1FZE Blood Coagulation date Dec 23, 1998
title Crystal Structure Of Fragment Double-D From Human Fibrin
authors S.J.Everse, G.Spraggon, L.Veerapandian, R.F.Doolittle
compound source
Molecule: Fibrinogen
Chain: A, D
Fragment: Fragment D
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Blood
Tissue: Blood

Molecule: Fibrinogen
Chain: B, E
Fragment: Fragment D

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Blood
Tissue: Blood

Molecule: Fibrinogen
Chain: C, F
Fragment: Fragment D

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organ: Blood
Tissue: Blood
symmetry Space Group: P 1 21 1
R_factor 0.251 R_Free 0.318
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.000 48.600 166.400 90.00 104.40 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand CA, NAG enzyme
related structures by homologous chain: 1FZA
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceConformational changes in fragments D and double-D from human fibrin(ogen) upon binding the peptide ligand Gly-His-Arg-Pro-amide., Everse SJ, Spraggon G, Veerapandian L, Doolittle RF, Biochemistry 1999 Mar 9;38(10):2941-6. PMID:10074346
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (236 Kb) [Save to disk]
  • Biological Unit Coordinates (1fze.pdb1.gz) 229 Kb
  • Biological Unit Coordinates (1fze.pdb2.gz) 117 Kb
  • Biological Unit Coordinates (1fze.pdb3.gz) 117 Kb
  • LPC: Ligand-Protein Contacts for 1FZE
  • CSU: Contacts of Structural Units for 1FZE
  • Likely Quarternary Molecular Structure file(s) for 1FZE
  • Retrieve 1FZE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1FZE from S2C, [Save to disk]
  • View 1FZE 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 1FZE
  • 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 1FZE, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1fzea_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1fzeb2, region B:151-199 [Jmol] [rasmolscript] [script source]
        - Domain d1fzeb1, region B:200-459 [Jmol] [rasmolscript] [script source]
        - Domain d1fzec1, region C:142-394 [Jmol] [rasmolscript] [script source]
        - Domain d1fzec2, region C:92-141 [Jmol] [rasmolscript] [script source]
        - Domain d1fzed_, region D [Jmol] [rasmolscript] [script source]
        - Domain d1fzee2, region E:151-199 [Jmol] [rasmolscript] [script source]
        - Domain d1fzee1, region E:200-458 [Jmol] [rasmolscript] [script source]
        - Domain d1fzef1, region F:142-393 [Jmol] [rasmolscript] [script source]
        - Domain d1fzef2, region F:92-141 [Jmol] [rasmolscript] [script source]
  • Fold representative 1fze 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: [1fze_B] [1fze_C] [1fze_F] [1fze_A] [1fze_E] [1fze_D] [1fze]
  • SWISS-PROT database: [P02671] [P02675] [P02679]
  • Domain organization of [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] by SWISSPFAM
  • Domain found in 1FZE: [FBG ] by SMART
  • Alignments of the sequence of 1FZE with the sequences similar proteins can be viewed for 1FZE's classification [FIBA_HUMAN] [FIBB_HUMAN] [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 [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1FZE
  • Community annotation for 1FZE 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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