3TNX Hydrolase date Sep 02, 2011
title Structure Of The Precursor Of A Thermostable Variant Of Papa Angstroem Resolution
authors S.Roy, D.Choudhury, J.K.Dattagupta, S.Biswas
compound source
Molecule: Papain
Chain: A, C
Fragment: Unp Residues 27-345
Synonym: Papaya Proteinase I, Ppi
Ec: 3.4.22.2
Engineered: Yes
Mutation: Yes
Organism_scientific: Carica Papaya
Organism_common: Mamon
Organism_taxid: 3649
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet30 Eklic
symmetry Space Group: P 1 21 1
R_factor 0.183 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.925 74.775 116.510 90.00 93.03 90.00
method X-Ray Diffractionresolution 2.62 Å
ligand CL enzyme Hydrolase E.C.3.4.22.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceThe structure of a thermostable mutant of pro-papain reveals its activation mechanism., Roy S, Choudhury D, Aich P, Dattagupta JK, Biswas S, Acta Crystallogr D Biol Crystallogr. 2012 Dec;68(Pt 12):1591-603. doi:, 10.1107/S0907444912038607. Epub 2012 Nov 9. PMID:23151624
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (215 Kb) [Save to disk]
  • Biological Unit Coordinates (3tnx.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (3tnx.pdb2.gz) 106 Kb
  • LPC: Ligand-Protein Contacts for 3TNX
  • CSU: Contacts of Structural Units for 3TNX
  • Structure Factors (331 Kb)
  • Retrieve 3TNX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3TNX from S2C, [Save to disk]
  • Re-refined 3tnx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3TNX 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 3TNX
  • 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 3TNX, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3tnx_A] [3tnx_C] [3tnx]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3TNX: [Inhibitor_I29] [Pept_C1 ] by SMART
  • Other resources with information on 3TNX
  • Community annotation for 3TNX at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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