5C7O

Structure of human testis-specific glyceraldehyde-3-phosphate dehydrogenase holo form with NAD+


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.729 Å
  • R-Value Free: 0.166 
  • R-Value Work: 0.137 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Structural analyses to identify selective inhibitors of glyceraldehyde 3-phosphate dehydrogenase-S, a sperm-specific glycolytic enzyme.

Danshina, P.V.Qu, W.Temple, B.R.Rojas, R.J.Miley, M.J.Machius, M.Betts, L.O'Brien, D.A.

(2016) Mol. Hum. Reprod. 22: 410-426


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Glyceraldehyde-3-phosphate dehydrogenase, testis-specific
O, P
335Homo sapiensMutation(s): 0 
Gene Names: GAPDHS (GAPD2, GAPDH2, GAPDS)
EC: 1.2.1.12
Find proteins for O14556 (Homo sapiens)
Go to Gene View: GAPDHS
Go to UniProtKB:  O14556
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
O, P
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
NAD
Query on NAD

Download SDF File 
Download CCD File 
O, P
NICOTINAMIDE-ADENINE-DINUCLEOTIDE
C21 H27 N7 O14 P2
BAWFJGJZGIEFAR-NNYOXOHSSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
OCS
Query on OCS
O, P
L-PEPTIDE LINKINGC3 H7 N O5 SCYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.729 Å
  • R-Value Free: 0.166 
  • R-Value Work: 0.137 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 144.442α = 90.00
b = 71.741β = 123.01
c = 80.844γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
SCALEPACKdata scaling
PHENIXphasing
HKL-2000data reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-03-09
    Type: Initial release
  • Version 1.1: 2016-06-08
    Type: Database references