1GJC Blood Clotting, Hydrolase date Apr 27, 2001
title Engineering Inhibitors Highly Selective For The S1 Sites Of Trypsin-Like Serine Protease Drug Targets
authors B.A.Katz, P.A.Sprengeler, C.Luong, E.Verner, J.R.Spencer, J.G.Breitenbucher, H.Hui, D.Mcgee, D.Allen, A.Martelli, R.L.Mack
compound source
Molecule: Urokinase-Type Plasminogen Activator
Chain: A
Fragment: Short Chain
Synonym: Upa, U-Plasminogen Activator, Urokinase-Plasminoge Activator;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic9lmwupa
Other_details: P.Pastoris

Molecule: Urokinase-Type Plasminogen Activator
Chain: B
Fragment: Catalytic Domain
Synonym: Upa, U-Plasminogen Activator, Urokinase-Plasminoge Activator;
Ec: 3.4.21.73
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic9lmwupa
Other_details: P.Pastoris
symmetry Space Group: C 1 2 1
R_factor 0.199 R_Free 0.242
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.780 50.240 66.410 90.00 113.60 90.00
method X-Ray Diffractionresolution 1.73 Å
ligand 130, CIT BindingDB enzyme Hydrolase E.C.3.4.21.73 BRENDA
related structures by homologous chain: 1GJD, 1O5A
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceEngineering inhibitors highly selective for the S1 sites of Ser190 trypsin-like serine protease drug targets., Katz BA, Sprengeler PA, Luong C, Verner E, Elrod K, Kirtley M, Janc J, Spencer JR, Breitenbucher JG, Hui H, McGee D, Allen D, Martelli A, Mackman RL, Chem Biol 2001 Nov;8(11):1107-21. PMID:11731301
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (106 Kb) [Save to disk]
  • Biological Unit Coordinates (1gjc.pdb1.gz) 99 Kb
  • LPC: Ligand-Protein Contacts for 1GJC
  • CSU: Contacts of Structural Units for 1GJC
  • Likely Quarternary Molecular Structure file(s) for 1GJC
  • Structure Factors (110 Kb)
  • Retrieve 1GJC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1GJC from S2C, [Save to disk]
  • Re-refined 1gjc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1GJC 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 1GJC
  • 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 1GJC, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1gjc.1, region A:,B [Jmol] [rasmolscript] [script source]
  • Fold representative 1gjc from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1gjc_B] [1gjc_A] [1gjc]
  • SWISS-PROT database: [P00749]
  • Domain organization of [UROK_HUMAN] by SWISSPFAM
  • Domain found in 1GJC: [Tryp_SPc ] by SMART
  • Other resources with information on 1GJC
  • Community annotation for 1GJC 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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