1PI5 Hydrolase date May 29, 2003
title Structure Of N289a Mutant Of Ampc In Complex With Sm2, Carboxyphenylglycylboronic Acid Bearing The Cephalothin R1 Side Chain
authors T.A.Roth, G.Minasov, P.J.Focia, B.K.Shoichet
compound source
Molecule: Beta-Lactamase
Chain: A, B
Fragment: Ampc
Synonym: Cephalosporinase
Ec: 3.5.2.6
Engineered: Yes
Mutation: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Ampc Or Ampa Or B4150
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 0.155 R_Free 0.168
crystal
cell
length a length b length c angle alpha angle beta angle gamma
119.050 76.008 97.595 90.00 115.54 90.00
method X-Ray Diffractionresolution 1.49 Å
ligand K, PO4, SM2 enzyme Hydrolase E.C.3.5.2.6 BRENDA
related structures by homologous chain: 1L0G, 1Q2Q
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThermodynamic cycle analysis and inhibitor design against beta-lactamase., Roth TA, Minasov G, Morandi S, Prati F, Shoichet BK, Biochemistry 2003 Dec 16;42(49):14483-91. PMID:14661960
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (155 Kb) [Save to disk]
  • Biological Unit Coordinates (1pi5.pdb1.gz) 77 Kb
  • Biological Unit Coordinates (1pi5.pdb2.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 1PI5
  • CSU: Contacts of Structural Units for 1PI5
  • Likely Quarternary Molecular Structure file(s) for 1PI5
  • Structure Factors (1401 Kb)
  • Retrieve 1PI5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1PI5 from S2C, [Save to disk]
  • Re-refined 1pi5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1PI5 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 1PI5
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Conformational Epitope Prediction for 1PI5 1PI5A 1PI5B from the CEP Server.
  • 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 1PI5, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1pi5a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1pi5b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1pi5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1pi5] [1pi5_A] [1pi5_B]
  • SWISS-PROT database: [P00811]
  • Domain organization of [AMPC_ECOLI] by SWISSPFAM
  • Other resources with information on 1PI5
  • Community annotation for 1PI5 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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