1F5Y

NMR STRUCTURE OF A CONCATEMER OF THE FIRST AND SECOND LIGAND-BINDING MODULES OF THE HUMAN LDL RECEPTOR

Summary for 1F5Y

• Entry DOI: 10.2210/pdb1f5y/pdb
• Related: 1ajj 1ldl 1ldr
• Descriptor: LOW-DENSITY LIPOPROTEIN RECEPTOR, CALCIUM ION (2 entities in total)
• Functional Keywords: beta hairpin, 3-10 helix, calcium binding, lipid binding protein
• Biological source: Homo sapiens (human)
• Cellular location: Cell membrane; Single-pass type I membrane protein: P01130
• Total number of polymer chains: 1
• Total formula weight: 9339.15

Authors

Kurniawan, N.D.,Atkins, A.R.,Brereton, I.M.,Kroon, P.A.,Smith, R. (deposition date: 2000-06-18, release date: 2000-08-30, Last modification date: 2024-10-09)

Primary citation

Kurniawan, N.D.,Atkins, A.R.,Bieri, S.,Brown, C.J.,Brereton, I.M.,Kroon, P.A.,Smith, R.
NMR structure of a concatemer of the first and second ligand-binding modules of the human low-density lipoprotein receptor.
Protein Sci., 9:1282-1293, 2000

PubMed Abstract: The ligand-binding domain of the human low-density lipoprotein receptor consists of seven modules, each of 40-45 residues. In the presence of calcium, these modules adopt a common polypeptide fold with three conserved disulfide bonds. A concatemer of the first and second modules (LB(1-2)) folds efficiently in the presence of calcium ions, forming the same disulfide connectivities as in the isolated modules. The three-dimensional structure of LB(1-2) has now been solved using two-dimensional 1H NMR spectroscopy and restrained molecular dynamics calculations. No intermodule nuclear Overhauser effects were observed, indicating the absence of persistent interaction between them. The near random-coil NH and H alpha chemical shifts and the low phi and psi angle order parameters of the four-residue linker suggest that it has considerable flexibility. The family of LB(1-2) structures superimposed well over LB1 or LB2, but not over both modules simultaneously. LB1 and LB2 have a similar pattern of calcium ligands, but the orientations of the indole rings of the tryptophan residues W23 and W66 differ, with the latter limiting solvent access to the calcium ion. From these studies, it appears that although most of the modules in the ligand-binding region of the receptor are joined by short segments, these linkers may impart considerable flexibility on this region.

PubMed: 10933493

Experimental method

SOLUTION NMR