8XBT | pdb_00008xbt

The cryo-EM structure of the octameric RAD51 ring bound to the nucleosome with the linker DNA binding


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
RSCOP2B SuperfamilyHelix-hairpin-helix tandem 8056645 3000163 SCOP2B (2022-06-29)
RSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
QSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
PSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
PSCOP2B SuperfamilyHelix-hairpin-helix tandem 8056645 3000163 SCOP2B (2022-06-29)
OSCOP2B SuperfamilyHelix-hairpin-helix tandem 8056645 3000163 SCOP2B (2022-06-29)
OSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
NSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
MSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
LSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyHelix-hairpin-helix tandem 8056645 3000163 SCOP2B (2022-06-29)
KSCOP2B SuperfamilyRecA-like P-loop NTPases 8056644 3002019 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyCore histone-like 8039342 3001387 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCore histone-like 8039342 3001387 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
RWD40e8xbtR1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
QWD40e8xbtQ1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
PWD40e8xbtP1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
OWD40e8xbtO1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
NWD40e8xbtN1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
MWD40e8xbtM1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
LWD40e8xbtL1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
KWD40e8xbtK1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
HWD40e8xbtH1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
DWD40e8xbtD1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
GWD40e8xbtG1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
CWD40e8xbtC1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
FWD40e8xbtF1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
BWD40e8xbtB1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
EWD40e8xbtE1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)
AWD40e8xbtA1 A: beta barrelsX: cradle loop barrelH: RIFT-relatedT: acid proteaseF: WD40ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
K, L, M, N, O
PF14520SAM-like Helix-hairpin-helix tandem (HHH_5)SAM-like Helix-hairpin-helix tandemThis entry represents a SAM-like helix-hairpin-helix domain found in functionally diverse proteins involved in DNA repair, recombination, transcription termination etc. This domain has a fold that is structurally similar to SAM domains. It is compose ...This entry represents a SAM-like helix-hairpin-helix domain found in functionally diverse proteins involved in DNA repair, recombination, transcription termination etc. This domain has a fold that is structurally similar to SAM domains. It is composed of two helix-hairpin-helix motifs which are known DNA interaction motifs.
Domain
C, G
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
B, 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
A, E
PF00125Core histone H2A/H2B/H3/H4 domain (Histone)Core histone H2A/H2B/H3/H4 domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
K, L, M, N, O
DNA repair protein RAD51 homolog 1
DNA (153-MER)---
DNA (156-MER)---
D, H
Histone H2B type 1-J
C, G
Histone H2A type 1-B/E
B, F
Histone H4
A, E
Histone H3.1

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
K, L, M, N, O
IPR020587DNA recombination and repair protein RecA, monomer-monomer interfaceDomain
K, L, M, N, O
IPR027417P-loop containing nucleoside triphosphate hydrolaseHomologous Superfamily
K, L, M, N, O
IPR020588DNA recombination and repair protein RecA-like, ATP-binding domainDomain
K, L, M, N, O
IPR003593AAA+ ATPase domainDomain
K, L, M, N, O
IPR060101SAM-like helix-hairpin-helix tandemDomain
K, L, M, N, O
IPR011941DNA recombination/repair protein Rad51Family
K, L, M, N, O
IPR016467DNA recombination and repair protein, RecA-likeFamily
K, L, M, N, O
IPR013632Rad51-like, C-terminalDomain
K, L, M, N, O
IPR010995DNA repair Rad51/transcription factor NusA, alpha-helicalHomologous Superfamily
D, H
IPR009072Histone-foldHomologous Superfamily
D, H
IPR000558Histone H2BFamily
D, H
IPR007125Core Histone H2A/H2B/H3 domainDomain
D, H
IPR055333Histone H2B, conserved siteConserved Site
C, G
IPR009072Histone-foldHomologous Superfamily
C, G
IPR002119Histone H2AFamily
C, G
IPR007125Core Histone H2A/H2B/H3 domainDomain
C, G
IPR032454Histone H2A, C-terminal domainDomain
C, G
IPR032458Histone H2A conserved siteConserved Site
B, F
IPR009072Histone-foldHomologous Superfamily
B, F
IPR035425CENP-T/Histone H4, histone foldDomain
B, F
IPR001951Histone H4Family
B, F
IPR019809Histone H4, conserved siteConserved Site
B, F
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
A, E
IPR009072Histone-foldHomologous Superfamily
A, E
IPR007125Core Histone H2A/H2B/H3 domainDomain
A, E
IPR000164Histone H3/CENP-AFamily

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
K, L, M, N, O
Q06609
D, H
P06899
C, G
P04908
B, F
P62805
A, E
P68431