1AYP Hydrolase date Jul 19, 1994
title A Probe Molecule Composed Of Seventeen Percent Of Total Diffracting Matter Gives Correct Solutions In Molecular Replacement
authors B.H.Oh
compound source
Molecule: Phospholipase A2
Chain: A, B, C, D, E, F
Ec: 3.1.1.4
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 1 21 1
R_factor 0.214 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.510 114.720 64.430 90.00 120.13 90.00
method X-Ray Diffractionresolution 2.57 Å
ligand CA, INB enzyme Hydrolase E.C.3.1.1.4 BRENDA
related structures by homologous chain: 1J1A, 1N29
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceA probe molecule composed of seventeen percent of total diffracting matter gives correct solutions in molecular replacement., Oh BH, Acta Crystallogr D Biol Crystallogr. 1995 Mar 1;51(Pt 2):140-4. PMID:15299314
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk]
  • Biological Unit Coordinates (1ayp.pdb1.gz) 43 Kb
  • Biological Unit Coordinates (1ayp.pdb2.gz) 43 Kb
  • Biological Unit Coordinates (1ayp.pdb3.gz) 43 Kb
  • LPC: Ligand-Protein Contacts for 1AYP
  • CSU: Contacts of Structural Units for 1AYP
  • Likely Quarternary Molecular Structure file(s) for 1AYP
  • Structure Factors (182 Kb)
  • Retrieve 1AYP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1AYP from S2C, [Save to disk]
  • Re-refined 1ayp structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1AYP 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 1AYP
  • 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 1AYP, from MSDmotif at EBI
  • Genome occurence of 1AYP's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1aypa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1aypb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1aypc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1aypd_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1aype_, region E [Jmol] [rasmolscript] [script source]
        - Domain d1aypf_, region F [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: [1ayp_C] [1ayp_D] [1ayp_B] [1ayp_E] [1ayp_A] [1ayp_F] [1ayp]
  • SWISS-PROT database: [P14555]
  • Domain organization of [PA2GA_HUMAN] by SWISSPFAM
  • Domain found in 1AYP: [PA2c ] by SMART
  • Other resources with information on 1AYP
  • Community annotation for 1AYP 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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