Structure of PDB 5ei9 Chain F

Receptor sequence

>5ei9F (length=110) Species: 9606 (Homo sapiens) [Search protein sequence]

KPYVCRECGRGFSNKSHLLRHQRTHTGEKPYVCRECGRGFRDKSHLLRHQ
RTHTGEKPYVCRECGRGFRDKSNLLSHQRTHTGEKPYVCRECGRGFSNKS
HLLRHQRTHT

3D structure

PDB

5ei9 Structural basis for human PRDM9 action at recombination hot spots.

Chain

Resolution

1.921 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

2.1.1.-
2.1.1.354: [histone H3]-lysine(4) N-trimethyltransferase.
2.1.1.355: [histone H3]-lysine(9) N-trimethyltransferase.
2.1.1.359: [histone H3]-lysine(36) N-trimethyltransferase.
2.1.1.361: [histone H4]-lysine(20) N-methyltransferase.
2.1.1.362: [histone H4]-N-methyl-L-lysine(20) N-methyltransferase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	F	R726 F728 H733 R736 H737 T740 K745 F756 R757 H761 R764 H765 T768 R782 F784 R785 N789 H793 T796 R810 F812 N814 H817 R820 H821	R10 F12 H17 R20 H21 T24 K29 F40 R41 H45 R48 H49 T52 R66 F68 R69 N73 H77 T80 R94 F96 N98 H101 R104 H105	PDBbind-CN: Kd=36nM
BS02	dna	F	S732 S760 H761 Y775 D786 K787 S788 K815 S816 L819 R823	S16 S44 H45 Y59 D70 K71 S72 K99 S100 L103 R107	PDBbind-CN: Kd=36nM
BS03	ZN	F	C721 C724 H737 H741	C5 C8 H21 H25
BS04	ZN	F	C749 C752 H765 H769	C33 C36 H49 H53
BS05	ZN	F	C777 C780 H793 H797	C61 C64 H77 H81
BS06	ZN	F	C805 C808 H821 H825	C89 C92 H105 H109

External links

PDB	RCSB:5ei9, PDBe:5ei9, PDBj:5ei9
PDBsum	5ei9
PubMed	26833727
UniProt	Q9NQV7\|PRDM9_HUMAN Histone-lysine N-methyltransferase PRDM9 (Gene Name=PRDM9)

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