5CH4 Protein Transport date Jul 10, 2015
title Peptide-Bound State Of Thermus Thermophilus Secyeg
authors Y.Tanaka, Y.Sugano, M.Takemoto, T.Kusakizako, K.Kumazaki, R.Ishit O.Nureki, T.Tsukazaki
compound source
Molecule: Protein Translocase Subunit Secy
Chain: Y
Engineered: Yes
Mutation: Yes
 Organism_scientific: Thermus Thermophilus (Strain Hb8 Atc Dsm 579);
Organism_taxid: 300852
Strain: Hb8 Atcc 27634 Dsm 579
Gene: Secy, Ttha1672
Expression_system: Escherichia Coli Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Protein Translocase Subunit Sece
Chain: E
Engineered: Yes
Organism_scientific: Thermus Thermophilus (Strain Hb8 Atc Dsm 579);
Organism_taxid: 300852
Strain: Hb8 Atcc 27634 Dsm 579
Gene: Sece, Ttha0249
Expression_system: Escherichia Coli Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Putative Preprotein Translocase, Secg Subunit
Chain: G
Fragment: Unp Residues 43-117
Engineered: Yes
Organism_scientific: Thermus Thermophilus (Strain Hb8 Atc Dsm 579);
Organism_taxid: 300852
Strain: Hb8 Atcc 27634 Dsm 579
Gene: Ttha1784
Expression_system: Escherichia Coli Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768
symmetry Space Group: C 2 2 21
R_factor 0.254 R_Free 0.279
crystal
cell
length a length b length c angle alpha angle beta angle gamma
97.829 138.007 115.974 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.64 Å
Gene
Ontology
ChainFunctionProcessComponent
E


G


Y


Primary referenceCrystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State., Tanaka Y, Sugano Y, Takemoto M, Mori T, Furukawa A, Kusakizako T, Kumazaki K, Kashima A, Ishitani R, Sugita Y, Nureki O, Tsukazaki T, Cell Rep. 2015 Nov 24;13(8):1561-8. doi: 10.1016/j.celrep.2015.10.025. Epub 2015 , Nov 12. PMID:26586438
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (90 Kb) [Save to disk]
  • Biological Unit Coordinates (5ch4.pdb1.gz) 85 Kb
  • CSU: Contacts of Structural Units for 5CH4
  • Structure Factors (75 Kb)
  • Retrieve 5CH4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CH4 from S2C, [Save to disk]
  • Re-refined 5ch4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5CH4 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 5CH4
  • 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: [5ch4_Y] [5ch4_E] [5ch4] [5ch4_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5CH4
  • Community annotation for 5CH4 at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science