1Z6J	Hydrolase	date	Mar 22, 2005
title	Crystal Structure Of A Ternary Complex Of Factor Viiatissue Factorpyrazinone Inhibitor
authors	B.A.Schweitzer, W.L.Neumann, H.K.Rahman, C.L.Kusturin, K.R.Sample, G.I.Poda, R.G.Kurumbail, A.M.Stevens, R.A.Stegeman, W.C.Stallings
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: Cricetinae Expression_system_common: Hamsters Expression_system_taxid: 10026 Expression_system_organ: Kidney
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: Cricetinae Expression_system_common: Hamsters Expression_system_taxid: 10026 Expression_system_organ: Kidney
Molecule: Tissue Factor Chain: T Fragment: Residues 33-243 Synonym: Tf, Coagulation Factor III, Thromboplastin, Cd142 Antigen; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: F3 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 21	R_factor 0.209 R_Free 0.258
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.652 81.137 125.577 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	CA, CGU, MG, PY3 BindingDB	enzyme	Hydrolase E.C.3.4.21.21 BRENDA
related structures	by homologous chain: 1DAN, 1JBU, 1O5D
Primary reference	Structure-based design and synthesis of pyrazinones containing novel P1 'side pocket' moieties as inhibitors of TF/VIIa., Schweitzer BA, Neumann WL, Rahman HK, Kusturin CL, Sample KR, Poda GI, Kurumbail RG, Stevens AM, Stegeman RA, Stallings WC, South MS, Bioorg Med Chem Lett 2005 Jun 15;15(12):3006-11. PMID:15913999

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (113 Kb) [Save to disk] Biological Unit Coordinates (1z6j.pdb1.gz) 107 Kb LPC: Ligand-Protein Contacts for 1Z6J CSU: Contacts of Structural Units for 1Z6J Likely Quarternary Molecular Structure file(s) for 1Z6J Structure Factors (335 Kb) Retrieve 1Z6J in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Z6J from S2C, [Save to disk] Re-refined 1z6j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1Z6J 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 1Z6J

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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 1Z6J, from MSDmotif at EBI Fold representative 1z6j from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1z6j_H] [1z6j_L] [1z6j_T] SWISS-PROT database: [P08709] [P13726] Domain organization of [FA7_HUMAN] [TF_HUMAN] by SWISSPFAM Domains found in 1Z6J: [EGF_CA] [EGF_like] [GLA] [Tryp_SPc ] by SMART Alignments of the sequence of 1Z6J with the sequences similar proteins can be viewed for 1Z6J'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 1Z6J

Community annotation for 1Z6J at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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