8W9D
Cryo-EM structure of the Rpd3S-nucleosome complex from budding yeast in State 1
Domain Annotation: SCOP2 Classification SCOP2 Database Homepage
Chains | Type | Family Name | Domain Identifier | Family Identifier | Provenance Source (Version) |
---|---|---|---|---|---|
G [auth a] | SCOP2B Superfamily | Core histone-like | 8039340 | 3001387 | SCOP2B (2021-05-27) |
K [auth e] | SCOP2B Superfamily | Core histone-like | 8039340 | 3001387 | SCOP2B (2021-05-27) |
H [auth b] | SCOP2B Superfamily | Core histone-like | 8070545 | 3001387 | SCOP2B (2021-05-27) |
L [auth f] | SCOP2B Superfamily | Core histone-like | 8070545 | 3001387 | SCOP2B (2021-05-27) |
I [auth c] | SCOP2B Superfamily | Core histone-like | 8039342 | 3001387 | SCOP2B (2021-05-27) |
M [auth g] | SCOP2B Superfamily | Core histone-like | 8039342 | 3001387 | SCOP2B (2021-05-27) |
N [auth h] | SCOP2B Superfamily | Core histone-like | 8039341 | 3001387 | SCOP2B (2021-05-27) |
J [auth d] | SCOP2B Superfamily | Core histone-like | 8039341 | 3001387 | SCOP2B (2021-05-27) |
Protein Family Annotation Pfam Database Homepage
Chains | Accession | Name | Description | Comments | Source |
---|---|---|---|---|---|
PF08295 | Sin3 family co-repressor (Sin3_corepress) | Sin3 family co-repressor | This domain is found on transcriptional regulators. It forms interactions with histone deacetylases [1]. | Domain | |
PF02671 | Paired amphipathic helix repeat (PAH) | Paired amphipathic helix repeat | - | Repeat | |
PF16879 | C-terminal domain of Sin3a protein (Sin3a_C) | C-terminal domain of Sin3a protein | - | Family | |
B [auth E], F | PF00628 | PHD-finger (PHD) | PHD-finger | PHD folds into an interleaved type of Zn-finger chelating 2 Zn ions in a similar manner to that of the RING and FYVE domains [2]. Several PHD fingers have been identified as binding modules of methylated histone H3 [3]. | Domain |
B [auth E], F | PF15511 | Centromere kinetochore component CENP-T histone fold (CENP-T_C) | Centromere kinetochore component CENP-T histone fold | 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 asso ... | Domain |
B [auth E], F | PF00125 | Core histone H2A/H2B/H3/H4 (Histone) | Core histone H2A/H2B/H3/H4 | - | Domain |
C [auth B] | PF15511 | Centromere kinetochore component CENP-T histone fold (CENP-T_C) | Centromere kinetochore component CENP-T histone fold | 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 asso ... | Domain |
C [auth B] | PF00850 | Histone deacetylase domain (Hist_deacetyl) | Histone deacetylase domain | Histones can be reversibly acetylated on several lysine residues. Regulation of transcription is caused in part by this mechanism. Histone deacetylases catalyse the removal of the acetyl group. Histone deacetylases are related to other proteins [1]. ... | Domain |
D [auth C], E [auth D], Q [auth G] | PF16211 | C-terminus of histone H2A (Histone_H2A_C) | C-terminus of histone H2A | - | Family |
D [auth C], E [auth D], Q [auth G] | PF11717 | RNA binding activity-knot of a chromodomain (Tudor-knot) | RNA binding activity-knot of a chromodomain | - | Family |