2PUQ Hydrolase Hydrolase Inhibitor date May 09, 2007
title Crystal Structure Of Active Site Inhibited Coagulation Facto Complex With Soluble Tissue Factor
authors J.R.Bjelke, H.B.Rasmussen
compound source
Molecule: Coagulation Factor Vii
Chain: L
Fragment: Light Chain
Synonym: Serum Prothrombin Conversion Accelerator; Spca Proconvertin; Eptacog Alfa;
Ec: 3.4.21.21
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F7
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Cho-K1
Expression_system_cell: Hampster Ovary Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pee-Acedelta36nj

Molecule: Coagulation Factor Vii
Chain: H
Fragment: Heavy Chain
Synonym: Serum Prothrombin Conversion Accelerator; Spca Proconvertin; Eptacog Alfa;
Ec: 3.4.21.21
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: F7
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Cho-K1
Expression_system_cell: Hampster Ovary Cells
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pee-Acedelta36nj

Molecule: Tissue Factor
Chain: T
Synonym: Soluble Tissue Factor; Tf; Coagulation Factor III Thromboplastin; Cd142 Antigen;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ace
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid

Molecule: Trp-Tyr-Thr-Arg Chloromethylketone Inhibitor
Chain: I
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 1 21 1
R_factor 0.228 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.312 68.827 78.732 90.00 90.74 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand 0QE, AR7, BGC, CA, CH2, FUC enzyme Hydrolase E.C.3.4.21.21 BRENDA
note 2PUQ supersedes 2PMM
Gene
Ontology
ChainFunctionProcessComponent
H


T


Primary referenceEngineering the substrate and inhibitor specificities of human coagulation factor VIIa., Larsen KS, Ostergaard H, Bjelke JR, Olsen OH, Rasmussen HB, Christensen L, Kragelund BB, Stennicke HR, Biochem J. 2007 Apr 25;. PMID:17456045
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (97 Kb) [Save to disk]
  • Biological Unit Coordinates (2puq.pdb1.gz) 89 Kb
  • LPC: Ligand-Protein Contacts for 2PUQ
  • CSU: Contacts of Structural Units for 2PUQ
  • Likely Quarternary Molecular Structure file(s) for 2PUQ
  • Structure Factors (406 Kb)
  • Retrieve 2PUQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PUQ from S2C, [Save to disk]
  • Re-refined 2puq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2PUQ 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 2PUQ
  • 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 2PUQ, from MSDmotif at EBI
  • Fold representative 2puq from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2puq_I] [2puq] [2puq_T] [2puq_H] [2puq_L]
  • SWISS-PROT database: [P08709] [P13726]
  • Domain organization of [FA7_HUMAN] [TF_HUMAN] by SWISSPFAM
  • Domains found in 2PUQ: [EGF] [Tryp_SPc ] by SMART
  • Alignments of the sequence of 2PUQ with the sequences similar proteins can be viewed for 2PUQ'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 2PUQ
  • Community annotation for 2PUQ 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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