1HJ7

NMR study of a pair of LDL receptor Ca2+ binding epidermal growth factor-like domains, 20 structures


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 280 
  • Conformers Submitted: 20 
  • Selection Criteria: NO NOE, 3JHN OR 1JHN CONSTRAINTS VIOLATED BY > 0.5 A, 5 DEGREES OR 2 HERTZ 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Solution Structure of the Ldl Receptor Egf-Ab Pair: A Paradigm for the Assembly of Tandem Calcium Binding Egf Domains

Saha, S.Boyd, J.Werner, J.M.Knott, V.Handford, P.A.Campbell, I.D.Downing, A.K.

(2001) Structure 9: 451

  • DOI: https://doi.org/10.1016/s0969-2126(01)00606-2
  • Primary Citation of Related Structures:  
    1HJ7

  • PubMed Abstract: 

    From the observed structure and sequence of a pair of calcium binding (cb) epidermal growth factor-like (EGF) domains from human fibrillin-1, we proposed that many tandem cbEGF domains adopt a conserved relative conformation. The low-density lipoprotein receptor (LDLR), which is functionally unrelated to fibrillin-1, contains a single pair of EGF domains that was chosen for study in the validation of this hypothesis. The LDLR is the protein that is defective in familial hypercholesterolaemia, a common genetic disorder that predisposes individuals to cardiovascular complications and premature death. Here, we present the solution structure of the first two EGF domains from the LDL receptor, determined using conventional NMR restraints and residual dipolar couplings. The cbEGF domains have an elongated, rod-like arrangement, as predicted. The new structure allows a detailed assessment of the consequences of mutations associated with familial hypercholesterolaemia to be made. The validation of the conserved arrangement of EGF domains in functionally distinct proteins has important implications for structural genomics, since multiple tandem cbEGF pairs have been identified in many essential proteins that are implicated in human disease. Our results provide the means to use homology modeling to probe structure-function relationships in this diverse family of proteins and may hold the potential for the design of novel diagnostics and therapies in the future.


  • Organizational Affiliation

    Division of Structural Biology, Department of Biochemistry, University of Oxford, South Parks Road, OX1 3QU, Oxford, United Kingdom.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
LDL RECEPTOR80Homo sapiensMutation(s): 0 
Gene Names: LDLR
UniProt & NIH Common Fund Data Resources
Find proteins for P01130 (Homo sapiens)
Explore P01130 
Go to UniProtKB:  P01130
PHAROS:  P01130
GTEx:  ENSG00000130164 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01130
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download Ideal Coordinates CCD File 
B [auth A],
C [auth A]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 280 
  • Conformers Submitted: 20 
  • Selection Criteria: NO NOE, 3JHN OR 1JHN CONSTRAINTS VIOLATED BY > 0.5 A, 5 DEGREES OR 2 HERTZ 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-07-11
    Type: Initial release
  • Version 1.1: 2014-02-19
    Changes: Database references, Derived calculations, Non-polymer description, Version format compliance
  • Version 1.2: 2018-02-14
    Changes: Data collection