2KRI Protein Binding Endocytosis date Dec 18, 2009
title Structure Of A Complex Between Domain V Of Beta2-Glycoprotei The Fourth Ligand-Binding Module From Ldlr Determined With
authors N.Beglova
compound source
Molecule: Beta-2-Glycoprotein 1
Chain: A
Fragment: Sushi-Like Domain
Synonym: Beta-2-Glycoprotein I, Beta(2)Gpi, B2gpi, Apolipop Apo-H, Activated Protein C-Binding Protein, Apc Inhibitor, Anticardiolipin Cofactor;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Apoh, B2g1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector: Pet 15

Molecule: Low-Density Lipoprotein Receptor
Chain: B
Fragment: Ldl-Receptor Class A 4 Domain
Synonym: Ldl Receptor
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ldlr
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector: Pmm
methodSolution NMR
ligand CA enzyme
Primary referenceMode of interaction between beta2GPI and lipoprotein receptors suggests mutually exclusive binding of beta2GPI to the receptors and anionic phospholipids., Lee CJ, De Biasio A, Beglova N, Structure. 2010 Mar 10;18(3):366-76. PMID:20223219
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (23 Kb) [Save to disk]
  • Biological Unit Coordinates (2kri.pdb1.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 2KRI
  • CSU: Contacts of Structural Units for 2KRI
  • Original NMR restraints for 2KRI from PDB
  • Retrieve 2KRI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2KRI from S2C, [Save to disk]
  • View 2KRI 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 2KRI
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2KRI, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2kri] [2kri_A] [2kri_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 2KRI: [LDLa ] by SMART
  • Other resources with information on 2KRI
  • Community annotation for 2KRI 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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