2OYH Blood Clotting date Feb 22, 2007
title Crystal Structure Of Fragment D Of Gammad298,301a Fibrinogen Peptide Ligand Gly-His-Arg-Pro-Amide
authors M.S.Kostelansky, O.V.Gorkun, S.T.Lord
compound source
Molecule: Fibrinogen Alpha Chain
Chain: A, D
Fragment: Residues 145-210
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fga
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Cho Cells

Molecule: Fibrinogen Beta Chain
Chain: B, E
Fragment: Residues 179-491
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fgb
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Cho Cells

Molecule: Fibrinogen Gamma Chain
Chain: C, F
Fragment: Residues 122-432
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fgg
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_strain: Cho Cells

Molecule: Ghrp Peptide
Chain: G, H, I, J
Engineered: Yes

Synthetic: Yes
Other_details: Ghrp Peptide Chemically Synthesized
symmetry Space Group: P 21 21 21
R_factor 0.220 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.164 94.119 226.730 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand CA, FUC, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceProbing the gamma2 Calcium-Binding Site: Studies with gammaD298,301A Fibrinogen Reveal Changes in the gamma294-301 Loop that Alter the Integrity of the "a" Polymerization Site(,)., Kostelansky MS, Lounes KC, Ping LF, Dickerson SK, Gorkun OV, Lord ST, Biochemistry. 2007 May 1;46(17):5114-23. Epub 2007 Apr 6. PMID:17411074
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (228 Kb) [Save to disk]
  • Biological Unit Coordinates (2oyh.pdb1.gz) 114 Kb
  • Biological Unit Coordinates (2oyh.pdb2.gz) 111 Kb
  • LPC: Ligand-Protein Contacts for 2OYH
  • CSU: Contacts of Structural Units for 2OYH
  • Likely Quarternary Molecular Structure file(s) for 2OYH
  • Structure Factors (803 Kb)
  • Retrieve 2OYH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2OYH from S2C, [Save to disk]
  • Re-refined 2oyh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2OYH 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 2OYH
  • 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 2OYH, from MSDmotif at EBI
  • Fold representative 2oyh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2oyh]
  • SWISS-PROT database: [P02671] [P02675] [P02679]
  • Domain organization of [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] by SWISSPFAM
  • Domain found in 2OYH: [FBG ] by SMART
  • Other resources with information on 2OYH
  • Community annotation for 2OYH at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science