1U0N Blood Clotting date Jul 13, 2004
title The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha- Botrocetin Complex
authors K.Fukuda, R.C.Liddington
compound source
Molecule: Von Willebrand Factor
Chain: A
Fragment: Vwfa 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vwf,F8vwf
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Botrocetin
Chain: B
Fragment: Alpha Chain
Synonym: Platelet Coagglutinin

Organism_scientific: Bothrops Jararaca
Organism_common: Jararaca
Organism_taxid: 8724
Secretion: Venom

Molecule: Botrocetin
Chain: C
Fragment: Beta Chain
Synonym: Platelet Coagglutinin

Organism_scientific: Bothrops Jararaca
Organism_common: Jararaca
Organism_taxid: 8724
Secretion: Venom

Molecule: Platelet Glycoprotein Ib
Chain: D
Fragment: Alpha Chain
Synonym: Glycoprotein Ibalpha, Gp-Ib Alpha, Gpiba, Gpib- Alpha, Cd42b-Alpha, Cd42b;
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gp1ba
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_plasmid: Pfastbac1
symmetry Space Group: P 41 21 2
R_factor 0.213 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
108.315 108.315 221.967 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.95 Å
related structures by homologous chain: 1GWB, 1U0O, 1UEX
Gene
Ontology
ChainFunctionProcessComponent
C, B


Primary referenceThe snake venom protein botrocetin acts as a biological brace to promote dysfunctional platelet aggregation., Fukuda K, Doggett T, Laurenzi IJ, Liddington RC, Diacovo TG, Nat Struct Mol Biol 2005 Feb;12(2):152-9. Epub 2005 Jan 16. PMID:15665869
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk]
  • Biological Unit Coordinates (1u0n.pdb1.gz) 119 Kb
  • CSU: Contacts of Structural Units for 1U0N
  • Likely Quarternary Molecular Structure file(s) for 1U0N
  • Retrieve 1U0N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1U0N from S2C, [Save to disk]
  • View 1U0N 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 1U0N
  • 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 1U0N, from MSDmotif at EBI
  • Fold representative 1u0n from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1u0n_B] [1u0n_D] [1u0n_C] [1u0n] [1u0n_A]
  • SWISS-PROT database: [P22029] [P22030] [P07359] [P04275]
  • Domain organization of [BOTA_BOTJA] [BOTB_BOTJA] [GP1BA_HUMAN] [VWF_HUMAN] by SWISSPFAM
  • Domains found in 1U0N: [CLECT] [LRR] [LRRCT] [LRRNT] [LRR_TYP] [VWA ] by SMART
  • Alignments of the sequence of 1U0N with the sequences similar proteins can be viewed for 1U0N's classification [BOTA_BOTJA] [BOTB_BOTJA] [GP1BA_HUMAN] [VWF_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 [BOTA_BOTJA] [BOTB_BOTJA] [GP1BA_HUMAN] [VWF_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1U0N
  • Community annotation for 1U0N 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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