8TXW

Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 2)


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
D [auth E]SCOP2B SuperfamilyCore histone-like8039340 3001387 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCore histone-like8039340 3001387 SCOP2B (2022-06-29)
E [auth F]SCOP2B SuperfamilyCore histone-like8070545 3001387 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCore histone-like8070545 3001387 SCOP2B (2022-06-29)
C [auth D]SCOP2B SuperfamilyCore histone-like8066267 3001387 SCOP2B (2022-06-29)
F [auth H]SCOP2B SuperfamilyCore histone-like8066267 3001387 SCOP2B (2022-06-29)
K [auth C]SCOP2B SuperfamilyCore histone-like8039342 3001387 SCOP2B (2022-06-29)
L [auth G]SCOP2B SuperfamilyCore histone-like8039342 3001387 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
B,
E [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
J [auth M]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
K [auth C],
L [auth G]
PF16211C-terminus of histone H2A (Histone_H2A_C)C-terminus of histone H2A- Family
K [auth C],
L [auth G]
PF00125Core histone H2A/H2B/H3/H4 (Histone)Core histone H2A/H2B/H3/H4- Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A,
D [auth E]
Histone H3.1
B,
E [auth F]
Histone H4
C [auth D],
F [auth H]
Histone H2B type 1-C/E/F/G/I
G [auth I]DNA (147-MER)---
H [auth J]DNA (147-MER)---
I [auth K]E3 ubiquitin-protein ligase RNF168
J [auth M]Polyubiquitin-B
K [auth C],
L [auth G]
Histone H2A type 1-B/E

Pharos: Disease Associations Pharos Homepage Annotation

ChainsDrug Target  Associated Disease
A,
D [auth E]
PharosP68431
B,
E [auth F]
PharosP62805
C [auth D],
F [auth H]
PharosP62807
I [auth K]PharosQ8IYW5
J [auth M]PharosP0CG47
K [auth C],
L [auth G]
PharosP04908