1MS6 Hydrolase date Sep 19, 2002
title Dipeptide Nitrile Inhibitor Bound To Cathepsin S.
authors Y.D.Ward, D.S.Thomson, L.L.Frye, C.L.Cywin, T.Morwick, M.J.Emmanuel, R.Zindell, D.Mcneil, Y.Bekkali, M.Giradot, M.Hrapchak, M.Deturi, K.Crane, D.White, S.Pav, Y.Wang, M.H.Hao, C.A.Grygon, M.E.Labadia, D.M.Freeman, W.Davidson, J.L.Hopkins, M.L.Brown, D.M.Spero
compound source
Molecule: Cathepsin S
Chain: A
Ec: 3.4.22.27
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 2 2
R_factor 0.155 R_Free 0.197
crystal
cell
length a length b length c angle alpha angle beta angle gamma
85.290 85.290 150.070 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand BLN BindingDB enzyme Hydrolase E.C.3.4.22.27 BRENDA
related structures by homologous chain: 1NPZ, 1NQC
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDesign and synthesis of dipeptide nitriles as reversible and potent Cathepsin S inhibitors., Ward YD, Thomson DS, Frye LL, Cywin CL, Morwick T, Emmanuel MJ, Zindell R, McNeil D, Bekkali Y, Girardot M, Hrapchak M, DeTuri M, Crane K, White D, Pav S, Wang Y, Hao MH, Grygon CA, Labadia ME, Freeman DM, Davidson W, Hopkins JL, Brown ML, Spero DM, Giradot M, J Med Chem 2002 Dec 5;45(25):5471-82. PMID:12459015
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (38 Kb) [Save to disk]
  • Biological Unit Coordinates (1ms6.pdb1.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 1MS6
  • CSU: Contacts of Structural Units for 1MS6
  • Likely Quarternary Molecular Structure file(s) for 1MS6
  • Retrieve 1MS6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1MS6 from S2C, [Save to disk]
  • View 1MS6 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 1MS6
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1MS6, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ms6a_, region A [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: [1ms6_A] [1ms6]
  • SWISS-PROT database: [P25774]
  • Domain organization of [CATS_HUMAN] by SWISSPFAM
  • Domain found in 1MS6: [Pept_C1 ] by SMART
  • Other resources with information on 1MS6
  • Community annotation for 1MS6 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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