3I7M Hydrolase date Jul 08, 2009
title N-Terminal Domain Of Xaa-Pro Dipeptidase From Lactobacillus
authors J.Osipiuk, X.Xu, H.Cui, J.Ng, A.Savchenko, A.M.Edwards, A.Joachimi Midwest Center For Structural Genomics (Mcsg)
compound source
Molecule: Xaa-Pro Dipeptidase
Chain: A
Synonym: Mername-Aa019 Peptidase. Metallo Peptidase. Merops M24b;
Engineered: Yes
 Organism_scientific: Lactobacillus Brevis
Organism_taxid: 387344
Strain: Atcc 367
Gene: Lvis_1204
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b Modified
symmetry Space Group: C 1 2 1
R_factor 0.163 R_Free 0.198
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.867 50.962 49.289 90.00 104.33 90.00
method X-Ray Diffractionresolution 1.46 Å
ligand MSE enzyme
note 3I7M is a representative structure
Gene LVIS
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (3i7m.pdb1.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 3I7M
  • CSU: Contacts of Structural Units for 3I7M
  • Likely Quarternary Molecular Structure file(s) for 3I7M
  • Structure Factors (343 Kb)
  • Retrieve 3I7M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3I7M from S2C, [Save to disk]
  • Re-refined 3i7m structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3I7M 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 3I7M
  • 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 3I7M, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3i7m] [3i7m_A]
  • SWISS-PROT database: [Q03R62]
  • Domain organization of [Q03R62_LACBA] by SWISSPFAM
    • Other resources with information on 3I7M
  • Community annotation for 3I7M 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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