MolNFT v1 · #42360 · protein

Solution structure of JARID1A C-terminal phd finger in complex with H3(1-9)K4ME3

2KGI · Histone demethylase JARID1A: “Solution structure of JARID1A C-terminal phd finger in complex with H3(1-9)K4ME3”. Solution nmr, 1 ligand (ZN). MolNFT v1 #42360 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2KGI
Type: protein
Length: 61 residues
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Histone demethylase JARID1A; H3(1-9)K4ME3
EC: 1.14.11.-
UniProt: P29375
Ligands: ZN

Structure

solution nmr · 2 distinct chains · 10% helix, 25% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Histone demethylase JARID1A (EC 1.14.11.-)	protein	52	12% helix, 17% strand	P29375
B	H3(1-9)K4ME3	protein	9	0% helix, 67% strand	—

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

1 interface between chains.

A–B · 639 Å² buried · 19 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (methylation).

Compared structures

2KGI · Solution structure of JARID1A C-terminal PHD finger in complex with H3(1-9)K4me3 · the same entry in another collection · chain A against A, TM-score 1.00
P29375 · AlphaFold monomer V2.0 prediction for lysine-specific demethylase 5A (P29375) · a predicted model of the same protein · chain A against A, TM-score 0.82

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt P29375
Elsewhere: RCSB PDB 2KGI · PDBe 2KGI · UniProt P29375

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