5PEP Hydrolase(Acid Proteinase) date May 30, 1990
title X-Ray Analyses Of Aspartic Proteases. II. Three-Dimensional Of The Hexagonal Crystal Form Of Porcine Pepsin At 2.3 Angs Resolution
authors J.B.Cooper, G.Khan, G.Taylor, I.J.Tickle, T.L.Blundell
compound source
Molecule: Pepsin
Chain: A
Ec: 3.4.23.1
Engineered: Yes
Organism_scientific: Sus Scrofa
Organism_common: Pig
Organism_taxid: 9823
symmetry Space Group: P 65 2 2
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.400 67.400 290.100 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.34 Å
ligand
enzyme Hydrolase E.C.3.4.23.1 BRENDA
note 5PEP (Molecule of the Month:pdb12)supersedes 2PEP
related structures by homologous chain: 1FLH, 3PEP
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceX-ray analyses of aspartic proteinases. II. Three-dimensional structure of the hexagonal crystal form of porcine pepsin at 2.3 A resolution., Cooper JB, Khan G, Taylor G, Tickle IJ, Blundell TL, J Mol Biol 1990 Jul 5;214(1):199-222. PMID:2115088
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (59 Kb) [Save to disk]
  • Biological Unit Coordinates (5pep.pdb1.gz) 55 Kb
  • CSU: Contacts of Structural Units for 5PEP
  • Likely Quarternary Molecular Structure file(s) for 5PEP
  • Structure Factors (150 Kb)
  • Retrieve 5PEP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5PEP from S2C, [Save to disk]
  • Re-refined 5pep structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5PEP 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 5PEP
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 5PEP, from MSDmotif at EBI
  • Genome occurence of 5PEP's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d5pep__, region [Jmol] [rasmolscript] [script source]
  • Fold representative 5pep 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: [5pep] [5pep_A]
  • SWISS-PROT database: [P00791]
  • Domain organization of [PEPA_PIG] by SWISSPFAM
  • Other resources with information on 5PEP
  • Community annotation for 5PEP 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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