2VLP Protein Binding date Jan 15, 2008
title R54a Mutant Of E9 Dnase Domain In Complex With Im9
authors A.H.Keeble, L.A.Joachimiak, M.J.Mate, N.Meenan, N.Kirkpatrick, D. C.Kleanthous
compound source
Molecule: Colicin-E9 Immunity Protein
Chain: A
Synonym: Imme9, Microcin-E9 Immunity Protein
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Colicin E9
Chain: B
Fragment: Dnase Domain, Residues 450-582
Engineered: Yes
Mutation: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.166 R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
36.285 77.920 41.402 90.00 100.07 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand MLA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


Primary referenceExperimental and Computational Analyses of the Energetic Basis for Dual Recognition of Immunity Proteins by Colicin Endonucleases., Keeble AH, Joachimiak LA, Mate MJ, Meenan N, Kirkpatrick N, Baker D, Kleanthous C, J Mol Biol. 2008 Apr 3;. PMID:18471830
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (2vlp.pdb1.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 2VLP
  • CSU: Contacts of Structural Units for 2VLP
  • Likely Quarternary Molecular Structure file(s) for 2VLP
  • Structure Factors (247 Kb)
  • Retrieve 2VLP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VLP from S2C, [Save to disk]
  • Re-refined 2vlp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VLP 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 2VLP
  • 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
  • 3D motif for 2VLP, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vlp] [2vlp_A] [2vlp_B]
  • SWISS-PROT database: [P09883] [P13479]
  • Belongs to the channel-forming colicin (colicin) family according to TCDB.
  • Domain organization of [CEA9_ECOLX] [IMM9_ECOLX] by SWISSPFAM
  • Domain found in 2VLP: [HNHc ] by SMART
  • Other resources with information on 2VLP
  • Community annotation for 2VLP 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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