2PBD

Ternary complex of profilin-actin with the poly-PRO-GAB domain of VASP*

Structural Biology Knowledgebase: 2PBD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.190
  • R-Value Work: 0.156

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2PBD

Classification: STRUCTURAL PROTEIN

Total Structure Weight: 61473.09

Macromolecule Entities
Molecule Chains Length Organism Details
Actin, alpha skeletal muscle A 377 Oryctolagus cuniculus Fragment: residues 1-377
Mutation: H73X
Gene Name(s): ACTA1 Gene View ACTA
Profilin-1 P 139 Homo sapiens Fragment: residues 2-140
Gene Name(s): PFN1 Gene View
Vasodilator-stimulated phosphoprotein V 43 Homo sapiens Fragment: VASP Loading Poly-Pro Site and GAB domain
Gene Name(s): VASP Gene View

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

A ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
HIC
Query on HIC
A L-PEPTIDE LINKING C7 H11 N3 O2 HIS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.190
  • R-Value Work: 0.156
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 119.09 α = 90.00
b = 56.59 β = 104.75
c = 75.23 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2007-03-28
  • Released Date: 2007-11-13
  • Deposition author(s): Ferron, F., Rebowski, G., Dominguez, R.

Revision History

  • 2013-03-06
    Type: Flag residual B-value | Details: Flag residual B-value
  • 2013-03-06
    Type: Other | Details: Release SF file
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4