8SPS | pdb_00008sps

High resolution structure of ESRRB nucleosome bound OCT4 at site a and site b


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
I [auth F]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
E [auth B]SCOP2B SuperfamilyCore histone-like 8070545 3001387 SCOP2B (2022-06-29)
K [auth H]SCOP2B SuperfamilyCore histone-like 8066283 3001387 SCOP2B (2022-06-29)
G [auth D]SCOP2B SuperfamilyCore histone-like 8066283 3001387 SCOP2B (2022-06-29)
F [auth C]SCOP2B SuperfamilyCore histone-like 8099192 3001387 SCOP2B (2022-06-29)
J [auth G]SCOP2B SuperfamilyCore histone-like 8099192 3001387 SCOP2B (2022-06-29)
D [auth A]SCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
H [auth E]SCOP2B SuperfamilyCore histone-like 8039340 3001387 SCOP2B (2022-06-29)
C [auth L]SCOP2B Superfamilylambda C1 repressor DNA-binding domain-like 8094725 3000119 SCOP2B (2022-06-29)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
M [auth N]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)
L [auth K]2.60.40.10 Mainly Beta Sandwich Immunoglobulin-like ImmunoglobulinsCATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
E [auth B],
I [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
F [auth C],
J [auth G]
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
C [auth L],
N [auth M]
PF00157Pou domain - N-terminal to homeobox domain (Pou)Pou domain - N-terminal to homeobox domainDomain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
B [auth J]DNA (168-MER)---
E [auth B],
I [auth F]
Histone H4
G [auth D],
K [auth H]
Histone H2B type 2-E
L [auth K],
M [auth N]
ScFv---
F [auth C],
J [auth G]
Histone H2A type 2-C
D [auth A],
H [auth E]
Histone H3.1
C [auth L],
N [auth M]
Maltodextrin-binding protein,POU domain, class 5, transcription factor 1
A [auth I]DNA (168-MER)---

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
E [auth B],
I [auth F]
IPR009072Histone-foldHomologous Superfamily
E [auth B],
I [auth F]
IPR035425CENP-T/Histone H4, histone foldDomain
E [auth B],
I [auth F]
IPR001951Histone H4Family
E [auth B],
I [auth F]
IPR019809Histone H4, conserved siteConserved Site
E [auth B],
I [auth F]
IPR004823TATA box binding protein associated factor (TAF), histone-like fold domainDomain
G [auth D],
K [auth H]
IPR009072Histone-foldHomologous Superfamily
G [auth D],
K [auth H]
IPR000558Histone H2BFamily
G [auth D],
K [auth H]
IPR007125Core Histone H2A/H2B/H3 domainDomain
G [auth D],
K [auth H]
IPR055333Histone H2B, conserved siteConserved Site
F [auth C],
J [auth G]
IPR009072Histone-foldHomologous Superfamily
F [auth C],
J [auth G]
IPR002119Histone H2AFamily
F [auth C],
J [auth G]
IPR032454Histone H2A, C-terminal domainDomain
F [auth C],
J [auth G]
IPR032458Histone H2A conserved siteConserved Site
F [auth C],
J [auth G]
IPR007125Core Histone H2A/H2B/H3 domainDomain
D [auth A],
H [auth E]
IPR009072Histone-foldHomologous Superfamily
D [auth A],
H [auth E]
IPR007125Core Histone H2A/H2B/H3 domainDomain
D [auth A],
H [auth E]
IPR000164Histone H3/CENP-AFamily
C [auth L],
N [auth M]
IPR000327POU-specific domainDomain
C [auth L],
N [auth M]
IPR013847POU domainDomain
C [auth L],
N [auth M]
IPR017970Homeobox, conserved siteConserved Site
C [auth L],
N [auth M]
IPR009057Homedomain-like superfamilyHomologous Superfamily
C [auth L],
N [auth M]
IPR050255POU domain transcription factorFamily
C [auth L],
N [auth M]
IPR010982Lambda repressor-like, DNA-binding domain superfamilyHomologous Superfamily
C [auth L],
N [auth M]
IPR001356HomeodomainDomain

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
E [auth B],
I [auth F]
PharosP62805
G [auth D],
K [auth H]
PharosQ16778
F [auth C],
J [auth G]
PharosQ16777
D [auth A],
H [auth E]
PharosP68431
C [auth L],
N [auth M]
PharosQ01860