6J5B Transcription Dna date Jan 10, 2019
title Structural Basis For The Target Dna Recognition And Binding Domain Of Phosphate Starvation Response Regulator 1
authors M.Q.Jiang, L.F.Sun, M.N.Isupov, Y.K.Wu
compound source
Molecule: Protein Phosphate Starvation Response 1
Chain: A, C, D, F, H, J
Synonym: Atphr1
Engineered: Yes
Organism_scientific: Arabidopsis Thaliana
Organism_common: Mouse-Ear Cress
Organism_taxid: 3702
Gene: Phr1, At4g28610, T5f17.60
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet32a

Molecule: Dna (5'- D(Gpgptpapcpapgptpaptpaptpapcpcpaptpapap
Chain: B, E, I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'- D(Tptptpaptpgpgptpaptpaptpapcptpgptpapcp
Chain: G, K, U
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 1
R_factor 0.218 R_Free 0.251
length a length b length c angle alpha angle beta angle gamma
53.581 53.581 98.884 91.47 91.47 94.79
method X-Ray Diffractionresolution 2.70 Å
Primary referenceStructural Basis for the Target DNA Recognition and Binding by the MYB Domain of Phosphate Starvation Response 1., Jiang M, Sun L, Isupov MN, Littlechild JA, Wu X, Wang Q, Wang Q, Yang W, Wu Y, FEBS J. 2019 Apr 11. doi: 10.1111/febs.14846. PMID:30974511
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (111 Kb) [Save to disk]
  • Biological Unit Coordinates (6j5b.pdb1.gz) 36 Kb
  • Biological Unit Coordinates (6j5b.pdb2.gz) 36 Kb
  • Biological Unit Coordinates (6j5b.pdb3.gz) 36 Kb
  • CSU: Contacts of Structural Units for 6J5B
  • Structure Factors (1178 Kb)
  • Retrieve 6J5B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6J5B from S2C, [Save to disk]
  • View 6J5B 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 6J5B
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6j5b from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6j5b_D] [6j5b_E] [6j5b_A] [6j5b_K] [6j5b_U] [6j5b_H] [6j5b_B] [6j5b_F] [6j5b_J] [6j5b_I] [6j5b_G] [6j5b_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6J5B
  • Community annotation for 6J5B at PDBWiki (http://pdbwiki.org)

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