4P4W

Dodecamer formed by a macrocyclic peptide derived from beta-2-microglobulin (63-69) - (ORN)YLL(PHI)YTE(ORN)KVA(MVA)AVK

Summary for 4P4W

• Entry DOI: 10.2210/pdb4p4w/pdb
• Related: 4P4V 4P4X 4P4Y 4P4Z
• Descriptor: CYCLIC HEXADECAPEPTIDE (ORN)YLL(PHI)YTE(ORN)KVA(MVA)AVK, SULFATE ION, CHLORIDE ION, ... (5 entities in total)
• Functional Keywords: dodecamer, amyloid, beta-2-microglobulin, macrocycle, de novo protein
• Biological source: synthetic construct
• Total number of polymer chains: 12
• Total formula weight: 25174.53

Authors

Spencer, R.K.,Kreutzer, A.,Nowick, J.S. (deposition date: 2014-03-13, release date: 2015-05-06, Last modification date: 2023-12-27)

Primary citation

Spencer, R.K.,Kreutzer, A.G.,Salveson, P.J.,Li, H.,Nowick, J.S.
X-ray Crystallographic Structures of Oligomers of Peptides Derived from beta 2-Microglobulin.
J.Am.Chem.Soc., 137:6304-6311, 2015

PubMed Abstract: Amyloid diseases such as Alzheimer's disease, Parkinson's disease, and type II diabetes share common features of toxic soluble protein oligomers. There are no structures at atomic resolution of oligomers formed by full-length amyloidogenic peptides and proteins, and only a few structures of oligomers formed by peptide fragments. The paucity of structural information provides a fundamental roadblock to understanding the pathology of amyloid diseases and developing preventions or therapies. Here, we present the X-ray crystallographic structures of three families of oligomers formed by macrocyclic peptides containing a heptapeptide sequence derived from the amyloidogenic E chain of β2-microglobulin (β2m). Each macrocyclic peptide contains the heptapeptide sequence β2m63-69 and a second heptapeptide sequence containing an N-methyl amino acid. These peptides form β-sheets that further associate into hexamers, octamers, and dodecamers: the hexamers are trimers of dimers; the octamers are tetramers of dimers; and the dodecamers contain two trimer subunits surrounded by three pairs of β-sheets. These structures illustrate a common theme in which dimer and trimer subunits further associate to form a hydrophobic core. The seven X-ray crystallographic structures not only illustrate a range of oligomers that a single amyloidogenic peptide sequence can form, but also how mutation can alter the size and topology of the oligomers. A cocrystallization experiment in which a dodecamer-forming peptide recruits a hexamer-forming peptide to form mixed dodecamers demonstrates that one species can dictate the oligomerization of another. These findings should also be relevant to the formation of oligomers of full-length peptides and proteins in amyloid diseases.

PubMed: 25915729
DOI: 10.1021/jacs.5b01673

Experimental method

X-RAY DIFFRACTION (1.498 Å)