Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 8.44 kDa 
• Atom Count: 584 
• Residue Count: 80 
• Unique protein chains: 1

2KNY

Fusion construct of CR17 from LRP-1 and ApoE residues 130-149

• DOI: 10.2210/pdb2KNY/pdb
• BMRB: 16483

• Classification: METAL BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-09-08 Released: 2010-04-14 
• Deposition Author(s): Guttman, M., Komives, E.A.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 328 
• Conformers Submitted: 20 
• Selection Criteria: structures with the least restraint violations 

Literature

Structure of the minimal interface between ApoE and LRP.

Guttman, M., Prieto, J.H., Handel, T.M., Domaille, P.J., Komives, E.A.

(2010) J Mol Biol 398: 306-319

• PubMed: 20303980 
• DOI: 10.1016/j.jmb.2010.03.022
• Primary Citation of Related Structures:  
  2KNY, 2KNX


• PubMed Abstract: 
  

Clusters of complement-type ligand-binding repeats (CRs) in the low-density lipoprotein receptor (LDLR) family are thought to mediate the interactions with their various ligands. Apolipoprotein E (ApoE), a key ligand for cholesterol homeostasis, has been shown to interact with LDLR-related protein 1 (LRP) through these clusters. The segment comprising the receptor-binding portion of ApoE (residues 130-149) has been found to have a weak affinity for isolated CRs. We have fused this region of ApoE to a high-affinity CR from LRP (CR17) for structural elucidation of the complex. The interface reveals a motif that has previously been observed in CR domains with other binding partners, but with several novel features. Comparison to free CR17 reveals that very few structural changes result from this binding event, but significant changes in intrinsic dynamics are observed upon binding. NMR perturbation experiments suggest that this interface may be similar to several other ligand interactions with LDLRs.

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Organizational Affiliation: 

Department of Chemistry and Biochemistry, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0378, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LRP-1, linker, Apo-E	A	80	Homo sapiens	Mutation(s): 0  Gene Names: LRP1, A2MR, APR, APOE
Find proteins for Q07954 (Homo sapiens) Explore Q07954  Go to UniProtKB:  Q07954
NIH Common Fund Data Resources
PHAROS:  Q07954 GTEx:  ENSG00000123384
Find proteins for P02649 (Homo sapiens) Explore P02649  Go to UniProtKB:  P02649
NIH Common Fund Data Resources
PHAROS:  P02649 GTEx:  ENSG00000130203

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 328 
• Conformers Submitted: 20 
• Selection Criteria: structures with the least restraint violations 
• OLDERADO: 2KNY Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-09-08 
• Released Date: 2010-04-14 
Deposition Author(s): Guttman, M., Komives, E.A.

Revision History 

• Version 1.0: 2010-04-14
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2020-02-26
  Changes: Data collection, Database references, Derived calculations, Other