3BN9 Hydrolase date Dec 13, 2007
title Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor E2
authors C.J.Farady, E.L.Schneider, P.F.Egea, D.H.Goetz, C.S.Craik
compound source
Molecule: Membrane-Type Serine Protease 1
Chain: B, A
Fragment: Peptidase S1 Domain
Synonym: Serine Protease 14, Matriptase, Suppressor Of Tumo Protein 14, Mt-Sp1, Prostamin, Serine Protease Tadg-15, Tum Associated Differentially-Expressed Gene 15 Protein;
Ec: 3.4.21.109
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: St14, Prss14, Snc19, Tadg15
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: E2 Fab Light Chain
Chain: C, E
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: E2 Fab Heavy Chain
Chain: D, F
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.223 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.625 163.279 201.160 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.17 Å
ligand EDO, SO4 enzyme Hydrolase E.C.3.4.21.109 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


F, D
  • serine-type endopeptidase ac...


  • Primary referenceStructure of an Fab-protease complex reveals a highly specific non-canonical mechanism of inhibition., Farady CJ, Egea PF, Schneider EL, Darragh MR, Craik CS, J Mol Biol. 2008 Jul 4;380(2):351-60. Epub 2008 May 11. PMID:18514224
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (450 Kb) [Save to disk]
  • Biological Unit Coordinates (3bn9.pdb1.gz) 222 Kb
  • Biological Unit Coordinates (3bn9.pdb2.gz) 225 Kb
  • LPC: Ligand-Protein Contacts for 3BN9
  • CSU: Contacts of Structural Units for 3BN9
  • Likely Quarternary Molecular Structure file(s) for 3BN9
  • Structure Factors (622 Kb)
  • Retrieve 3BN9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BN9 from S2C, [Save to disk]
  • Re-refined 3bn9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
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  • 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 3BN9
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  • 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 3BN9, from MSDmotif at EBI
  • Fold representative 3bn9 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bn9_F] [3bn9_C] [3bn9] [3bn9_E] [3bn9_A] [3bn9_D] [3bn9_B]
  • SWISS-PROT database: [P01764] [P01857] [P01834] [Q9Y5Y6]
  • Domain organization of [HV303_HUMAN] [IGHG1_HUMAN] [IGKC_HUMAN] [ST14_HUMAN] by SWISSPFAM
  • Domains found in 3BN9: [IG_like] [IGv] [Tryp_SPc ] by SMART
  • Other resources with information on 3BN9
  • Community annotation for 3BN9 at PDBWiki (http://pdbwiki.org)
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