2YPW Membrane Protein date Nov 02, 2012
title Atomic Model For The N-Terminus Of Trao Fitted In The Full-L Structure Of The Bacterial Pkm101 Type Iv Secretion System Complex
authors A.Rivera-Calzada, R.Fronzes, C.G.Savva, V.Chandran, P.W.Lian, T.L E.Pardon, J.Steyaert, H.Remaut, G.Waksman, E.V.Orlova
compound source
Molecule: Trao
Chain: A, B, C, D, E, F, G, H, I, J, K, L, M, N
Fragment: N-Terminal Domain, Residues 24-135
Engineered: Yes
 Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pask-Iba3c
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 12.40 Å
Primary referenceStructure of a bacterial type IV secretion core complex at subnanometre resolution., Rivera-Calzada A, Fronzes R, Savva CG, Chandran V, Lian PW, Laeremans T, Pardon E, Steyaert J, Remaut H, Waksman G, Orlova EV, EMBO J. 2013 Mar 19. doi: 10.1038/emboj.2013.58. PMID:23511972
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (215 Kb) [Save to disk]
  • Biological Unit Coordinates (2ypw.pdb1.gz) 211 Kb
  • CSU: Contacts of Structural Units for 2YPW
  • Retrieve 2YPW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YPW from S2C, [Save to disk]
    • View 2YPW 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 2YPW
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2YPW, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ypw_I] [2ypw_G] [2ypw_D] [2ypw_F] [2ypw_L] [2ypw_E] [2ypw_B] [2ypw_J] [2ypw_M] [2ypw_C] [2ypw_K] [2ypw_N] [2ypw_A] [2ypw_H] [2ypw]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 2YPW
  • Community annotation for 2YPW at PDBWiki (http://pdbwiki.org)

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