2EBI Dna Binding Protein date Feb 08, 2007
title Arabidopsis Gt-1 Dna-Binding Domain With T133d Phosphomimeti
authors T.Nagata, K.Noto, E.Niyada, Y.Ikeda, Y.Yamamoto, S.Uesugi, J.Murat K.Hiratsuka, M.Katahira
compound source
Molecule: Dna Binding Protein Gt-1
Chain: A
Fragment: Dna-Binding Domain, Residues 81-166
Synonym: Hypothetical Protein At1g13450
Engineered: Yes
Mutation: Yes
 Organism_scientific: Arabidopsis Thaliana
Organism_common: Thale Cress
Organism_taxid: 3702
Gene: T6j4.18
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21-Codonplus(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet3a
methodSolution NMR
Primary referenceSolution structures of the trihelix DNA-binding domains of the wild-type and a phosphomimetic mutant of Arabidopsis GT-1: mechanism for an increase in DNA-binding affinity through phosphorylation., Nagata T, Niyada E, Fujimoto N, Nagasaki Y, Noto K, Miyanoiri Y, Murata J, Hiratsuka K, Katahira M, Proteins. 2010 Nov 1;78(14):3033-47. PMID:20717979
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (485 Kb) [Save to disk]
  • Biological Unit Coordinates (2ebi.pdb1.gz) 24 Kb
  • CSU: Contacts of Structural Units for 2EBI
  • Retrieve 2EBI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2EBI from S2C, [Save to disk]
    • View 2EBI 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 2EBI
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2EBI, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ebi] [2ebi_A]
  • SWISS-PROT database: [Q9FX53]
  • Domain organization of [Q9FX53_ARATH] by SWISSPFAM
  • Domain found in 2EBI: [SANT ] by SMART
    • Other resources with information on 2EBI
  • Community annotation for 2EBI at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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