1W2K Hydrolase date Jul 06, 2004
title Tf7a_4380 Complex
authors D.W.Banner, A.D'Arcy, K.Groebke-Zbinden, J.Ackermann, D.Kirchhofer, Y.H.Ji, T.B.Tschopp, S.Wallbaum, L.Weber
compound source
Molecule: Blood Coagulation Factor Viia
Chain: H
Fragment: Factor Vii Heavy Chain, Residues 213-466
Synonym: Serum Prothrombin Conversion Accelerator, Spca, Proconvertin, Eptacog Alfa, Novoseven;
Ec: 3.4.21.21
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Baby Hamster Kidney Cells (Bhk)

Molecule: Blood Coagulation Factor Viia
Chain: L
Fragment: Factor Vii Heavy Chain, Residues 61-202
Synonym: Serum Prothrombin Conversion Accelerator, Spca, Proconvertin, Eptacog Alfa, Novoseven;
Ec: 3.4.21.21
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Baby Hamster Kidney Cells (Bhk)

Molecule: Tissue Factor
Chain: T
Fragment: Extracellular Domain, Residues 38-242
Synonym: Tf, Coagulation Factor III, Thromboplastin, Cd142 Antigen, Soluble Tissue Factor;
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 0.197 R_Free 0.257
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.874 82.638 123.722 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.0 Å
ligand 380, BGC, CA, CAC, CGU, FUC BindingDB enzyme Hydrolase E.C.3.4.21.21 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
H


L


T


Primary referenceDesign of selective phenylglycine amide tissue factor/factor VIIa inhibitors., Groebke Zbinden K, Banner DW, Ackermann J, D'Arcy A, Kirchhofer D, Ji YH, Tschopp TB, Wallbaum S, Weber L, Bioorg Med Chem Lett. 2005 Feb 1;15(3):817-22. PMID:15664864
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (1w2k.pdb1.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 1W2K
  • CSU: Contacts of Structural Units for 1W2K
  • Structure Factors (220 Kb)
  • Retrieve 1W2K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1W2K from S2C, [Save to disk]
  • Re-refined 1w2k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1W2K 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 1W2K
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1W2K, from MSDmotif at EBI
  • Fold representative 1w2k from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1w2k_H] [1w2k_L] [1w2k] [1w2k_T]
  • SWISS-PROT database: [P08709] [P13726]
  • Domain organization of [FA7_HUMAN] [TF_HUMAN] by SWISSPFAM
  • Domains found in 1W2K: [EGF] [EGF_CA] [GLA] [Tryp_SPc ] by SMART
  • Alignments of the sequence of 1W2K with the sequences similar proteins can be viewed for 1W2K's classification [FA7_HUMAN] [TF_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [FA7_HUMAN] [TF_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1W2K
  • Community annotation for 1W2K 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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