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Conserved domains on  [gi|862669351|ref|NP_056271|]
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negative elongation factor B [Homo sapiens]

Protein Classification

COBRA1 domain-containing protein( domain architecture ID 10533225)

COBRA1 domain-containing protein

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
COBRA1 pfam06209
Cofactor of BRCA1 (COBRA1); This family consists of several cofactor of BRCA1 (COBRA1) like ...
155-498 0e+00

Cofactor of BRCA1 (COBRA1); This family consists of several cofactor of BRCA1 (COBRA1) like proteins. It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganization of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions.


:

Pssm-ID: 461851  Cd Length: 346  Bit Score: 685.66  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  155 PSLQPVVMCVMKHLPKVPEKKLKLVMADKELYRACAVEVKRQIWQDNQALFGDEVSPLLKQYILEKESALFSTELSVLHN 234
Cdd:pfam06209   1 KSLRPVVMCVLKHLPKIPDKYLKVLVADKELYRDCATEVKRQIWQDNQALFGDEVSPLLSQYIKEKETILFSHELNLSNN 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  235 FFSPSPKTRRQGEVVQRLTRMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDVGEICTVDPCHKFTWCL 314
Cdd:pfam06209  81 FFSPSPKTRRQGEVVQKLAHMIGKSVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMALHDLEVQDICSVDPCHKFTWCL 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  315 DACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFAINTLALSTVRHLQELVGQETLPRDSPDLLLLLRLLA 394
Cdd:pfam06209 161 DACIREKFVDSKRARELQGFLDGVKRGQEQVLGDLSMILCDPFAINTLALSAIKILQHLINNETLPRDSPDLMLLLRMLA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  395 LGQGAWDMIDSQVFKEPKMEVELITRFLPMLMSFLVDDYTFNVDQKLPAEEKAP--VSYPNTLPESFTKFLQEQRMACEV 472
Cdd:pfam06209 241 LGLSAWDMIDSQVFKEPKLDVELVTKFLPALMSLMVDDQVRNLNQKLPPDEKESaiVEHSGPLPDSFQKFIQENRVACEL 320
                         330       340
                  ....*....|....*....|....*.
gi 862669351  473 GLYYVLHITKQRNKNALLRLLPGLVE 498
Cdd:pfam06209 321 ALYYTLHVTKQKDKNALLRVLPILVS 346
 
Name Accession Description Interval E-value
COBRA1 pfam06209
Cofactor of BRCA1 (COBRA1); This family consists of several cofactor of BRCA1 (COBRA1) like ...
155-498 0e+00

Cofactor of BRCA1 (COBRA1); This family consists of several cofactor of BRCA1 (COBRA1) like proteins. It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganization of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions.


Pssm-ID: 461851  Cd Length: 346  Bit Score: 685.66  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  155 PSLQPVVMCVMKHLPKVPEKKLKLVMADKELYRACAVEVKRQIWQDNQALFGDEVSPLLKQYILEKESALFSTELSVLHN 234
Cdd:pfam06209   1 KSLRPVVMCVLKHLPKIPDKYLKVLVADKELYRDCATEVKRQIWQDNQALFGDEVSPLLSQYIKEKETILFSHELNLSNN 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  235 FFSPSPKTRRQGEVVQRLTRMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDVGEICTVDPCHKFTWCL 314
Cdd:pfam06209  81 FFSPSPKTRRQGEVVQKLAHMIGKSVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMALHDLEVQDICSVDPCHKFTWCL 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  315 DACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFAINTLALSTVRHLQELVGQETLPRDSPDLLLLLRLLA 394
Cdd:pfam06209 161 DACIREKFVDSKRARELQGFLDGVKRGQEQVLGDLSMILCDPFAINTLALSAIKILQHLINNETLPRDSPDLMLLLRMLA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  395 LGQGAWDMIDSQVFKEPKMEVELITRFLPMLMSFLVDDYTFNVDQKLPAEEKAP--VSYPNTLPESFTKFLQEQRMACEV 472
Cdd:pfam06209 241 LGLSAWDMIDSQVFKEPKLDVELVTKFLPALMSLMVDDQVRNLNQKLPPDEKESaiVEHSGPLPDSFQKFIQENRVACEL 320
                         330       340
                  ....*....|....*....|....*.
gi 862669351  473 GLYYVLHITKQRNKNALLRLLPGLVE 498
Cdd:pfam06209 321 ALYYTLHVTKQKDKNALLRVLPILVS 346
 
Name Accession Description Interval E-value
COBRA1 pfam06209
Cofactor of BRCA1 (COBRA1); This family consists of several cofactor of BRCA1 (COBRA1) like ...
155-498 0e+00

Cofactor of BRCA1 (COBRA1); This family consists of several cofactor of BRCA1 (COBRA1) like proteins. It is thought that COBRA1 along with BRCA1 is involved in chromatin unfolding. COBRA1 is recruited to the chromosome site by the first BRCT repeat of BRCA1, and is itself sufficient to induce chromatin unfolding. BRCA1 mutations that enhance chromatin unfolding also increase its affinity for, and recruitment of, COBRA1. It is thought that that reorganization of higher levels of chromatin structure is an important regulated step in BRCA1-mediated nuclear functions.


Pssm-ID: 461851  Cd Length: 346  Bit Score: 685.66  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  155 PSLQPVVMCVMKHLPKVPEKKLKLVMADKELYRACAVEVKRQIWQDNQALFGDEVSPLLKQYILEKESALFSTELSVLHN 234
Cdd:pfam06209   1 KSLRPVVMCVLKHLPKIPDKYLKVLVADKELYRDCATEVKRQIWQDNQALFGDEVSPLLSQYIKEKETILFSHELNLSNN 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  235 FFSPSPKTRRQGEVVQRLTRMVGKNVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMSLHDLDVGEICTVDPCHKFTWCL 314
Cdd:pfam06209  81 FFSPSPKTRRQGEVVQKLAHMIGKSVKLYDMVLQFLRTLFLRTRNVHYCTLRAELLMALHDLEVQDICSVDPCHKFTWCL 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  315 DACIRERFVDSKRARELQGFLDGVKKGQEQVLGDLSMILCDPFAINTLALSTVRHLQELVGQETLPRDSPDLLLLLRLLA 394
Cdd:pfam06209 161 DACIREKFVDSKRARELQGFLDGVKRGQEQVLGDLSMILCDPFAINTLALSAIKILQHLINNETLPRDSPDLMLLLRMLA 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 862669351  395 LGQGAWDMIDSQVFKEPKMEVELITRFLPMLMSFLVDDYTFNVDQKLPAEEKAP--VSYPNTLPESFTKFLQEQRMACEV 472
Cdd:pfam06209 241 LGLSAWDMIDSQVFKEPKLDVELVTKFLPALMSLMVDDQVRNLNQKLPPDEKESaiVEHSGPLPDSFQKFIQENRVACEL 320
                         330       340
                  ....*....|....*....|....*.
gi 862669351  473 GLYYVLHITKQRNKNALLRLLPGLVE 498
Cdd:pfam06209 321 ALYYTLHVTKQKDKNALLRVLPILVS 346
 
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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