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 
  • R-Value Observed: 0.171 

wwPDB Validation 3D Report Full Report



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:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Diphosphoinositol polyphosphate phosphohydrolase 1A194Homo sapiensMutation(s): 0 
Gene Names: NUDT3DIPPDIPP1
EC: 3.6.1.52 (PDB Primary Data), 3.6.1 (PDB Primary Data)
Find proteins for O95989 (Homo sapiens)
Explore O95989 
Go to UniProtKB:  O95989
NIH Common Fund Data Resources
PHAROS  O95989
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IHP
Query on IHP

Download CCD File 
A
INOSITOL HEXAKISPHOSPHATE
C6 H18 O24 P6
IMQLKJBTEOYOSI-GPIVLXJGSA-N
 Ligand Interaction
SO4
Query on SO4

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

Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 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 
  • R-Value Observed: 0.171 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 48.653α = 90
b = 59.9β = 90
c = 61.735γ = 90
Software Package:
Software NamePurpose
SHELXrefinement
PDB_EXTRACTdata extraction
PROTEUM PLUSdata reduction
SAINTdata reduction
XDSdata reduction
SADABSdata scaling
XSCALEdata scaling
SHELXDphasing
SHELXL-97refinement

Structure Validation

View Full Validation Report



Entry History 

Revision History 

  • Version 1.0: 2006-03-11
    Type: Initial release
  • Version 1.1: 2008-04-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-05-23
    Changes: Data collection
  • Version 2.0: 2019-04-03
    Changes: Advisory, Atomic model, Data collection