7YI0 | pdb_00007yi0

Cryo-EM structure of Rpd3S complex


Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
B3.40.800.20 Alpha Beta 3-Layer(aba) Sandwich Arginase Chain ACATH (utative)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
E [auth F]PF00628PHD-finger (PHD)PHD-fingerPHD 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
PF00628PHD-finger (PHD)PHD-fingerPHD 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
PF00850Histone deacetylase domain (Hist_deacetyl)Histone deacetylase domainHistones 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]. ...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
PF08295Sin3 family co-repressor (Sin3_corepress)Sin3 family co-repressorThis domain is found on transcriptional regulators. It forms interactions with histone deacetylases [1]. Domain
PF02671Paired amphipathic helix repeat (PAH)Paired amphipathic helix repeat- Repeat
PF16879C-terminal domain of Sin3a protein (Sin3a_C)C-terminal domain of Sin3a protein- Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
E [auth F]Transcriptional regulatory protein RCO1
Transcriptional regulatory protein RCO1
C,
F [auth E]
Chromatin modification-related protein EAF3
Histone deacetylase RPD3
Transcriptional regulatory protein SIN3

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
E [auth F]IPR001965Zinc finger, PHD-typeDomain
E [auth F]IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
E [auth F]IPR052819Chromatin-associated regulatory proteinFamily
E [auth F]IPR019787Zinc finger, PHD-fingerDomain
E [auth F]IPR011011Zinc finger, FYVE/PHD-typeHomologous Superfamily
E [auth F]IPR019786Zinc finger, PHD-type, conserved siteConserved Site
IPR001965Zinc finger, PHD-typeDomain
IPR013083Zinc finger, RING/FYVE/PHD-typeHomologous Superfamily
IPR052819Chromatin-associated regulatory proteinFamily
IPR019787Zinc finger, PHD-fingerDomain
IPR011011Zinc finger, FYVE/PHD-typeHomologous Superfamily
IPR019786Zinc finger, PHD-type, conserved siteConserved Site
C,
F [auth E]
IPR016197Chromo-like domain superfamilyHomologous Superfamily
C,
F [auth E]
IPR008676MRGFamily
C,
F [auth E]
IPR038217MRG, C-terminal domain superfamilyHomologous Superfamily
C,
F [auth E]
IPR000953Chromo/chromo shadow domainDomain
C,
F [auth E]
IPR053820MSL3 chromodomain-likeDomain
C,
F [auth E]
IPR026541MRG domainDomain
IPR023801Histone deacetylase domainDomain
IPR000286Histone deacetylase HDACFamily
IPR050284HDAC_PDACUnknown
IPR037138Histone deacetylase domain superfamilyHomologous Superfamily
IPR003084Class I/II Histone deacetylase HDACFamily
IPR023696Ureohydrolase domain superfamilyHomologous Superfamily
IPR039774Transcriptional regulatory protein Sin3-likeFamily
IPR013194Histone deacetylase interacting domainDomain
IPR003822Paired amphipathic helixRepeat
IPR036600Paired amphipathic helix superfamilyHomologous Superfamily
IPR031693Sin3, C-terminalDomain