6DNW Dna Binding Protein date Jun 08, 2018
title Sequence Requirements Of The Listeria Innocua Prophage Attp
authors H.Li, R.Sharp, K.Rutherford, K.Gupta, G.D.Van Duyne
compound source
Molecule: Putative Integrase [Bacteriophage A118]
Chain: A
Engineered: Yes
Mutation: Yes
Other_details: 133-341,417-452 [342-416 Deleted]
 Organism_scientific: Listeria Innocua Serovar 6a (Strain At 680 Clip 11262);
Organism_taxid: 272626
Strain: Atcc Baa-680 Clip 11262
Atcc: Baa-680
Gene: Int
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)Plyss

Molecule: Dna (26-Mer)
Chain: B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Listeria Innocua Clip11262
Organism_taxid: 272626

Molecule: Dna (26-Mer)
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Listeria Innocua Clip11262
Organism_taxid: 272626
symmetry Space Group: P 21 21 21
R_factor 0.219 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.291 57.112 167.883 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.85 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSerine Integrase attP Binding and Specificity., Li H, Sharp R, Rutherford K, Gupta K, Van Duyne GD, J Mol Biol. 2018 Sep 15. pii: S0022-2836(18)30785-X. doi:, 10.1016/j.jmb.2018.09.007. PMID:30227134
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (132 Kb) [Save to disk]
  • Biological Unit Coordinates (6dnw.pdb1.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 6DNW
  • CSU: Contacts of Structural Units for 6DNW
  • Structure Factors (126 Kb)
  • Retrieve 6DNW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6DNW from S2C, [Save to disk]
    • View 6DNW 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 6DNW
  • 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: [6dnw_B] [6dnw_C] [6dnw_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6DNW
  • Community annotation for 6DNW at PDBWiki (http://pdbwiki.org)

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