5CYB Transport Protein date Jul 30, 2015
title Structure Of A Lipocalin Lipoprotein Affecting Virulence In Streptococcus Pneumoniae
authors C.Carrasco-Lopez, M.R.Abdullah, S.Hammerschmidt, J.A.Hermoso
compound source
Molecule: Lipoprotein
Chain: A
Engineered: Yes
Organism_scientific: Streptococcus Pneumoniae
Organism_taxid: 1313
Gene: Ers019416_00104, Ers019595_00220, Ers021447_05272, Ers022232_05596, Ers409134_00058, Ers409372_00175, Ers51522
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: P 65 2 2
R_factor 0.194 R_Free 0.217
length a length b length c angle alpha angle beta angle gamma
107.485 107.485 63.870 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand ACT, CA, GOL enzyme
Gene ERS019416 ; ERS019595 ; ERS021447 ; ERS022232 ; ERS409134 ; ERS409372 ; ERS515225
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk]
  • Biological Unit Coordinates (5cyb.pdb1.gz) 90 Kb
  • LPC: Ligand-Protein Contacts for 5CYB
  • CSU: Contacts of Structural Units for 5CYB
  • Structure Factors (137 Kb)
  • Retrieve 5CYB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CYB from S2C, [Save to disk]
  • Re-refined 5cyb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5CYB 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 5CYB
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5cyb from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5cyb_A] [5cyb]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5CYB
  • Community annotation for 5CYB at PDBWiki (http://pdbwiki.org)

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