1DLI

THE FIRST STRUCTURE OF UDP-GLUCOSE DEHYDROGENASE (UDPGDH) REVEALS THE CATALYTIC RESIDUES NECESSARY FOR THE TWO-FOLD OXIDATION

Structural Biology Knowledgebase: 1DLI SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.186

Literature

Macromolecules
Sequence Display for 1DLI

Classification: OXIDOREDUCTASE

Total Structure Weight: 47301.77

Macromolecule Entities
Molecule Chains Length Organism Details
UDP-GLUCOSE DEHYDROGENASE A 402 Streptococcus pyogenes EC#: 1.1.1.22 IUBMB
Gene Name(s): hasB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
NAD
Query on NAD

A NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
UDX
Query on UDX

A URIDINE-5'-DIPHOSPHATE-XYLOPYRANOSE
UDP-ALPHA-D-XYLOPYRANOSE (Synonym)
C14 H22 N2 O16 P2
DQQDLYVHOTZLOR-OCIMBMBZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.186
  • Space Group: P 4 21 2

Unit Cell:

Length (Å) Angle (°)
a = 106.60 α = 90.00
b = 106.60 β = 90.00
c = 81.59 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-12-09
  • Released Date: 2000-05-31
  • Deposition author(s): Campbell, R.E., Mosimann, S.C., van de Rijn, I., Tanner, M.E., Strynadka, N.C.J.

Revision History

  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4