6MA4

Crystal structure of human O-GlcNAc transferase bound to a peptide from HCF-1 pro-repeat 2 (11-26) and inhibitor 3a


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.191 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structure-Based Evolution of Low Nanomolar O-GlcNAc Transferase Inhibitors.

Martin, S.E.S.Tan, Z.W.Itkonen, H.M.Duveau, D.Y.Paulo, J.A.Janetzko, J.Boutz, P.L.Tork, L.Moss, F.A.Thomas, C.J.Gygi, S.P.Lazarus, M.B.Walker, S.

(2018) J. Am. Chem. Soc. 140: 13542-13545


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit
A
723Homo sapiensMutation(s): 0 
Gene Names: OGT
EC: 2.4.1.255
Find proteins for O15294 (Homo sapiens)
Go to Gene View: OGT
Go to UniProtKB:  O15294
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Host Cell Factor 1 peptide
B
16Homo sapiensMutation(s): 0 
Gene Names: HCFC1 (HCF1, HFC1)
Find proteins for P51610 (Homo sapiens)
Go to Gene View: HCFC1
Go to UniProtKB:  P51610
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
JA7
Query on JA7

Download SDF File 
Download CCD File 
A
5-{2-[(1R)-2-{(carboxymethyl)[(thiophen-2-yl)methyl]amino}-2-oxo-1-{[(2-oxo-1,2-dihydroquinolin-6-yl)sulfonyl]amino}ethyl]phenoxy}pentanoic acid
C29 H29 N3 O9 S2
VMCJXXUCJJAXMA-MUUNZHRXSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.191 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 98.630α = 90.00
b = 98.630β = 90.00
c = 365.202γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
Aimlessdata scaling
iMOSFLMdata reduction
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesGM094263

Revision History 

  • Version 1.0: 2018-10-17
    Type: Initial release
  • Version 1.1: 2018-11-07
    Type: Data collection, Database references