6IR8 Transcription Dna date Nov 12, 2018
title Rice Wrkydna Complex
authors J.Liu, X.Cheng, D.Wang
compound source
Molecule: Oswrky45
Chain: A
Engineered: Yes
 Organism_scientific: Oryza Sativa Japonica Group
Organism_common: Rice
Organism_taxid: 39947
Gene: Osj_18062
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Pgpaptpaptptptpgpapcpcpgpg
Chain: B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Ptpcpcpgpgptpcpapapaptpapt
Chain: C
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: C 2 2 21
R_factor 0.193 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.225 87.831 99.691 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis of dimerization and dual W-box DNA recognition by rice WRKY domain., Cheng X, Zhao Y, Jiang Q, Yang J, Zhao W, Taylor IA, Peng YL, Wang D, Liu J, Nucleic Acids Res. 2019 Feb 20. pii: 5345154. doi: 10.1093/nar/gkz113. PMID:30783673
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk]
  • Biological Unit Coordinates (6ir8.pdb1.gz) 49 Kb
  • LPC: Ligand-Protein Contacts for 6IR8
  • CSU: Contacts of Structural Units for 6IR8
  • Structure Factors (270 Kb)
  • Retrieve 6IR8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6IR8 from S2C, [Save to disk]
    • View 6IR8 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 6IR8
  • 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: [6ir8_C] [6ir8_A] [6ir8_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6IR8
  • Community annotation for 6IR8 at PDBWiki (http://pdbwiki.org)

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