3M1F Contractile Protein date Mar 04, 2010
title Crosslinked Complex Of Actin With First W Domain Of Vibrio Parahaemolyticus Vopl
authors S.Namgoong, R.Dominguez
compound source
Molecule: Actin, Alpha Skeletal Muscle
Chain: A
Synonym: Alpha-Actin-1
Organism_scientific: Oryctolagus Cuniculus
Organism_common: European Rabbit,Japanese White Rabbit,Dome Rabbit,Rabbits;
Organism_taxid: 9986

Molecule: Putative Uncharacterized Protein Vpa1370
Chain: V
Fragment: Vopl Wh2 Domain (130-160aa)
Synonym: Vopl
Engineered: Yes
Mutation: Yes

Synthetic: Yes
Organism_scientific: Vibrio Parahaemolyticus
Organism_common: Pasteurella Parahaemolytica
Organism_taxid: 670
Other_details: Chemically Synthesized Peptide. The Sequence Naturally Occurs In Vibrio Parahaemolyticus.
symmetry Space Group: P 21 21 21
R_factor 0.212 R_Free 0.265
length a length b length c angle alpha angle beta angle gamma
66.606 76.363 86.137 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.89 Å
ligand ATP, CA, HIC enzyme


Primary referenceStructure of a Longitudinal Actin Dimer Assembled by Tandem W Domains: Implications for Actin Filament Nucleation., Rebowski G, Namgoong S, Boczkowska M, Leavis PC, Navaza J, Dominguez R, J Mol Biol. 2010 Sep 6. PMID:20804767
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3m1f.pdb1.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 3M1F
  • CSU: Contacts of Structural Units for 3M1F
  • Structure Factors (62 Kb)
  • Retrieve 3M1F in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3M1F from S2C, [Save to disk]
  • Re-refined 3m1f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3M1F in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3M1F
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3M1F, from MSDmotif at EBI
  • Fold representative 3m1f from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3m1f_A] [3m1f] [3m1f_V]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3M1F: [ACTIN] [WH2 ] by SMART
  • Other resources with information on 3M1F
  • Community annotation for 3M1F at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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