2GZF Antibiotic Antibiotic Inhibitor date May 11, 2006
title Crystal Structure Of The E9 Dnase Domain With A Mutant Immun Protein Im9 (Y54f)
authors P.S.Santi, O.O.Kolade, U.C.Kuhlmann, C.Kleanthous, A.M.Hemmings
compound source
Molecule: Colicin-E9 Immunity Protein
Chain: A
Synonym: Imme9, Microcin-E9 Immunity Protein
Engineered: Yes
Mutation: Yes
Organism_scientific: Escherichia Coli K12
Organism_taxid: 83333
Strain: K-12
Gene: Imm9_ecoli
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21d

Molecule: Colicin-E9
Chain: B
Fragment: Colicin E9,C-Terminal Domain,Dnase Domain
Ec: 3.1.21.1
Engineered: Yes

Organism_scientific: Escherichia Coli K12
Organism_taxid: 83333
Strain: K-12
Gene: Col, Cei
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm105
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrc99a
symmetry Space Group: P 21 21 21
R_factor 0.186 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.232 51.929 87.674 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand PO4, ZN enzyme Hydrolase E.C.3.1.21.1 BRENDA
Gene IMM9 (E. coli)
Gene
Ontology
ChainFunctionProcessComponent
A


B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (46 Kb) [Save to disk]
  • Biological Unit Coordinates (2gzf.pdb1.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 2GZF
  • CSU: Contacts of Structural Units for 2GZF
  • Likely Quarternary Molecular Structure file(s) for 2GZF
  • Structure Factors (148 Kb)
  • Retrieve 2GZF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GZF from S2C, [Save to disk]
  • Re-refined 2gzf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2GZF 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 2GZF
  • 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 2GZF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gzf_A] [2gzf] [2gzf_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 2GZF: [HNHc ] by SMART
  • Other resources with information on 2GZF
  • Community annotation for 2GZF 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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