8IHM | pdb_00008ihm

Eaf3 CHD domain bound to the nucleosome


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
L [auth N]SCOP2B SuperfamilyChromo domain-like 8089214 3000161 SCOP2B (2022-06-29)
HSCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
DSCOP2B SuperfamilyCore histone-like 8041279 3001387 SCOP2B (2022-06-29)
GSCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
CSCOP2B SuperfamilyCore histone-like 8041278 3001387 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
BSCOP2B SuperfamilyCore histone-like 8042439 3001387 SCOP2B (2022-06-29)
ESCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyCore histone-like 8041272 3001387 SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
L [auth N]PF11717RNA binding activity-knot of a chromodomain (Tudor-knot)RNA binding activity-knot of a chromodomain- Family
L [auth N]PF22732MSL3 chromodomain-like (MSL3_chromo-like)MSL3 chromodomain-likeThis domain is found in Male-specific lethal-3 (MSL3) and other related proteins such as MRG15 transcription factor. MSL3 resides in the MSL (male-specific lethal) complex, which upregulates transcription by spreading the histone H4 Lys16 acetyl mark ...This domain is found in Male-specific lethal-3 (MSL3) and other related proteins such as MRG15 transcription factor. MSL3 resides in the MSL (male-specific lethal) complex, which upregulates transcription by spreading the histone H4 Lys16 acetyl mark. The MSL3 chromo domain implicated in chromatin targeting and its deletion leads to the disruption of MSL targeting. The MRG15 chromo domain is involved in chromatin remodelling and transcription regulation. This domain consists of a SH3-like beta-barrel and a long alpha-helix.
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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
L [auth N]Chromatin modification-related protein EAF3
K [auth M]Rco1-ABR
DNA (165-MER)---
DNA (164-MER)---
D, H
Histone H2B -
C, G
Histone H2A
B, F
Histone H4
A, E
Histone H3 -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
L [auth N]IPR016197Chromo-like domain superfamilyHomologous Superfamily
L [auth N]IPR008676MRGFamily
L [auth N]IPR038217MRG, C-terminal domain superfamilyHomologous Superfamily
L [auth N]IPR000953Chromo/chromo shadow domainDomain
L [auth N]IPR053820MSL3 chromodomain-likeDomain
L [auth N]IPR026541MRG domainDomain
K [auth M]IPR001965Zinc finger, PHD-typeDomain
K [auth M]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
K [auth M]IPR052819Chromatin-associated regulatory proteinFamily
K [auth M]IPR019787Zinc finger, PHD-fingerDomain
K [auth M]IPR011011Zinc finger, FYVE/PHD-typeHomologous Superfamily
K [auth M]IPR019786Zinc finger, PHD-type, conserved siteConserved Site
D, H
IPR009072Histone-foldHomologous Superfamily
D, H
IPR055333Histone H2B, conserved siteConserved Site
D, H
IPR000558Histone H2BFamily
D, H
IPR007125Core Histone H2A/H2B/H3 domainDomain
C, G
IPR009072Histone-foldHomologous Superfamily
C, G
IPR002119Histone H2AFamily
C, G
IPR032454Histone H2A, C-terminal domainDomain
C, G
IPR032458Histone H2A conserved siteConserved Site
C, G
IPR007125Core Histone H2A/H2B/H3 domainDomain
B, F
IPR009072Histone-foldHomologous Superfamily
B, F
IPR001951Histone H4Family
B, F
IPR035425CENP-T/Histone H4, histone foldDomain
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
IPR000164Histone H3/CENP-AFamily
A, E
IPR007125Core Histone H2A/H2B/H3 domainDomain