2BME

high resolution structure of GppNHp-bound human Rab4a


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.57 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 2BME

Classification: PROTEIN TRANSPORT

Total Structure Weight: 86793.95

Macromolecule Entities
Molecule Chains Length Organism Details
RAS-RELATED PROTEIN RAB4A A, B, C, D 186 Homo sapiens EC#: 3.6.5.2 IUBMB
Fragment: NUCLEOTIDE-BINDING DOMAIN, RESIDUES 1-184
Gene Name(s): RAB4A Gene View RAB4
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GNP
Query on GNP

A, B, C, D PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TRS
Query on TRS

A, C, D 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER (Synonym)
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
BME
Query on BME

A, C BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.57 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.192
  • Space Group: P 43

Unit Cell:

Length (Å) Angle (°)
a = 99.79 α = 90.00
b = 99.79 β = 90.00
c = 95.54 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-03-13
  • Released Date: 2005-04-25
  • Deposition author(s): Scheidig, A.J., Huber, S.K.

Revision History

  • 2011-05-08
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance