6FWZ

Crystal structure of human UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase (DPAGT1) (V264G mutant) in complex with UDP-GlcNAc


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.223 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of human UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase (DPAGT1) (V264G mutant) in complex with UDP-GlcNAc

Pike, A.C.W.Dong, Y.Y.Chu, A.Tessitore, A.Goubin, S.Dong, L.Mukhopadhyay, S.Mahajan, P.Chalk, R.Berridge, G.Wang, D.Kupinska, K.Belaya, K.Beeson, D.Burgess-Brown, N.Edwards, A.M.Arrowsmith, C.H.Bountra, C.Carpenter, E.P.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
UDP-N-acetylglucosamine--dolichyl-phosphate N-acetylglucosaminephosphotransferase
A
409Homo sapiensMutation(s): 1 
Gene Names: DPAGT1 (DPAGT2)
EC: 2.7.8.15
Find proteins for Q9H3H5 (Homo sapiens)
Go to Gene View: DPAGT1
Go to UniProtKB:  Q9H3H5
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
P6L
Query on P6L

Download SDF File 
Download CCD File 
A
(2S)-3-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-[(6E)-HEXADEC-6-ENOYLOXY]PROPYL (8E)-OCTADEC-8-ENOATE
C40 H75 O10 P
WLVNRDXLPAAELE-GDRYEXQRSA-N
 Ligand Interaction
UD1
Query on UD1

Download SDF File 
Download CCD File 
A
URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE
C17 H27 N3 O17 P2
LFTYTUAZOPRMMI-CFRASDGPSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.223 
  • Space Group: P 65 2 2
Unit Cell:
Length (Å)Angle (°)
a = 102.459α = 90.00
b = 102.459β = 90.00
c = 238.209γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
PHASERphasing
Aimlessdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom106169/Z/14/Z

Revision History 

  • Version 1.0: 2018-07-25
    Type: Initial release