6GK3 Protein Fibril date May 18, 2018
title Two Protofilament Beta-2-Microglobulin Amyloid Fibril
authors M.G.Iadanza, N.A.Ranson
compound source
Molecule: Beta-2-Microglobulin
Chain: A, B, C, D, E, F, G, H
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: B2m, Cdabp0092, Hdcma22p
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.90 Å
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Primary referenceThe structure of a beta2-microglobulin fibril suggests a molecular basis for its amyloid polymorphism., Iadanza MG, Silvers R, Boardman J, Smith HI, Karamanos TK, Debelouchina GT, Su Y, Griffin RG, Ranson NA, Radford SE, Nat Commun. 2018 Oct 30;9(1):4517. doi: 10.1038/s41467-018-06761-6. PMID:30375379
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (6gk3.pdb1.gz) 76 Kb
  • CSU: Contacts of Structural Units for 6GK3
  • Retrieve 6GK3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6GK3 from S2C, [Save to disk]
    • View 6GK3 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 6GK3
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6gk3_A] [6gk3_C] [6gk3_H] [6gk3_D] [6gk3_F] [6gk3_B] [6gk3_E] [6gk3_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6GK3
  • Community annotation for 6GK3 at PDBWiki (http://pdbwiki.org)

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