2H43 Blood Clotting date May 23, 2006
title Crystal Structure Of Human Fragment D Complexed With Ala-His Amide
authors R.F.Doolittle, L.Pandi
compound source
Molecule: Fibrinogen Alpha Chain
Chain: A, D
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Fibrinogen Beta Chain
Chain: B, E

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Fibrinogen Gamma Chain
Chain: C, F

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Gly-His-Arg-Pro-Amide Peptide Ligand
Chain: I, J
Engineered: Yes

Synthetic: Yes
Other_details: The Peptide Was Chemically Synthesized.
symmetry Space Group: P 1 21 1
R_factor 0.251 R_Free 0.307
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.000 47.900 171.400 90.00 105.41 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand CA, NAG, NDG, NH2 enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceDifferences in Binding Specificity for the Homologous gamma- and beta-Chain "Holes" on Fibrinogen: Exclusive Binding of Ala-His-Arg-Pro-amide by the beta-Chain Hole(,)., Doolittle RF, Chen A, Pandi L, Biochemistry. 2006 Nov 28;45(47):13962-13969. PMID:17115691
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (228 Kb) [Save to disk]
  • Biological Unit Coordinates (2h43.pdb1.gz) 113 Kb
  • Biological Unit Coordinates (2h43.pdb2.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 2H43
  • CSU: Contacts of Structural Units for 2H43
  • Likely Quarternary Molecular Structure file(s) for 2H43
  • Structure Factors (480 Kb)
  • Retrieve 2H43 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2H43 from S2C, [Save to disk]
  • Re-refined 2h43 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2H43 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 2H43
  • 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 2H43, from MSDmotif at EBI
  • Fold representative 2h43 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2h43_C] [2h43_J] [2h43_A] [2h43_E] [2h43_B] [2h43_F] [2h43] [2h43_I] [2h43_D]
  • SWISS-PROT database: [P02671] [P02675] [P02679]
  • Domain organization of [FIBA_HUMAN] [FIBB_HUMAN] [FIBG_HUMAN] by SWISSPFAM
  • Domain found in 2H43: [FBG ] by SMART
  • Other resources with information on 2H43
  • Community annotation for 2H43 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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