3C5C

Crystal structure of human Ras-like, family 12 protein in complex with GDP

Structural Biology Knowledgebase: 3C5C SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3C5C

Classification: SIGNALING PROTEIN

Total Structure Weight: 87663.74

Macromolecule Entities
Molecule Chains Length Organism Details
RAS-like protein 12 A, B, C, D 187 Homo sapiens Fragment: Residues 18-186
Gene Name(s): RASL12 Gene View RIS

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

A, B, C, D GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

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

A, C, D UNKNOWN ATOM OR ION
X
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.202
  • Space Group: P 1

Unit Cell:

Length (Å) Angle (°)
a = 34.04 α = 101.46
b = 66.44 β = 90.03
c = 71.94 γ = 89.89

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-31
  • Released Date: 2008-02-12
  • Deposition author(s): Shen, L., Tong, Y., Tempel, W., Loppnau, P., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H., Structural Genomics Consortium (SGC)

Revision History

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