1QUB Membrane Adhesion date Jul 01, 1999
title Crystal Structure Of The Glycosylated Five-Domain Human Beta Glycoprotein I Purified From Blood Plasma
authors B.Bouma, P.G.De Groot, J.M.H.Van Den Elsen, R.B.G.Ravelli, A.Sch M.J.A.Simmelink, R.H.W.M.Derksen, J.Kroon, P.Gros
compound source
Molecule: Protein (Human Beta2-Glycoprotein I)
Chain: A
Fragment: Beta2-Glycoprotein I
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organelle: Blood Plasma
symmetry Space Group: C 2 2 21
R_factor 0.249 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
161.170 166.490 114.510 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand MAN, NAG enzyme
related structures by homologous chain: 1C1Z
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceAdhesion mechanism of human beta(2)-glycoprotein I to phospholipids based on its crystal structure., Bouma B, de Groot PG, van den Elsen JM, Ravelli RB, Schouten A, Simmelink MJ, Derksen RH, Kroon J, Gros P, EMBO J 1999 Oct 1;18(19):5166-74. PMID:10508150
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (58 Kb) [Save to disk]
  • Biological Unit Coordinates (1qub.pdb1.gz) 53 Kb
  • LPC: Ligand-Protein Contacts for 1QUB
  • CSU: Contacts of Structural Units for 1QUB
  • Likely Quarternary Molecular Structure file(s) for 1QUB
  • Structure Factors (307 Kb)
  • Retrieve 1QUB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QUB from S2C, [Save to disk]
  • Re-refined 1qub structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1QUB 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 1QUB
  • 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
  • 3D motif for 1QUB, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1quba1, region A:1-62 [Jmol] [rasmolscript] [script source]
        - Domain d1quba3, region A:121-183 [Jmol] [rasmolscript] [script source]
        - Domain d1quba4, region A:184-243 [Jmol] [rasmolscript] [script source]
        - Domain d1quba5, region A:244-326 [Jmol] [rasmolscript] [script source]
        - Domain d1quba2, region A:63-120 [Jmol] [rasmolscript] [script source]
  • 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: [1qub] [1qub_A]
  • SWISS-PROT database: [P02749]
  • Domain organization of [APOH_HUMAN] by SWISSPFAM
  • Domain found in 1QUB: [CCP ] by SMART
    • Other resources with information on 1QUB
  • Community annotation for 1QUB 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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