6K2J Dna Binding Protein Dna date May 14, 2019
title Crystal Structure Of The Dna Complex Of C. Crescentus Gapr
authors B.Xia, Q.Huang
compound source
Molecule: Upf0335 Protein Ccna_03428
Chain: A, B, C, D
Synonym: Gapr (Growth-Associated At-Binding Protein Involv Regulation);
Engineered: Yes
 Organism_scientific: Caulobacter Vibrioides (Strain Na1000
Organism_taxid: 565050
Strain: Na1000 Cb15n
Variant: Na1000
Gene: Ccna_03428
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: 10a Dna_front
Chain: E
Engineered: Yes
Synthetic: Yes
Organism_scientific: Caulobacter Crescentus Na1000
Organism_taxid: 565050

Molecule: 10a Dna_reverse
Chain: F
Engineered: Yes
Synthetic: Yes
Organism_scientific: Caulobacter Crescentus Na1000
Organism_taxid: 565050
symmetry Space Group: P 65
R_factor 0.221 R_Free 0.268
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.310 65.310 274.240 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
Primary referenceGapR binds DNA through dynamic opening of its tetrameric interface., Huang Q, Duan B, Dong X, Fan S, Xia B, Nucleic Acids Res. 2020 Aug 5. pii: 5881276. doi: 10.1093/nar/gkaa644. PMID:32756896
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (146 Kb) [Save to disk]
  • Biological Unit Coordinates (6k2j.pdb1.gz) 140 Kb
  • CSU: Contacts of Structural Units for 6K2J
  • Structure Factors (585 Kb)
  • Retrieve 6K2J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6K2J from S2C, [Save to disk]
    • View 6K2J 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 6K2J
  • 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: [6k2j_C] [6k2j_B] [6k2j_F] [6k2j_A] [6k2j_E] [6k2j_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6K2J
  • Community annotation for 6K2J at PDBWiki (http://pdbwiki.org)

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