1N6N

Crystal Structure of Human Rab5a A30R mutant complex with GppNHp

Structural Biology Knowledgebase: 1N6N SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.207
  • R-Value Work: 0.176

Literature

Macromolecules
Sequence Display for 1N6N

Classification: protein transport

Total Structure Weight: 19698.47

Macromolecule Entities
Molecule Chains Length Organism Details
Ras-related protein Rab-5A A 170 Homo sapiens Fragment: GTPASE DOMAIN
Mutation: A30R
Gene Name(s): RAB5A Gene View RAB5
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

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

A 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: 1.6 Å
  • R-Value Free: 0.207
  • R-Value Work: 0.176
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 35.76 α = 90.00
b = 63.87 β = 90.00
c = 65.99 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-11-11
  • Released Date: 2002-11-27
  • Deposition author(s): Zhu, G., Liu, J., Terzyan, S., Zhai, P., Li, G., Zhang, X.C.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4