdd:pfam12738   1 LVICVTGFDGDDREGLQKLIEAMGAEYTKDLTKSVTHLICKSGEGEKYEKAKEWGiPVVSPLW 63
BRCT_PAXIP1_rpt2 cd17710
second BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also ...
 424-501 1.95e-06

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: 46.07  E-value: 1.95e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 424 LLKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQV--KGKGKIVTRSWIEKCYELKKYLP 501
Cdd:cd17710   1 LFSGVVVCPSQISAEDRLKLWAMVTFHGGKCQLNLDKKCTHLVTGKASGAKYECAlkHEGIKIVTPDWVTDCIKAKTLLD 80
BRCT_PAXIP1_rpt4 cd17730
fourth BRCT domain of PAX-interacting protein 1 (PAXIP1) and similar proteins; PAXIP1, also ...
 428-494 1.86e-05

fourth 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 fourth BRCT domain.


Pssm-ID: 349362 [Multi-domain]  Cd Length: 73  Bit Score: 43.00  E-value: 1.86e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 428 VVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICafKNTP--KYNQVKG-KGKIVTRSWIEKCY 494
Cdd:cd17730   1 QVISVTGFDGSEREDIKRMIELMGAKYTGYLTRSNTHLIC--KRPEgeKYEKAKEwRIPVVNAQWLEDIL 68
BRCT_2 pfam16589
BRCT domain, a BRCA1 C-terminus domain; This BRCT domain, a BRCA1 C-terminus region, is found ...
 421-505 4.33e-05

BRCT domain, a BRCA1 C-terminus domain; This BRCT domain, a BRCA1 C-terminus region, is found on many RAP1 proteins, usually at the very N-terminus. The function in human at least of a BRCT is to contribute to the heterogeneity of the telomere DNA length, but that may not be its general function, which remains unknown.


Pssm-ID: 465186 [Multi-domain]  Cd Length: 84  Bit Score: 42.35  E-value: 4.33e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   421 LNQLLKGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKGKGkIVTRSWIEKCYELKKYL 500
Cdd:pfam16589   1 LPNLFEPLRFYINAIPSPSRSKLKRLIEANGGTVVDNINPAVYIVIAPYNKTDKLAENTKLG-VVSPQWIFDCVKKGKLL 79


                  ....*
gi 18858235   501 PWRRY 505
Cdd:pfam16589  80 PLENY 84
BRCT_microcephalin_rpt1 cd17716
first (N-terminal) BRCT domain of microcephalin and similar proteins; Microcephalin is a DNA ...
 441-500 8.61e-05

first (N-terminal) 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 first repeat.


Pssm-ID: 349348 [Multi-domain]  Cd Length: 78  Bit Score: 41.03  E-value: 8.61e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 18858235 441 ADLRSKAVALGAKYKADWGSGCTHLIcaFKN--TPKYNQVKGKG-KIVTRSWIEKCYELKKYL 500
Cdd:cd17716  18 SAFRSILEELGAKVVKRLTKTVTHVV--FKDgsQSTLEKAKKRNvKLVSPLWVEACKETGKRV 78
BRCT_TopBP1_rpt7 cd17738
seventh BRCT domain of DNA topoisomerase 2-binding protein 1; TopBP1, also termed DNA ...
 429-497 1.34e-04

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: 40.63  E-value: 1.34e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18858235 429 VLVISGIQNPDRADLRSKAVALGAKY--KADWGSGCTHLICAfknTPKYNQ------VKGKgKIVTRSWIEKCYELK 497
Cdd:cd17738   3 VFLLSGFSEDEKKELISIIEKLGGKVldSDEFDPKCTHLICG---KPSRSEkflaacAAGK-WILHPSYIEASAKAG 75
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 285-379 1.41e-04

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 44.88  E-value: 1.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   285 KKQRLSKHLEADKDRRRLEQEKERESR-KKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLRKEERSHSKEE 363
Cdd:TIGR01642  25 RRRSRDRSRFRDRHRRSRERSYREDSRpRDRRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVRSIEQHRRRLRDRSPSNQW 104

                          90
                  ....*....|....*.
gi 18858235   364 KSRRKEKSKHDHRSSD 379
Cdd:TIGR01642 105 RKDDKKRSLWDIKPPG 120
PTZ00121 PTZ00121
MAEBL; Provisional
 274-394 3.40e-04

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 43.98  E-value: 3.40e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   274 DEDVKDAEVNAKKQRLSKHLEADKDRRRLEQEKERESRKKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLR 353
Cdd:PTZ00121 1473 DEAKKKAEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAEEKKKADELK 1552

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 18858235   354 KEERSHSKEEKSRRKEKSKHDHRSSDTSNSKESSRPTAQKR 394
Cdd:PTZ00121 1553 KAEELKKAEEKKKAEEAKKAEEDKNMALRKAEEAKKAEEAR 1593
BRCT_nibrin cd17741
BRCT domain of nibrin and similar proteins; Nibrin (NBN), also termed Nijmegen breakage ...
 428-491 3.95e-04

BRCT domain of nibrin and similar proteins; Nibrin (NBN), also termed Nijmegen breakage syndrome protein 1 (NBS1), or cell cycle regulatory protein p95, is a novel DNA double-strand break repair protein that is mutated in Nijmegen breakage syndrome. It is a component of the MRE11-RAD50-NBN (MRN complex) which plays a critical role in the cellular response to DNA damage and the maintenance of chromosome integrity. The BRCT (Breast Cancer Suppressor Protein BRCA1, carboxy-terminal) domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks. The Trp-X-X-X-Cys/Ser signature motif of the BRCT family is absent in this group.


Pssm-ID: 349372 [Multi-domain]  Cd Length: 74  Bit Score: 39.12  E-value: 3.95e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18858235 428 VVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICA-FKNTPKYNQVKGKGK-IVTRSWIE 491
Cdd:cd17741   3 LVVCSSCLDSEEKKKLKQIIAKLGGKVVNEWTEECTHLVMSkIKVTVKVICALISGKpIVTPEYLD 68
BRCT_BRC1_like_rpt2 cd18436
second BRCT domain of Schizosaccharomyces pombe BRCT-containing protein 1 (BRC1) and similar ...
 426-493 4.30e-04

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: 39.14  E-value: 4.30e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18858235 426 KGVVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICAFKNTPKYNQVKG----KGKIVTRSWIEKC 493
Cdd:cd18436   2 SGVVITCSDLPSGDKEAIYGGVLALGGQYSDELTRDVTHLIALSPDGDKYKTALKrpelNIKIVLPHWFDDC 73
PTZ00121 PTZ00121
MAEBL; Provisional
 278-372 1.68e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 41.67  E-value: 1.68e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   278 KDAEVNAKKQRLSKHLEADKDRRRLEQEKERESRKKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLRKEER 357
Cdd:PTZ00121 1614 KAEEAKIKAEELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAEEAKKAEEDEKKAAEA 1693

                          90
                  ....*....|....*
gi 18858235   358 SHSKEEKSRRKEKSK 372
Cdd:PTZ00121 1694 LKKEAEEAKKAEELK 1708
PTZ00121 PTZ00121
MAEBL; Provisional
 275-393 2.19e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 41.28  E-value: 2.19e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   275 EDVKDAEVNAKKQRLSKHLEADKDRRRLEQEKERESRKKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEKEQLRK 354
Cdd:PTZ00121 1299 EEKKKADEAKKKAEEAKKADEAKKKAEEAKKKADAAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAEKKKEEAKK 1378

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 18858235   355 E-ERSHSKEEKSRR----KEKSKHDHRSSDTSNSKESSRPTAQK 393
Cdd:PTZ00121 1379 KaDAAKKKAEEKKKadeaKKKAEEDKKKADELKKAAAAKKKADE 1422
BRCT_Bard1_rpt1 cd17734
first BRCT domain of BRCA1-associated RING domain protein 1 (Bard1) and similar proteins; ...
 428-498 2.45e-03

first BRCT domain of BRCA1-associated RING domain protein 1 (Bard1) and similar proteins; Bard1, also termed BARD-1, or RING-type E3 ubiquitin transferase BARD1, is a critical factor in BRCA1-mediated tumor suppression and may also serve as a target for tumorigenic lesions in some human cancers. It associates with BRCA1 (breast cancer-1) to form a heterodimeric BRCA1/BARD1 complex that is responsible for maintaining genomic stability through nuclear functions involving DNA damage signaling and repair, transcriptional regulation, and cell cycle control. The BRCA1/BARD1 complex catalyzes autoubiquitination of BRCA1 and trans ubiquitination of other protein substrates. Its E3 ligase activity is dramatically reduced in the presence of UBX domain protein 1 (UBXN1). BARD-1 contains an N-terminal C3HC4-type RING-HC finger that binds BRCA1, and a C-terminal region with three ankyrin repeats and tandem BRCT domains that bind CstF-50 (cleavage stimulation factor) to modulate mRNA processing and RNAP II stability in response to DNA damage. The family corresponds to the first BRCT domain.


Pssm-ID: 349366  Cd Length: 80  Bit Score: 37.20  E-value: 2.45e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 18858235 428 VVLVISGIQNPDRADLRSKAVALGAKYKADWGSGCTHLICA------FKNTPKYNQVKGKGK-IVTRSWIEKCYELKK 498
Cdd:cd17734   1 LVLLGSGLSSEQKKLLEKLAQLLKAKVVTEFSPEVTHVVVPadergvCPRTMKYLMGILAGKwIVSFEWVEACLKAKK 78
PRK00409 PRK00409
recombination and DNA strand exchange inhibitor protein; Reviewed
 264-434 2.50e-03

recombination and DNA strand exchange inhibitor protein; Reviewed


Pssm-ID: 234750 [Multi-domain]  Cd Length: 782  Bit Score: 40.97  E-value: 2.50e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235  264 NRASLLFGDDDEDVKD--AEVNAKKQRL--------SKHLEADKDRRRLEQEKERESRKKKSSRHSLDKSISKEDKppak 333
Cdd:PRK00409 505 EEAKKLIGEDKEKLNEliASLEELERELeqkaeeaeALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIK---- 580

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235  334 ehnsssreksTAKEEKEQLRKEERSHSKEEKSRRKEK-SKHDHRSSDTSNSKESSRPTAQKRhssptavavtPAKKQKIV 412
Cdd:PRK00409 581 ----------EAKKEADEIIKELRQLQKGGYASVKAHeLIEARKRLNKANEKKEKKKKKQKE----------KQEELKVG 640

                        170       180
                 ....*....|....*....|..
gi 18858235  413 DTaIQYRPLNQllKGVVLVISG 434
Cdd:PRK00409 641 DE-VKYLSLGQ--KGEVLSIPD 659
BRCT_TopBP1_rpt5 cd18434
fifth BRCT domain of DNA topoisomerase 2-binding protein 1 (TopBP1) and similar proteins; ...
 425-501 2.95e-03

fifth 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 fifth BRCT domain.


Pssm-ID: 349387  Cd Length: 89  Bit Score: 37.28  E-value: 2.95e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235 425 LKGVVLVISGIQNPDRADLRSKAVALGAK------YKADWGSG---CTHLICAFKNTPKYNQVKgKGKI--VTRSWIEKC 493
Cdd:cd18434   2 LNGCVISVSQFTGTERDCLTHLAELLGAKvqdyfvRKANPSKGllaSTHLVLKEPEGSKYEAAK-KWNLpaVTKSWLFEC 80


                ....*...
gi 18858235 494 YELKKYLP 501
Cdd:cd18434  81 ARTGKKVP 88
NRP1_C pfam20427
Nuclear speckle splicing regulatory protein 1, RS-like domain; This domain found at the ...
 281-389 3.34e-03

Nuclear speckle splicing regulatory protein 1, RS-like domain; This domain found at the C-terminal of Nuclear speckle splicing regulatory protein 1 (NRP1, also known as Nuclear speckle-related protein 70 and Coiled-coil domain-containing protein 55). This is the RS-like domain, that resembles the arginine/serine-rich (RS) domain in other SR proteins, interacts with two SR proteins and with target mRNA, being essential for NRP1 activity. NRP1 is a RNA-binding protein that mediates pre-mRNA alternative splicing regulation.


Pssm-ID: 466576 [Multi-domain]  Cd Length: 174  Bit Score: 38.67  E-value: 3.34e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   281 EVNAKKQRLSKHLEADKDRRRLEQEKE-RESRKKKSSRHSLDKSISKEDKPPAKEHNSSSrEKSTAKEEKEQLRKEErsH 359
Cdd:pfam20427  56 EASHRDSHWKRHEQEDKLRGRDQRERNdREWKREKYSSREQERDRQRNDHDRHSEKGEKE-EKSKEKEEHMKGRKER--Y 132

                          90       100       110
                  ....*....|....*....|....*....|
gi 18858235   360 SKEEKSRRKEKSKHDHRSSDTSNSKESSRP 389
Cdd:pfam20427 133 ENSDKYRDREKQEVSVQSSERNRDRKESSP 162
DUF5401 pfam17380
Family of unknown function (DUF5401); This is a family of unknown function found in ...
 281-419 4.17e-03

Family of unknown function (DUF5401); This is a family of unknown function found in Chromadorea.


Pssm-ID: 375164 [Multi-domain]  Cd Length: 722  Bit Score: 40.11  E-value: 4.17e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   281 EVNAKKQRLSKHLEADKDRRRLEQEKERESRKKKSSRHSLdksisKEDKPPAKEHNSSSREKSTAKE-EKEQLRKEERSH 359
Cdd:pfam17380 386 ERQQKNERVRQELEAARKVKILEEERQRKIQQQKVEMEQI-----RAEQEEARQREVRRLEEERAREmERVRLEEQERQQ 460

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18858235   360 SKE-----EKSRRKEKSKHDHRSSDTSNSKESSRPTAQKRHSSPTAVAVTPAKKQKIVDTAIQYR 419
Cdd:pfam17380 461 QVErlrqqEEERKRKKLELEKEKRDRKRAEEQRRKILEKELEERKQAMIEEERKRKLLEKEMEER 525
DUF5401 pfam17380
Family of unknown function (DUF5401); This is a family of unknown function found in ...
 275-420 5.26e-03

Family of unknown function (DUF5401); This is a family of unknown function found in Chromadorea.


Pssm-ID: 375164 [Multi-domain]  Cd Length: 722  Bit Score: 39.72  E-value: 5.26e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   275 EDVKDAEVNAKKQ--RLSKHlEADKDRRRLEQEKERESRK--KKSSRHSLDKS--------ISKEDKPPAKEHNSSSREK 342
Cdd:pfam17380 449 ERVRLEEQERQQQveRLRQQ-EEERKRKKLELEKEKRDRKraEEQRRKILEKEleerkqamIEEERKRKLLEKEMEERQK 527

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   343 STAKEEKEQLRKEERSHSKEEKSRRKEKSKHdhrssdTSNSKESSRPTAQKRHSSPTAVAVTPAKKQKIVDTAIQ----- 417
Cdd:pfam17380 528 AIYEEERRREAEEERRKQQEMEERRRIQEQM------RKATEERSRLEAMEREREMMRQIVESEKARAEYEATTPittik 601


                  ....*
gi 18858235   418 --YRP 420
Cdd:pfam17380 602 piYRP 606
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 296-388 5.51e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 39.52  E-value: 5.51e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   296 DKDRRRlEQEKERESRKKKSSRHSLDKSISKE---DKPPAKEHNSSSREKSTAKEEKEQLRKEERSHSKEEKSRRKEKSK 372
Cdd:TIGR01622  18 DRDRRR-DKGRERSRDRSRDRERSRSRRRDRHrdrDYYRGRERRSRSRRPNRRYRPREKRRRRGDSYRRRRDDRRSRREK 96

                          90
                  ....*....|....*.
gi 18858235   373 HDHRSSDTSNSKESSR 388
Cdd:TIGR01622  97 PRARDGTPEPLTEDER 112
PRK12704 PRK12704
phosphodiesterase; Provisional
 278-417 5.54e-03

phosphodiesterase; Provisional


Pssm-ID: 237177 [Multi-domain]  Cd Length: 520  Bit Score: 39.76  E-value: 5.54e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235  278 KDAEVNAKKQRLSKHLEADKDRR-----------RLEQEKERESRKKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAK 346
Cdd:PRK12704  56 KEALLEAKEEIHKLRNEFEKELRerrnelqklekRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEE 135

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 18858235  347 EEKEQLRKEER--SHSKEE-----KSRRKEKSKHDhRSSDTSNSKESSRPTAQKRhssptavavtpAKkqKIVDTAIQ 417
Cdd:PRK12704 136 LIEEQLQELERisGLTAEEakeilLEKVEEEARHE-AAVLIKEIEEEAKEEADKK-----------AK--EILAQAIQ 199
PTZ00121 PTZ00121
MAEBL; Provisional
 275-369 6.96e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 39.74  E-value: 6.96e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   275 EDVKDAEVNAKKQRLSKHLEADKDRRRLEQEKERESRKKKSSRhslDKSISKEDKPPAKEHNSSSREKstaKEEKEQLRK 354
Cdd:PTZ00121 1623 EELKKAEEEKKKVEQLKKKEAEEKKKAEELKKAEEENKIKAAE---EAKKAEEDKKKAEEAKKAEEDE---KKAAEALKK 1696

                          90
                  ....*....|....*
gi 18858235   355 EERSHSKEEKSRRKE 369
Cdd:PTZ00121 1697 EAEEAKKAEELKKKE 1711
PTZ00121 PTZ00121
MAEBL; Provisional
 275-394 7.14e-03

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 39.74  E-value: 7.14e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   275 EDVKDAEVNAKKQRLSKHLEADK--DRRRLEQEKERESRKKKSSRHSLDKSISKEDKPPAKEHNSSSREKSTAKEEK--- 349
Cdd:PTZ00121 1543 EEKKKADELKKAEELKKAEEKKKaeEAKKAEEDKNMALRKAEEAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKika 1622

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 18858235   350 EQLRKEERSHSK--------EEKSRRKEKSKHDHRSSDTSNSKESSRPTAQKR 394
Cdd:PTZ00121 1623 EELKKAEEEKKKveqlkkkeAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKK 1675
U2AF_lg TIGR01642
U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of ...
 283-405 7.35e-03

U2 snRNP auxilliary factor, large subunit, splicing factor; These splicing factors consist of an N-terminal arginine-rich low complexity domain followed by three tandem RNA recognition motifs (pfam00076). The well-characterized members of this family are auxilliary components of the U2 small nuclear ribonuclearprotein splicing factor (U2AF). These proteins are closely related to the CC1-like subfamily of splicing factors (TIGR01622). Members of this subfamily are found in plants, metazoa and fungi.


Pssm-ID: 273727 [Multi-domain]  Cd Length: 509  Bit Score: 39.11  E-value: 7.35e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18858235   283 NAKKQRLSKHLEADKDRRRleqekeRESRKKKSSRH--SLDKSISKEDKpPAKEHNSSSREKSTAkEEKEQLRKEERSHS 360
Cdd:TIGR01642   9 REKSRGRDRDRSSERPRRR------SRDRSRFRDRHrrSRERSYREDSR-PRDRRRYDSRSPRSL-RYSSVRRSRDRPRR 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 18858235   361 KEEKSRRKEKSKHDHRSSDTSNS-KESSRPTAQKRHSSPTAVAVTP 405
Cdd:TIGR01642  81 RSRSVRSIEQHRRRLRDRSPSNQwRKDDKKRSLWDIKPPGYELVTA 126
 
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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