3DZ8

Crystal structure of human Rab3B GTPase bound with GDP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.211 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of human Rab3B GTPase bound with GDP

Shen, Y.Tong, Y.Sukumar, D.Tempel, W.Loppnau, P.Arrowsmith, C.H.Edwards, A.M.Bountra, C.Wilkstrom, M.Bochkarev, A.Park, H.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Ras-related protein Rab-3B
A
191Homo sapiensMutation(s): 0 
Gene Names: RAB3B
Find proteins for P20337 (Homo sapiens)
Go to Gene View: RAB3B
Go to UniProtKB:  P20337
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

Download SDF File 
Download CCD File 
A
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
 Ligand Interaction
UNX
Query on UNX

Download SDF File 
Download CCD File 
A
UNKNOWN ATOM OR ION
X
*
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.211 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 56.969α = 90.00
b = 50.875β = 110.91
c = 73.553γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
PHASERphasing
MolProbitymodel building
PDB_EXTRACTdata extraction
SCALEPACKdata scaling
REFMACrefinement
ARP/wARPmodel building
Cootmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-08-12
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Version format compliance
  • Version 1.2: 2017-10-25
    Type: Refinement description