5CIV Unknown Function date Jul 13, 2015
title Sibling Lethal Factor Precursor - Dfsb
authors J.D.Taylor, S.J.Matthews
compound source
Molecule: Sibling Bacteriocin
Chain: A
Fragment: Residues 13-184
Engineered: Yes
Organism_scientific: Paenibacillus Dendritiformis
Organism_taxid: 130049
Gene: Dfsb
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_plasmid: Pqe-30
symmetry Space Group: P 21 21 21
R_factor 0.181 R_Free 0.199
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.590 47.680 72.300 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.38 Å
ligand MSE enzyme
Primary referenceStructures of the DfsB Protein Family Suggest a Cationic, Helical Sibling Lethal Factor Peptide., Taylor JD, Taylor G, Hare SA, Matthews SJ, J Mol Biol. 2016 Jan 21. pii: S0022-2836(16)00032-2. doi:, 10.1016/j.jmb.2016.01.013. PMID:26804569
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (38 Kb) [Save to disk]
  • Biological Unit Coordinates (5civ.pdb1.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 5CIV
  • CSU: Contacts of Structural Units for 5CIV
  • Structure Factors (840 Kb)
  • Retrieve 5CIV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CIV from S2C, [Save to disk]
  • Re-refined 5civ structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5CIV 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 5CIV
  • 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 5civ from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5civ_A] [5civ]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5CIV
  • Community annotation for 5CIV at PDBWiki (http://pdbwiki.org)

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