PDBsum entry 5hgv

Transferase/peptide

PDB id: 5hgv

Contents

Protein chains

695 a.a.

14 a.a.

Ligands

UDP ×2

SO4 ×3

NAG ×2

Waters ×772

PDB id:

5hgv

Name:

Transferase/peptide

Title:

Structure of an o-glcnac transferase point mutant, d554n in complex with peptide

Structure:

Udp-n-acetylglucosamine--peptide n- acetylglucosaminyltransferase 110 kda subunit. Chain: a, c. Synonym: o-glcnac transferase subunit p110,o-linked n- acetylglucosamine transferase 110 kda subunit,ogt. Engineered: yes. Mutation: yes. Tyr-pro-gly-gly-ser-thr-pro-val-ser-ser-ala-asn-met-met. Chain: b, d.

Source:

Homo sapiens. Human. Organism_taxid: 9606. Gene: ogt. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Organism_taxid: 9606

Resolution:

2.05Å R-factor: 0.218 R-free: 0.237

Authors:

J.Janetzko,M.B.Lazarus,S.Walker

Key ref:

J.Janetzko et al. (2016). How the glycosyltransferase OGT catalyzes amide bond cleavage. Nat Chem Biol, 12, 899-901. PubMed id: 27618188 DOI: 10.1038/nchembio.2173

Date:

08-Jan-16 Release date: 14-Sep-16

Protein chains

O15294  (OGT1_HUMAN) -  UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit from Homo sapiens

Seq: 1046 a.a.

Struc: 695 a.a.*

Protein chains

P68400  (CSK21_HUMAN) -  Casein kinase II subunit alpha from Homo sapiens

Seq: 391 a.a.

Struc: 14 a.a.*

* PDB and UniProt seqs differ at 2 residue positions (black crosses)

Enzyme reactions

• Enzyme class 1: Chains A, C: E.C.2.4.1.255 - protein O-GlcNAc transferase.
• Reaction:
  1. L-seryl-[protein] + UDP-N-acetyl-alpha-D-glucosamine = 3-O-(N-acetyl- beta-D-glucosaminyl)-L-seryl-[protein] + UDP + H⁺
  2. L-threonyl-[protein] + UDP-N-acetyl-alpha-D-glucosamine = 3-O- (N-acetyl-beta-D-glucosaminyl)-L-threonyl-[protein] + UDP + H⁺

L-seryl-[protein] + UDP-N-acetyl-alpha-D-glucosamine = 3-O-(N-acetyl- beta-D-glucosaminyl)-L-seryl-[protein] + UDP + H(+) (Bound ligand (Het Group name = UDP) corresponds exactly)

L-threonyl-[protein] + UDP-N-acetyl-alpha-D-glucosamine = 3-O- (N-acetyl-beta-D-glucosaminyl)-L-threonyl-[protein] + UDP + H(+) (Bound ligand (Het Group name = UDP) corresponds exactly)

• Enzyme class 2: Chains B, D: E.C.2.7.11.1 - non-specific serine/threonine protein kinase.
• Reaction:
  1. L-seryl-[protein] + ATP = O-phospho-L-seryl-[protein] + ADP + H⁺
  2. L-threonyl-[protein] + ATP = O-phospho-L-threonyl-[protein] + ADP + H⁺

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

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

reference

DOI no: 10.1038/nchembio.2173

Nat Chem Biol 12:899-901 (2016)

PubMed id: 27618188

How the glycosyltransferase OGT catalyzes amide bond cleavage.

J.Janetzko, S.A.Trauger, M.B.Lazarus, S.Walker.

ABSTRACT

No abstract given.