1M10 Blood Clotting date Jun 16, 2002
title Crystal Structure Of The Complex Of Glycoprotein Ib Alpha And The Von Willebrand Factor A1 Domain
authors E.G.Huizinga, S.Tsuji, R.A.P.Romijn, M.E.Schiphorst, P.G.De Groot, J.J.Sixma, P.Gros
compound source
Molecule: Von Willebrand Factor
Chain: A
Fragment: A1 Domain
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Vwf
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
Expression_system_strain: Gs115
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ppic9

Molecule: Glycoprotein Ib Alpha
Chain: B
Fragment: Von Willebrand Factor Binding Domain
Synonym: Platelet Glycoprotein Ib Alpha Chain
Engineered: Yes
Mutation: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gp1ba
Expression_system: Mesocricetus Auratus
Expression_system_common: Golden Hamster
Expression_system_taxid: 10036
Expression_system_tissue: Kidney
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcdna3.1
symmetry Space Group: P 61
R_factor 0.234 R_Free 0.296
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.840 89.840 124.630 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.10 Å
Primary referenceStructures of glycoprotein Ibalpha and its complex with von Willebrand factor A1 domain., Huizinga EG, Tsuji S, Romijn RA, Schiphorst ME, de Groot PG, Sixma JJ, Gros P, Science 2002 Aug 16;297(5584):1176-9. PMID:12183630
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (1m10.pdb1.gz) 75 Kb
  • CSU: Contacts of Structural Units for 1M10
  • Likely Quarternary Molecular Structure file(s) for 1M10
  • Structure Factors (105 Kb)
  • Retrieve 1M10 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1M10 from S2C, [Save to disk]
  • Re-refined 1m10 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1M10 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 1M10
  • 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 1M10, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1m10a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1m10b_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1m10 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: [1m10_A] [1m10] [1m10_B]
  • SWISS-PROT database: [P07359] [P04275]
  • Domain organization of [GP1BA_HUMAN] [VWF_HUMAN] by SWISSPFAM
  • Domains found in 1M10: [LRR] [LRRCT] [LRRNT] [LRR_TYP] [VWA ] by SMART
  • Other resources with information on 1M10
  • Community annotation for 1M10 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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