1GJ5	Blood Clotting,Hydrolase Inhibitor	date	Apr 27, 2001
title	Selectivity At S1, H2o Displacement, Upa, Tpa, Ser190ala190 Structure-Based Drug Design
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: Thrombin Chain: L Fragment: Light Chain, Residues 328-363 Synonym: Coagulation Factor II Ec: 3.4.21.5		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
Molecule: Thrombin Chain: H Fragment: Heavy Chain, Residues 364-620 Synonym: Coagulation Factor II Ec: 3.4.21.5		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
Molecule: Acetyl Hirudin Chain: I Engineered: Yes		Synthetic: Yes Organism_scientific: Hirudo Medicinalis Organism_taxid: 6421
symmetry	Space Group: C 1 2 1	R_factor 0.193 R_Free 0.233
crystal cell	length a length b length c angle alpha angle beta angle gamma 71.330 71.960 72.960 90.00 101.05 90.00
method	X-Ray Diffraction	resolution	1.73 Å
ligand	130, NA, TYS BindingDB	enzyme	Hydrolase E.C.3.4.21.5 BRENDA
related structures	by homologous chain: 1DOJ, 1GHW, 1H8I
Gene Ontology	Chain Function Process Component H L
Primary reference	Engineering 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] (122 Kb) [Save to disk] Biological Unit Coordinates (1gj5.pdb1.gz) 115 Kb LPC: Ligand-Protein Contacts for 1GJ5 CSU: Contacts of Structural Units for 1GJ5 Likely Quarternary Molecular Structure file(s) for 1GJ5 Structure Factors (175 Kb) Retrieve 1GJ5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1GJ5 from S2C, [Save to disk] Re-refined 1gj5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1GJ5 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 1GJ5

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 1GJ5, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1gj5.1, region L:,H [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: [1gj5_I] [1gj5_H] [1gj5] [1gj5_L] SWISS-PROT database: [P00734] Domain organization of [THRB_HUMAN] by SWISSPFAM Domain found in 1GJ5: [Tryp_SPc ] by SMART

Other resources with information on 1GJ5

Community annotation for 1GJ5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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