3IYF Chaperone date Oct 23, 2009
title Atomic Model Of The Lidless Mm-Cpn In The Open State
authors J.Zhang, M.L.Baker, G.Schroeder, N.R.Douglas, S.Reissmann, J.Jaka M.Dougherty, C.J.Fu, M.Levitt, S.J.Ludtke, J.Frydman, W.Chiu
compound source
Molecule: Chaperonin
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P
Synonym: Chaperonin Groel (Thermosome, Hsp60 Family)
Engineered: Yes
 Organism_scientific: Methanococcus Maripaludis
Organism_taxid: 39152
Gene: Hsp60, Mmp1515
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 8.00 Å
Gene
Ontology
ChainFunctionProcessComponent
F, N, K, E, M, C, L, A, J, O, P, B, H, D, I, G


Primary referenceMechanism of folding chamber closure in a group II chaperonin., Zhang J, Baker ML, Schroder GF, Douglas NR, Reissmann S, Jakana J, Dougherty M, Fu CJ, Levitt M, Ludtke SJ, Frydman J, Chiu W, Nature. 2010 Jan 21;463(7279):379-83. PMID:20090755
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1028 Kb) [Save to disk]
  • Biological Unit Coordinates (3iyf.pdb1.gz) 1021 Kb
  • CSU: Contacts of Structural Units for 3IYF
  • Retrieve 3IYF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IYF from S2C, [Save to disk]
    • View 3IYF 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 3IYF
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3IYF, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3iyf_G] [3iyf_A] [3iyf_L] [3iyf_F] [3iyf_K] [3iyf_P] [3iyf_M] [3iyf_I] [3iyf_N] [3iyf_E] [3iyf_O] [3iyf_H] [3iyf_D] [3iyf] [3iyf_C] [3iyf_J] [3iyf_B]
  • SWISS-PROT database: [Q877G8]
  • Domain organization of [Q877G8_METMP] by SWISSPFAM
    • Other resources with information on 3IYF
  • Community annotation for 3IYF at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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