7E8I | pdb_00007e8i

Structural insight into BRCA1-BARD1 complex recruitment to damaged chromatin


Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

ChainsDomain InfoClassFoldSuperfamilyFamilyDomainSpeciesProvenance Source (Version)
C [auth A]d7e8ia_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones Histone H3 African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
G [auth E]d7e8ie_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones Histone H3 African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
D [auth B]d7e8ib_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones Histone H4 African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
H [auth F]d7e8if_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones Histone H4 African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
E [auth C]d7e8ic_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones automated matches African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
I [auth G]d7e8ig_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones automated matches African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
F [auth D]d7e8id_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones Histone H2B African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
J [auth H]d7e8ih_ All alpha proteins Histone-fold Histone-fold Nucleosome core histones Histone H2B African clawed frog (Xenopus laevis ) [TaxId: 8355 ], SCOPe (2.08)
Ld7e8il_ Alpha and beta proteins (a+b) beta-Grasp (ubiquitin-like) Ubiquitin-like Ubiquitin-related Ubiquitin Human (Homo sapiens ) [TaxId: 9606 ], SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
C [auth A]SCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
G [auth E]SCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
D [auth B]SCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
H [auth F]SCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
E [auth C]SCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
I [auth G]SCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
F [auth D]SCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
J [auth H]SCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyBRCT domain-like 8091657 3000159 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyAnkyrin repeat 8057709 3000154 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyBRCT domain-like 8004132 3000159 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyUbiquitin-like 8101457 3000157 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
C [auth A]Histonee7e8iA1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
G [auth E]Histonee7e8iE1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
D [auth B]Histone_1e7e8iB1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
H [auth F]Histone_1e7e8iF1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
E [auth C]Histone_1e7e8iC1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
I [auth G]Histone_1e7e8iG1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: Histone_1ECOD (1.6)
F [auth D]Histonee7e8iD1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
J [auth H]Histonee7e8iH1 A: alpha arraysX: Histone-likeH: Histone-relatedT: HistoneF: HistoneECOD (1.6)
KAnk_2e7e8iK1 A: alpha superhelicesX: Repetitive alpha hairpinsH: Ankyrin repeat (From Topology)T: Ankyrin repeatF: Ank_2ECOD (1.6)
KPTCB-BRCTe7e8iK3 A: a/b three-layered sandwichesX: BRCT domain (From Topology)H: BRCT domain (From Topology)T: BRCT domainF: PTCB-BRCTECOD (1.6)
Lubiquitin_1e7e8iL1 A: a+b two layersX: beta-GraspH: Ubiquitin-relatedT: Ubiquitin-likeF: ubiquitin_1ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
D [auth B],
H [auth F]
PF15511Centromere kinetochore component CENP-T histone fold (CENP-T_C)Centromere kinetochore component CENP-T histone foldCENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly asso ...CENP-T is a family of vertebral kinetochore proteins that associates directly with CENP-W. The N-terminus of CENP-T proteins interacts directly with the Ndc80 complex in the outer kinetochore. Importantly, the CENP-T-W complex does not directly associate with CENP-A, but with histone H3 in the centromere region. CENP-T and -W form a hetero-tetramer with CENP-S and -X and bind to a ~100 bp region of nucleosome-free DNA forming a nucleosome-like structure. The DNA-CENP-T-W-S-X complex is likely to be associated with histone H3-containing nucleosomes rather than with CENP-nucleosomes. This domain is the C-terminal histone fold domain of CENP-T, which associates with chromatin [2-3].
Domain
E [auth C],
I [auth G]
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
PF00023Ankyrin repeat (Ank)Ankyrin repeat- Repeat
PF00533BRCA1 C Terminus (BRCT) domain (BRCT)BRCA1 C Terminus (BRCT) domainThe 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- ...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 [2]. Structures of the BRCA1 BRCT domains revealed a basis for a widely utilised head-to-tail BRCT-BRCT oligomerisation mode [3]. 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 [5].
Domain
PF00240Ubiquitin family (ubiquitin)Ubiquitin familyThis family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry ...This family contains a number of ubiquitin-like proteins: SUMO (smt3 homologue) (see Swiss:Q02724), Nedd8 (see Swiss:P29595), Elongin B (see Swiss:Q15370), Rub1 (see Swiss:Q9SHE7), and Parkin (see Swiss:O60260). A number of them are thought to carry a distinctive five-residue motif termed the proteasome-interacting motif (PIM), which may have a biologically significant role in protein delivery to proteasomes and recruitment of proteasomes to transcription sites [5].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A [auth J]DNA (145-MER)---
B [auth I]DNA (145-MER)---
C [auth A],
G [auth E]
Histone H3 -
D [auth B],
H [auth F]
Histone H4
E [auth C],
I [auth G]
Histone H2A
F [auth D],
J [auth H]
Histone H2B 1.1 -
BRCA1-associated RING domain protein 1
Polyubiquitin-B

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
C [auth A],
G [auth E]
IPR009072Histone-foldHomologous Superfamily
C [auth A],
G [auth E]
IPR000164Histone H3/CENP-AFamily
C [auth A],
G [auth E]
IPR007125Core Histone H2A/H2B/H3 domainDomain
D [auth B],
H [auth F]
IPR009072Histone-foldHomologous Superfamily
D [auth B],
H [auth F]
IPR001951Histone H4Family
D [auth B],
H [auth F]
IPR035425CENP-T/Histone H4, histone foldDomain
D [auth B],
H [auth F]
IPR019809Histone H4, conserved siteConserved Site
D [auth B],
H [auth F]
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
E [auth C],
I [auth G]
IPR009072Histone-foldHomologous Superfamily
E [auth C],
I [auth G]
IPR002119Histone H2AFamily
E [auth C],
I [auth G]
IPR032454Histone H2A, C-terminal domainDomain
E [auth C],
I [auth G]
IPR032458Histone H2A conserved siteConserved Site
E [auth C],
I [auth G]
IPR007125Core Histone H2A/H2B/H3 domainDomain
F [auth D],
J [auth H]
IPR009072Histone-foldHomologous Superfamily
F [auth D],
J [auth H]
IPR055333Histone H2B, conserved siteConserved Site
F [auth D],
J [auth H]
IPR000558Histone H2BFamily
F [auth D],
J [auth H]
IPR007125Core Histone H2A/H2B/H3 domainDomain
IPR039503BARD1, Zinc finger, RING-typeDomain
IPR002110Ankyrin repeatRepeat
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR001841Zinc finger, RING-typeDomain
IPR036770Ankyrin repeat-containing domain superfamilyHomologous Superfamily
IPR001357BRCT domainDomain
IPR036420BRCT domain superfamilyHomologous Superfamily
IPR017907Zinc finger, RING-type, conserved siteConserved Site
IPR019954Ubiquitin conserved siteConserved Site
IPR050158Ubiquitin and ubiquitin-likeFamily
IPR000626Ubiquitin-like domainDomain
IPR019956Ubiquitin domainDomain
IPR029071Ubiquitin-like domain superfamilyHomologous Superfamily