1DVA	Hydrolase Hydrolase Inhibitor	date	Jan 20, 2000
title	Crystal Structure Of The Complex Between The Peptide Exosite E-76 And Coagulation Factor Viia
authors	C.Eigenbrot, M.H.Ultsch
compound		source
Molecule: Des-Gla Factor Viia (Heavy Chain) Chain: H, I Ec: 3.4.21.21 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Liver Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606 Expression_system_cell_line: Human Kidney Cell Line 293 Expression_system_plasmid: Pcmv5
Molecule: Des-Gla Factor Viia (Light Chain) Chain: L, M Ec: 3.4.21.21 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Liver Expression_system: Homo Sapiens Expression_system_common: Human Expression_system_taxid: 9606 Expression_system_cell_line: Human Kidney Cell Line 293 Expression_system_plasmid: Pcmv5
Molecule: Peptide E-76 Chain: X, Y Engineered: Yes		Synthetic: Yes Other_details: Peptide E-76 Was Synthesized On A Solid Supp Cleaved And Purified
symmetry	Space Group: P 1 21 1	R_factor 0.225 R_Free 0.295
crystal cell	length a length b length c angle alpha angle beta angle gamma 70.490 55.260 111.730 90.00 99.48 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	0Z6, ACE, BGC, CA, CAC, CH2, DPN, FUC, FUL, GAL, GLC	enzyme	Hydrolase E.C.3.4.21.21 BRENDA
related structures	by homologous chain: 1FFM, 1J9C
Primary reference	Peptide exosite inhibitors of factor VIIa as anticoagulants., Dennis MS, Eigenbrot C, Skelton NJ, Ultsch MH, Santell L, Dwyer MA, O'Connell MP, Lazarus RA, Nature 2000 Mar 30;404(6777):465-70. PMID:10761907

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (131 Kb) [Save to disk] Biological Unit Coordinates (1dva.pdb1.gz) 63 Kb Biological Unit Coordinates (1dva.pdb2.gz) 63 Kb LPC: Ligand-Protein Contacts for 1DVA CSU: Contacts of Structural Units for 1DVA Likely Quarternary Molecular Structure file(s) for 1DVA Retrieve 1DVA in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1DVA from S2C, [Save to disk]

View 1DVA 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 1DVA

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 1DVA, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1dvah_, region H [Jmol] [rasmolscript] [script source]     - Domain d1dvai_, region I [Jmol] [rasmolscript] [script source]     - Domain d1dval1, region L:42-86 [Jmol] [rasmolscript] [script source]     - Domain d1dval2, region L:87-142 [Jmol] [rasmolscript] [script source]     - Domain d1dvam1, region M:42-86 [Jmol] [rasmolscript] [script source]     - Domain d1dvam2, region M:87-142 [Jmol] [rasmolscript] [script source] Fold representative 1dva from FSSP and Dali (Families of Structurally Similar Proteins) Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH Summaries and structural analyses of PDB data files from PDBSum Identification of Protein Pockets & Cavities at CASTp

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1dva_C] [1dva_D] [1dva_H] [1dva_I] [1dva_L] [1dva_M] [1dva_X] [1dva_Y] SWISS-PROT database: [P08709] Domain organization of [FA7_HUMAN] by SWISSPFAM Domains found in 1DVA: [EGF_CA] [EGF_like] [Tryp_SPc ] by SMART Alignments of the sequence of 1DVA with the sequences similar proteins can be viewed for 1DVA's classification [FA7_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] at ProtoMap. Click on the Cluster number.

Other resources with information on 1DVA

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

Movements, Movies and Images

Domain movements in 1DVA from the Database of Macromolecular Movements. Images from IMB Jena Image Library of Biological Macromolecules.

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