3GF4

Structure of UDP-galactopyranose mutase bound to UDP-glucose


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 3GF4

Classification: ISOMERASE

Total Structure Weight: 92937.48

Macromolecule Entities
Molecule Chains Length Organism Details
UDP-galactopyranose mutase A, B 390 Klebsiella pneumoniae EC#: 5.4.99.9 IUBMB
Mutation: V73I, E222D, T258I, E372D, R384G
Gene Name(s): rfbD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FAD
Query on FAD

A, B FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
UPG
Query on UPG

A URIDINE-5'-DIPHOSPHATE-GLUCOSE
URIDINE-5'-MONOPHOSPHATE GLUCOPYRANOSYL-MONOPHOSPHATE ESTER (Synonym)
C15 H24 N2 O17 P2
HSCJRCZFDFQWRP-JZMIEXBBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
U5P
Query on U5P

B URIDINE-5'-MONOPHOSPHATE
C9 H13 N2 O9 P
DJJCXFVJDGTHFX-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
UPG N/A in BindingDB
Kd: 750000 nM  BindingMOAD
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.192
  • Space Group: P 41

Unit Cell:

Length (Å) Angle (°)
a = 93.95 α = 90.00
b = 93.95 β = 90.00
c = 130.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-02-26
  • Released Date: 2009-06-09
  • Deposition author(s): Gruber, T.D., Borrok, M.J., Kiessling, L.L., Forest, K.T.

Revision History

  • Version 1_0: 2009-06-09

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance

  • Version 1_2: 2017-11-01

    Type: Refinement description