3VAZ

Crystal structure of Staphylococcal GAPDH1 in a hexagonal space group

Structural Biology Knowledgebase: 3VAZ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.277
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3VAZ

Classification: OXIDOREDUCTASE

Total Structure Weight: 228527.13

Macromolecule Entities
Molecule Chains Length Organism Details
Glyceraldehyde-3-phosphate dehydrogenase 1 A, B, O..., P, Q, RA, B, O, P, Q, R 344 Staphylococcus aureus EC#: 1.2.1.12 IUBMB
Gene Name(s): gapA1 gap gapA SAR0828
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B, O, P, Q, R NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DGY
Query on DGY

A, O (2R)-2,3-DIHYDROXYPROPANOIC ACID
C3 H6 O4
RBNPOMFGQQGHHO-UWTATZPHSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B, O, P PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.19 Å
  • R-Value Free: 0.277
  • R-Value Work: 0.202
  • Space Group: P 62 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 155.39 α = 90.00
b = 155.39 β = 90.00
c = 317.85 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-12-30
  • Released Date: 2013-01-02
  • Deposition author(s): Roychowdhury, A., Mukherjee, S., Dutta, D., Das, A.K.

Revision History

  • 2014-11-12
    Type: Function and keywords | Details: --