1KVM Hydrolase date Jan 27, 2002
title X-Ray Crystal Structure Of Ampc Wt Beta-Lactamase In Complex Covalently Bound Cephalothin
authors B.M.Beadle, I.Trehan, P.J.Focia, B.K.Shoichet
compound source
Molecule: Beta-Lactamase
Chain: A, B
Synonym: Cephalosporinase
Ec: 3.5.2.6
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: K12
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pogo295
symmetry Space Group: C 1 2 1
R_factor 0.176 R_Free 0.219
crystal
cell
length a length b length c angle alpha angle beta angle gamma
117.690 77.200 97.590 90.00 116.13 90.00
method X-Ray Diffractionresolution 2.06 Å
ligand CEO, PO4 enzyme Hydrolase E.C.3.5.2.6 BRENDA
related structures by homologous chain: 1GA9, 2BLS
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural milestones in the reaction pathway of an amide hydrolase: substrate, acyl, and product complexes of cephalothin with AmpC beta-lactamase., Beadle BM, Trehan I, Focia PJ, Shoichet BK, Structure (Camb) 2002 Mar;10(3):413-24. PMID:12005439
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk]
  • Biological Unit Coordinates (1kvm.pdb1.gz) 60 Kb
  • Biological Unit Coordinates (1kvm.pdb2.gz) 60 Kb
  • LPC: Ligand-Protein Contacts for 1KVM
  • CSU: Contacts of Structural Units for 1KVM
  • Likely Quarternary Molecular Structure file(s) for 1KVM
  • Structure Factors (368 Kb)
  • Retrieve 1KVM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KVM from S2C, [Save to disk]
  • Re-refined 1kvm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1KVM 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 1KVM
  • 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 1KVM, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kvma_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1kvmb_, region B [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1kvm_A] [1kvm] [1kvm_B]
  • SWISS-PROT database: [P00811]
  • Domain organization of [AMPC_ECOLI] by SWISSPFAM
  • Other resources with information on 1KVM
  • Community annotation for 1KVM 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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