1F7M Blood Clotting date Feb 19, 1999
title The First Egf-Like Domain From Human Blood Coagulation Fvii, Nmr, Minimized Average Structure
authors Y.H.Kao, G.F.Lee, Y.Wang, M.A.Starovasnik, R.F.Kelley, M.W.Spellman, L.Lerner
compound source
Molecule: Protein (Blood Coagulation Factor Vii)
Chain: A
Fragment: First Egf-Like Domain
Engineered: Yes
Other_details: Calcium Bound Form
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
methodSolution NMR
related structures by homologous chain: 1F7E, 1FF7
Primary referenceThe effect of O-fucosylation on the first EGF-like domain from human blood coagulation factor VII., Kao YH, Lee GF, Wang Y, Starovasnik MA, Kelley RF, Spellman MW, Lerner L, Biochemistry 1999 Jun 1;38(22):7097-110. PMID:10353820
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (14 Kb) [Save to disk]
  • CSU: Contacts of Structural Units for 1F7M
  • Original NMR restraints for 1F7M from PDB
  • Retrieve 1F7M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1F7M from S2C, [Save to disk]
    • View 1F7M 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 1F7M
  • 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 1F7M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1f7ma_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1f7m 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: [1f7m_A]
  • SWISS-PROT database: [P08709]
  • Domain organization of [FA7_HUMAN] by SWISSPFAM
  • Domain found in 1F7M: [EGF_CA ] by SMART
  • Alignments of the sequence of 1F7M with the sequences similar proteins can be viewed for 1F7M'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 1F7M
  • Community annotation for 1F7M 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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