3KR5 Hydrolase date Nov 17, 2009
title Structure Of A Protease 4
authors S.Mcgowan, J.C.Whisstock
compound source
Molecule: M17 Leucyl Aminopeptidase
Chain: A, B, C, D, E, F, G, H, I, J, K, L
Fragment: Residues 84-605
Synonym: Malarial Protease
Ec: 3.4.11.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Plasmodium Falciparum
Organism_taxid: 36329
Strain: 3d7
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 De3 Rosetta2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptrc-His2b
symmetry Space Group: P 21 21 21
R_factor 0.220 R_Free 0.278
crystal
cell
length a length b length c angle alpha angle beta angle gamma
172.080 174.160 227.706 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.56 Å
ligand 1PE, BEY, CO3, SO4, ZN enzyme Hydrolase E.C.3.4.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, K, E, B, H, C, D, I, G, L


Primary referenceStructure of the Plasmodium falciparum M17 aminopeptidase and significance for the design of drugs targeting the neutral exopeptidases., McGowan S, Oellig CA, Birru WA, Caradoc-Davies TT, Stack CM, Lowther J, Skinner-Adams T, Mucha A, Kafarski P, Grembecka J, Trenholme KR, Buckle AM, Gardiner DL, Dalton JP, Whisstock JC, Proc Natl Acad Sci U S A. 2010 Feb 9;107(6):2449-54. Epub 2010 Jan 21. PMID:20133789
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1986 Kb) [Save to disk]
  • Biological Unit Coordinates (3kr5.pdb1.gz) 985 Kb
  • Biological Unit Coordinates (3kr5.pdb2.gz) 997 Kb
  • LPC: Ligand-Protein Contacts for 3KR5
  • CSU: Contacts of Structural Units for 3KR5
  • Structure Factors (12004 Kb)
  • Retrieve 3KR5 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3KR5 from S2C, [Save to disk]
  • Re-refined 3kr5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3KR5 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 3KR5
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3KR5, from MSDmotif at EBI
  • Fold representative 3kr5 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3kr5] [3kr5_G] [3kr5_A] [3kr5_C] [3kr5_F] [3kr5_E] [3kr5_L] [3kr5_J] [3kr5_K] [3kr5_D] [3kr5_I] [3kr5_B] [3kr5_H]
  • SWISS-PROT database: [Q8IL11]
  • Domain organization of [Q8IL11_PLAF7] by SWISSPFAM
  • Other resources with information on 3KR5
  • Community annotation for 3KR5 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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