4WNH

Crystal structure of mouse Xyloside xylosyltransferase 1 complexed with manganese,acceptor ligand and UDP-Xylose


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of mouse Xyloside xylosyltransferase 1 complexed with manganese,acceptor ligand and UDP-Xylose

Yu, H.Li, H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Xyloside xylosyltransferase 1
A
306Mus musculusMutation(s): 0 
Gene Names: Xxylt1
EC: 2.4.2.n3
Find proteins for Q3U4G3 (Mus musculus)
Go to UniProtKB:  Q3U4G3
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Coagulation factor IX
D
50Homo sapiensMutation(s): 0 
Gene Names: F9
EC: 3.4.21.22
Find proteins for P00740 (Homo sapiens)
Go to Gene View: F9
Go to UniProtKB:  P00740
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MN
Query on MN

Download SDF File 
Download CCD File 
A
MANGANESE (II) ION
Mn
WAEMQWOKJMHJLA-UHFFFAOYSA-N
 Ligand Interaction
UDX
Query on UDX

Download SDF File 
Download CCD File 
A
URIDINE-5'-DIPHOSPHATE-XYLOPYRANOSE
UDP-ALPHA-D-XYLOPYRANOSE
C14 H22 N2 O16 P2
DQQDLYVHOTZLOR-OCIMBMBZSA-N
 Ligand Interaction
GCX
Query on GCX

Download SDF File 
Download CCD File 
D
3-O-alpha-D-xylopyranosyl-beta-D-glucopyranose
C11 H20 O10
CKIPPJHUIHDREQ-UOLVNBIUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.193 
  • Space Group: P 3
Unit Cell:
Length (Å)Angle (°)
a = 89.481α = 90.00
b = 89.481β = 90.00
c = 42.895γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2014-10-11 
  • Released Date: 2015-09-30 
  • Deposition Author(s): Yu, H., Li, H.

Revision History 

  • Version 1.0: 2015-09-30
    Type: Initial release