PDBsum entry 3opt

Oxidoreductase

PDB id: 3opt

Contents

Protein chain

298 a.a. *

Ligands

AKG

Metals

_NI

Waters ×226

* Residue conservation analysis

PDB id:

3opt

Name:

Oxidoreductase

Title:

Crystal structure of the rph1 catalytic core with a-ketoglutarate

Structure:

DNA damage-responsive transcriptional repressor rph1. Chain: a. Fragment: catalytic core domain, unp residues 1-373. Engineered: yes

Source:

Saccharomyces cerevisiae. Yeast. Organism_taxid: 4932. Gene: rph1, yer169w. Expressed in: escherichia coli. Expression_system_taxid: 562.

Resolution:

2.20Å R-factor: 0.200 R-free: 0.236

Authors:

Y.Chang,J.Wu,X.Tong,J.Zhou,J.Ding

Key ref:

Y.Chang et al. (2011). Crystal structure of the catalytic core of Saccharomyces cerevesiae histone demethylase Rph1: insights into the substrate specificity and catalytic mechanism. Biochem J, 433, 295-302. PubMed id: 21067515

Date:

02-Sep-10 Release date: 22-Dec-10

Protein chain

P39956  (RPH1_YEAST) -  DNA damage-responsive transcriptional repressor RPH1 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

Seq: 796 a.a.

Struc: 298 a.a.

Enzyme reactions

• Enzyme class: E.C.1.14.11.27 - [histone H3]-dimethyl-L-lysine(36) demethylase.
• Reaction: N₆,N₆-dimethyl-L-lysyl₃₆-[histone H3] + 2 2-oxoglutarate + 2 O2 = L-lysyl₃₆-[histone H3] + 2 formaldehyde + 2 succinate + 2 CO2

N(6),N(6)-dimethyl-L-lysyl(36)-[histone H3] (Bound ligand (Het Group name = AKG) corresponds exactly) + 2 × 2-oxoglutarate + 2 × O2 = L-lysyl(36)-[histone H3] + 2 × formaldehyde + 2 × succinate + 2 × CO2

• Cofactor: Fe(2+)

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

Biochem J 433:295-302 (2011)

PubMed id: 21067515

Crystal structure of the catalytic core of Saccharomyces cerevesiae histone demethylase Rph1: insights into the substrate specificity and catalytic mechanism.

Y.Chang, J.Wu, X.J.Tong, J.Q.Zhou, J.Ding.

ABSTRACT

No abstract given.