1T4U Hydrolase Hydrolase Inhibitor date Apr 30, 2004
title Crystal Structure Analysis Of A Novel Oxyguanidine Bound To
authors J.Spurlino
compound source
Molecule: Prothrombin
Chain: L
Fragment: Sequence Database Residues 334-359
Synonym: Coagulation Factor II
Ec: 3.4.21.5
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F2

Molecule: Prothrombin
Chain: H
Fragment: Sequence Database Residues 364-622
Synonym: Coagulation Factor II
Ec: 3.4.21.5
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F2

Molecule: Hirudin Iiia
Chain: I
Fragment: Sequence Database Residues 55-65
Engineered: Yes

Organism_scientific: Hirudo Medicinalis
Organism_common: Medicinal Leech
Organism_taxid: 6421
symmetry Space Group: C 1 2 1
R_factor 0.211 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.710 72.230 72.680 90.00 100.30 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 81A, TYS BindingDB enzyme Hydrolase E.C.3.4.21.5 BRENDA
related structures by homologous chain: 1MU8, 1T4V
Gene
Ontology
ChainFunctionProcessComponent
H


L


Primary referenceOxyguanidines. Part 2: Discovery of a novel orally active thrombin inhibitor through structure-based drug design and parallel synthesis., Lu T, Markotan T, Coppo F, Tomczuk B, Crysler C, Eisennagel S, Spurlino J, Gremminger L, Soll RM, Giardino EC, Bone R, Bioorg Med Chem Lett 2004 Jul 16;14(14):3727-31. PMID:15203151
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (1t4u.pdb1.gz) 64 Kb
  • LPC: Ligand-Protein Contacts for 1T4U
  • CSU: Contacts of Structural Units for 1T4U
  • Likely Quarternary Molecular Structure file(s) for 1T4U
  • Retrieve 1T4U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1T4U from S2C, [Save to disk]
  • View 1T4U 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 1T4U
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1T4U, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1t4u_I] [1t4u_H] [1t4u] [1t4u_L]
  • SWISS-PROT database: [P28507] [P00734]
  • Domain organization of [HIR3A_HIRME] [THRB_HUMAN] by SWISSPFAM
  • Domain found in 1T4U: [Tryp_SPc ] by SMART
  • Other resources with information on 1T4U
  • Community annotation for 1T4U 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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