2KDZ Transcription Dna date Jan 21, 2009
title Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein Fro Protozoan Parasite Trichomonas Vaginalis In Complex With Mr Dna
authors Y.C.Lou, S.Y.Wei, M.Rajasekaran, C.C.Chou, H.M.Hsu, J.H.Tai, C.Che
compound source
Molecule: Myb24
Chain: A
Fragment: Myb1 R2r3 Domain
Engineered: Yes
Organism_scientific: Trichomonas Vaginalis
Organism_taxid: 5722
Strain: T1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Vector
Expression_system_vector: Pet29b

Molecule: 5'-D(Apapgpaptpapapcpgpaptpaptptpt
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Tpapapaptpaptpcpgptptpaptpcpt
Chain: C
Engineered: Yes

Synthetic: Yes
methodSolution NMR
Primary referenceNMR structural analysis of DNA recognition by a novel Myb1 DNA-binding domain in the protozoan parasite Trichomonas vaginalis., Lou YC, Wei SY, Rajasekaran M, Chou CC, Hsu HM, Tai JH, Chen C, Nucleic Acids Res. 2009 Feb 26. PMID:19246540
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (483 Kb) [Save to disk]
  • Biological Unit Coordinates (2kdz.pdb1.gz) 47 Kb
  • CSU: Contacts of Structural Units for 2KDZ
  • Original NMR restraints for 2KDZ from PDB
  • Retrieve 2KDZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2KDZ from S2C, [Save to disk]
  • View 2KDZ 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 2KDZ
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2KDZ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2kdz_A] [2kdz] [2kdz_C] [2kdz_B]
  • SWISS-PROT database: [Q58HP2]
  • Domain organization of [Q58HP2_TRIVA] by SWISSPFAM
  • Domain found in 2KDZ: [SANT ] by SMART
  • Other resources with information on 2KDZ
  • Community annotation for 2KDZ 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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