2FIB Complex (Blood Coagulation Peptide) date Jun 03, 1997
title Recombinant Human Gamma-Fibrinogen Carboxyl Terminal Fragment (Residues 143-411) Complexed To The Peptide Gly- Pro-Arg-Pro At Ph 6.0
authors K.P.Pratt, H.C.F.Cote, D.W.Chung, R.E.Stenkamp, E.W.Davie
compound source
Molecule: Fibrinogen
Chain: A
Fragment: Gamma Chain, Carboxyl Terminal Fragment Residues 143 - 411;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Blood
Tissue: Blood Plasma
Gene: Human Fibrinogen Gamma Chain Cdna Encoding Val 143 - Val 411;
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_plasmid: Ppic9k

Molecule: Gly-Pro-Arg-Pro
Chain: B
Engineered: Yes

symmetry Space Group: P 1 21 1
R_factor 0.186 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
37.330 68.200 47.600 90.00 105.02 90.00
method X-Ray Diffractionresolution 2.01 Å
ligand CA enzyme
related structures by homologous chain: 1FID, 1FZC
Primary referenceThe primary fibrin polymerization pocket: three-dimensional structure of a 30-kDa C-terminal gamma chain fragment complexed with the peptide Gly-Pro-Arg-Pro., Pratt KP, Cote HC, Chung DW, Stenkamp RE, Davie EW, Proc Natl Acad Sci U S A 1997 Jul 8;94(14):7176-81. PMID:9207064
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (2fib.pdb1.gz) 44 Kb
  • LPC: Ligand-Protein Contacts for 2FIB
  • CSU: Contacts of Structural Units for 2FIB
  • Likely Quarternary Molecular Structure file(s) for 2FIB
  • Structure Factors (123 Kb)
  • Retrieve 2FIB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2FIB from S2C, [Save to disk]
  • Re-refined 2fib structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2FIB 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 2FIB
  • 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 2FIB, from MSDmotif at EBI
  • Genome occurence of 2FIB's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d2fiba_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 2fib 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: [2fib] [2fib_B] [2fib_A]
  • SWISS-PROT database: [P02679]
  • Domain organization of [FIBG_HUMAN] by SWISSPFAM
  • Domain found in 2FIB: [FBG ] by SMART
  • Other resources with information on 2FIB
  • Community annotation for 2FIB 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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