1FID Blood Coagulation Factor date Aug 24, 1996
title Structure Of Human Gamma Fibrinogen 30 Kd Carboxyl Terminal Fragment
authors V.C.Yee, D.C.Teller
compound source
Molecule: Gamma Fibrinogen
Chain: A
Fragment: 30 Kd Carboxyl Terminal Fragment
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Blood
Gene: Human Fibrinogen Gamma Chain C
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_plasmid: Ppic9k
Expression_system_gene: Human Fibrinogen Gamma Chain Cdna Encoding Val 143 - Val 411
symmetry Space Group: P 21 21 2
R_factor 0.170 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.360 62.560 49.620 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CA enzyme
related structures by homologous chain: 1FIB, 2FIB
Primary referenceCrystal structure of a 30 kDa C-terminal fragment from the gamma chain of human fibrinogen., Yee VC, Pratt KP, Cote HC, Trong IL, Chung DW, Davie EW, Stenkamp RE, Teller DC, Structure 1997 Jan 15;5(1):125-38. PMID:9016719
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (49 Kb) [Save to disk]
  • Biological Unit Coordinates (1fid.pdb1.gz) 45 Kb
  • LPC: Ligand-Protein Contacts for 1FID
  • CSU: Contacts of Structural Units for 1FID
  • Likely Quarternary Molecular Structure file(s) for 1FID
  • Structure Factors (174 Kb)
  • Retrieve 1FID in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1FID from S2C, [Save to disk]
  • Re-refined 1fid structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1FID 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 1FID
  • 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 1FID, from MSDmotif at EBI
  • Genome occurence of 1FID's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1fid__, region [Jmol] [rasmolscript] [script source]
  • Fold representative 1fid 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: [1fid_A] [1fid]
  • SWISS-PROT database: [P02679]
  • Domain organization of [FIBG_HUMAN] by SWISSPFAM
  • Domain found in 1FID: [FBG ] by SMART
  • Alignments of the sequence of 1FID with the sequences similar proteins can be viewed for 1FID's classification [FIBG_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 [FIBG_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1FID
  • Community annotation for 1FID 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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