2EC9	Blood Clotting	date	Feb 13, 2007
title	Crystal Structure Analysis Of Human Factor Viia , Souluble T Factor Complexed With Bcx-3607
authors	K.Raman, B.Yarlagadda
compound		source
Molecule: Coagulation Factor Vii Chain: L Fragment: Residues 1-142 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 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bhk
Molecule: Coagulation Factor Vii Chain: H Fragment: Residues 16-257 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 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bhk
Molecule: Tissue Factor Chain: T Fragment: Residues 38-112 Synonym: Tf, Coagulation Factor III, Thromboplastin, Cd142 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bhk
Molecule: Tissue Factor Chain: U Fragment: Residues 91-210 Synonym: Tf, Coagulation Factor III, Thromboplastin, Cd142 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bhk
symmetry	Space Group: P 21 21 21	R_factor 0.242 R_Free 0.282
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.780 81.410 125.350 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	24X, ASO, CA, CGU, FUC	enzyme	Hydrolase E.C.3.4.21.21 BRENDA
Primary reference	Probing the S2 site of factor VIIa to generate potent and selective inhibitors: the structure of BCX-3607 in complex with tissue factor-factor VIIa., Krishnan R, Kotian PL, Chand P, Bantia S, Rowland S, Babu YS, Acta Crystallogr D Biol Crystallogr. 2007 Jun;63(Pt 6):689-97. Epub 2007 May 15. PMID:17505107

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk] Biological Unit Coordinates (2ec9.pdb1.gz) 102 Kb LPC: Ligand-Protein Contacts for 2EC9 CSU: Contacts of Structural Units for 2EC9 Likely Quarternary Molecular Structure file(s) for 2EC9 Structure Factors (385 Kb) Retrieve 2EC9 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2EC9 from S2C, [Save to disk] Re-refined 2ec9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2EC9 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2EC9

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 2EC9, from MSDmotif at EBI Fold representative 2ec9 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2ec9_H] [2ec9_L] [2ec9_T] [2ec9_U] SWISS-PROT database: [P08709] [P13726] Domain organization of [FA7_HUMAN] [TF_HUMAN] by SWISSPFAM Domains found in 2EC9: [EGF_CA] [EGF_like] [GLA] [Tryp_SPc ] by SMART Alignments of the sequence of 2EC9 with the sequences similar proteins can be viewed for 2EC9'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 2EC9

Community annotation for 2EC9 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2010 Bioinformatics Unit Weizmann Institute of Science

---