2FVV

Human Diphosphoinositol polyphosphate phosphohydrolase 1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.171 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of human diphosphoinositol phosphatase 1

Thorsell, A.G.Persson, C.Graslund, S.Hammarstrom, M.Busam, R.D.Hallberg, B.M.

(2009) Proteins 77: 242-246


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Diphosphoinositol polyphosphate phosphohydrolase 1
A
194Homo sapiensMutation(s): 0 
Gene Names: NUDT3 (DIPP, DIPP1)
EC: 3.6.1.52
Find proteins for O95989 (Homo sapiens)
Go to Gene View: NUDT3
Go to UniProtKB:  O95989
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
IHP
Query on IHP

Download SDF File 
Download CCD File 
A
INOSITOL HEXAKISPHOSPHATE
C6 H18 O24 P6
IMQLKJBTEOYOSI-GPIVLXJGSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.25 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.171 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 48.653α = 90.00
b = 59.900β = 90.00
c = 61.735γ = 90.00
Software Package:
Software NamePurpose
SHELXrefinement
SADABSdata scaling
XDSdata reduction
XSCALEdata scaling
SHELXDphasing
PDB_EXTRACTdata extraction
PROTEUM PLUSdata reduction
SAINTdata reduction
SHELXL-97refinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2006-03-11
    Type: Initial release
  • Version 1.1: 2008-04-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2018-05-23
    Type: Data collection