6PAD Hydrolase Hydrolase Inhibitor date Nov 01, 1976
title Binding Of Chloromethyl Ketone Substrate Analogues To Crysta Papain
authors J.Drenth, K.H.Kalk, H.M.Swen
compound source
Molecule: Papain
Chain: A
Ec: 3.4.22.2
Engineered: Yes
Organism_scientific: Carica Papaya
Organism_common: Papaya
Organism_taxid: 3649
Tissue: Fruit Latex
symmetry Space Group: P 21 21 21
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
45.000 104.300 50.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand 0PC enzyme Hydrolase E.C.3.4.22.2 BRENDA
note 6PAD supersedes 7PAP
related structures by homologous chain: 1BQI, 5PAD
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceBinding of chloromethyl ketone substrate analogues to crystalline papain., Drenth J, Kalk KH, Swen HM, Biochemistry 1976 AUG 24;15(17):3731-8. PMID:952885
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (36 Kb) [Save to disk]
  • Biological Unit Coordinates (6pad.pdb1.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 6PAD
  • CSU: Contacts of Structural Units for 6PAD
  • Likely Quarternary Molecular Structure file(s) for 6PAD
  • Retrieve 6PAD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6PAD from S2C, [Save to disk]
  • View 6PAD 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 6PAD
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 6PAD, from MSDmotif at EBI
  • Genome occurence of 6PAD's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d6pad__, region [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: [6pad_I] [6pad_A] [6pad]
  • SWISS-PROT database: [P00784]
  • Domain organization of [PAPA1_CARPA] by SWISSPFAM
  • Domain found in 6PAD: [Pept_C1 ] by SMART
  • Other resources with information on 6PAD
  • Community annotation for 6PAD 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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