6C4Y De Novo Protein date Jan 13, 2018
title Cross-Alpha Amyloid-Like Structure Alphaamg
authors L.Liu, S.Q.Zhang
compound source
Molecule: Cross-Alpha Amyloid-Like Structure Alphaamg
Chain: A, B, C, D, E, F, G, H, K, I, J, L, M, N, O, P, Q, R
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 43 2 2
R_factor 0.237 R_Free 0.259
crystal
cell
length a length b length c angle alpha angle beta angle gamma
125.241 125.241 119.026 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand ACE, NH2 enzyme
Primary referenceDesigned peptides that assemble into cross-alpha amyloid-like structures., Zhang SQ, Huang H, Yang J, Kratochvil HT, Lolicato M, Liu Y, Shu X, Liu L, DeGrado WF, Nat Chem Biol. 2018 Jul 30. pii: 10.1038/s41589-018-0105-5. doi:, 10.1038/s41589-018-0105-5. PMID:30061717
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (166 Kb) [Save to disk]
  • Biological Unit Coordinates (6c4y.pdb1.gz) 158 Kb
  • LPC: Ligand-Protein Contacts for 6C4Y
  • CSU: Contacts of Structural Units for 6C4Y
  • Structure Factors (480 Kb)
  • Retrieve 6C4Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6C4Y from S2C, [Save to disk]
    • View 6C4Y 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 6C4Y
  • 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: [6c4y_P] [6c4y_M] [6c4y_B] [6c4y_I] [6c4y_O] [6c4y_H] [6c4y_Q] [6c4y_G] [6c4y_F] [6c4y_D] [6c4y_K] [6c4y_C] [6c4y_A] [6c4y_J] [6c4y_E] [6c4y_N] [6c4y_L] [6c4y_R]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6C4Y
  • Community annotation for 6C4Y at PDBWiki (http://pdbwiki.org)

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