1JBU Hydrolase Hydrolase Inhibitor date Jun 06, 2001
title Coagulation Factor Vii Zymogen (Egf2protease) In Complex Wi Inhibitory Exosite Peptide A-183
authors C.Eigenbrot, D.Kirchhofer, M.S.Dennis, L.Santell, R.A.Lazarus, J. M.H.Ultsch
compound source
Molecule: Coagulation Factor Vii
Chain: H
Fragment: Heavy Chain
Synonym: Serum Prothrombin Conversion Accelerator
Ec: 3.4.21.21
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_strain: High-Five
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacgp67

Molecule: Coagulation Factor Vii
Chain: L
Fragment: Light Chain
Synonym: Serum Prothrombin Conversion Accelerator
Ec: 3.4.21.21
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_strain: High-Five
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacgp67

Molecule: Peptide Exosite Inhibitor A-183
Chain: X
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Synthetic Construct
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: 27c7
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pa-100-Z
symmetry Space Group: P 21 21 21
R_factor 0.204 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.440 84.510 84.840 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand BEN, SO4 enzyme Hydrolase E.C.3.4.21.21 BRENDA
related structures by homologous chain: 1O5D, 1YGC, 1Z6J
Gene
Ontology
ChainFunctionProcessComponent
H


Primary referenceThe factor VII zymogen structure reveals reregistration of beta strands during activation., Eigenbrot C, Kirchhofer D, Dennis MS, Santell L, Lazarus RA, Stamos J, Ultsch MH, Structure (Camb) 2001 Jul 3;9(7):627-36. PMID:11470437
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (61 Kb) [Save to disk]
  • Biological Unit Coordinates (1jbu.pdb1.gz) 57 Kb
  • Biological Unit Coordinates (1jbu.pdb2.gz) 57 Kb
  • LPC: Ligand-Protein Contacts for 1JBU
  • CSU: Contacts of Structural Units for 1JBU
  • Likely Quarternary Molecular Structure file(s) for 1JBU
  • Retrieve 1JBU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JBU from S2C, [Save to disk]
  • View 1JBU 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 1JBU
  • 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 1JBU, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jbuh_, region H [Jmol] [rasmolscript] [script source]
        - Domain d1jbul_, region L [Jmol] [rasmolscript] [script source]
  • Fold representative 1jbu 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: [1jbu_X] [1jbu_H] [1jbu] [1jbu_L]
  • SWISS-PROT database: [P08709]
  • Domain organization of [FA7_HUMAN] by SWISSPFAM
  • Domains found in 1JBU: [EGF] [Tryp_SPc ] by SMART
  • Alignments of the sequence of 1JBU with the sequences similar proteins can be viewed for 1JBU'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 1JBU
  • Community annotation for 1JBU 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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