5M5G | pdb_00005m5g

Crystal structure of the Chaetomium Thermophilum polycomb repressive complex 2 (PRC2)


Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
APCRFe5m5gA1 A: a/b three-layered sandwichesX: Immunoglobulin-like beta-sandwichH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: PCRFECOD (v294.1)
BAP_endonuc_2e5m5gB1 A: a/b three-layered sandwichesX: Cytochrome P450H: Cytochrome P450T: Cytochrome P450F: AP_endonuc_2ECOD (v294.1)
BMORF_dome5m5gB9 A: a/b three-layered sandwichesX: Periplasmic binding protein-like IIH: Rubredoxin-relatedT: Tetrapyrrole methylase C-terminal domainF: MORF_domECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

ChainsAccessionNameDescriptionCommentsSource
PF22038Polycomb protein EED insertion domain (PRC2_EED_ins)Polycomb protein EED insertion domainEED is one of the core subunits of Polycomb Repressive Complex 2 (PRC2) that is involved in histone methylation. EED consists of two domains: a seven-bladed beta-propeller and a small alpha/beta domain that is inserted into the sixth blade [1]. EED s ...EED is one of the core subunits of Polycomb Repressive Complex 2 (PRC2) that is involved in histone methylation. EED consists of two domains: a seven-bladed beta-propeller and a small alpha/beta domain that is inserted into the sixth blade [1]. EED specifically binds to histone tails carrying trimethyl-lysine residues associated with repressive chromatin marks, and this leads to the allosteric activation of the methyltransferase activity of PRC2 [2].
Domain
PF00400WD domain, G-beta repeat (WD40)WD domain, G-beta repeat- Repeat
PF00856SET domain (SET)SET domain- Family
PF21509Fungal polycomb repressive complex 2, Ezh2-like, preSET CXC domain (Ezh2-like__CXC_fung)Fungal polycomb repressive complex 2, Ezh2-like, preSET CXC domainThis domain is found in a group of mostly fungal proteins, including the Polycomb repressive complex 2 (PRC2) subunit Ezh2 from Chaetomium thermophilum (Swiss:G0SDW4), which is responsible for methylation of histone H3 lysine 27 (H3K27) and therefore ...This domain is found in a group of mostly fungal proteins, including the Polycomb repressive complex 2 (PRC2) subunit Ezh2 from Chaetomium thermophilum (Swiss:G0SDW4), which is responsible for methylation of histone H3 lysine 27 (H3K27) and therefore involved in epigenetic gene silencing. This entry represents the domain found N-terminal to to the SET domain (Pfam:PF00856). It contains a Zn3Cys8His and a Zn3Cys9 cluster [1-4].
Domain
PF18601EZH2 N-terminal domain (EZH2_N)EZH2 N-terminal domainPolycomb repressive complex 2 (PRC2) carries out the methylation of lysine 27 of histone H3, a hallmark of repressive chromatin. Three core subunits make up the catalytic core of PRC2; the SET domain containing EZH2, the zinc-finger containing SUZ12 ...Polycomb repressive complex 2 (PRC2) carries out the methylation of lysine 27 of histone H3, a hallmark of repressive chromatin. Three core subunits make up the catalytic core of PRC2; the SET domain containing EZH2, the zinc-finger containing SUZ12 and the WD40 repeat protein EED. The complex forms a compact arrangement of three lobes. This is the N-terminal domain of EZH2 [1].
Domain
PF18600Fungal MCSS domain (Ezh2_MCSS_fung)Fungal MCSS domainPolycomb repressive complex 2 (PRC2) carries out the methylation of lysine 27 of histone H3, a hallmark of repressive chromatin. Three core subunits make up the catalytic core of PRC2; the SET domain containing EZH2, the zinc-finger containing SUZ12 ...Polycomb repressive complex 2 (PRC2) carries out the methylation of lysine 27 of histone H3, a hallmark of repressive chromatin. Three core subunits make up the catalytic core of PRC2; the SET domain containing EZH2, the zinc-finger containing SUZ12 and the WD40 repeat protein EED. The complex forms a compact arrangement of three lobes. The middle lobe largely comprises two domains that mark the beginning of the carboxy (C)-terminal region of EZH2 (MCSS and SANT2) and the helical, C-terminal, component of the Suz12 Vefs domain. This entry describes the MCSS (also known as SANT2L) domain. There is one zinc binding (Zn1Cys3His1) which is formed solely by MCSS [1, 2].
Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
putative polycomb protein EED-
Putative uncharacterized protein
C [auth D]HISTONE H3 11-Mer peptide
D [auth E]Fragment from molecular 2 (region containing putative polycomb protein Suz12)

Protein Modification Annotation

Modified Residue(s)
ChainResidue(s)Description
C [auth D]M3L Parent Component: LYS

RESIDAA0074

PSI-MOD :  N6,N6,N6-trimethyl-L-lysine MOD:00083