3ZPL Transcription Dna date Feb 28, 2013
title Crystal Structure Of Sco3205, A Marr Family Transcriptional From Streptomyces Coelicolor, In Complex With Dna
authors C.E.M.Stevenson, A.Assaad, D.M.Lawson
compound source
Molecule: Putative Marr-Family Transcriptional Repressor
Chain: A, B, E, F
Synonym: Sco3205
Engineered: Yes
Other_details: Synthetic Gene With Optimised Codon Usage Fo Expression. Includes N-Terminal His-Tag Of Sequence Mhhhhhh Appended To Wild-Type Sequence. Sequence Numbering Is Relat Wild-Type Sequence.;
Organism_scientific: Streptomyces Coelicolor
Organism_taxid: 1902
Strain: M145
Atcc: Baa-471
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21 (De3)
Expression_system_variant: Plyss
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet21a
Expression_system_plasmid: Pet21a-Sco3205

Molecule: 5'-D(Apapapgpaptptpgpapgpaptpcptp Cpapaptpcptptpdt)-3';
Chain: C, D, G, H
Synonym: Symmetrised Sco3204 Operator
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 65
R_factor 0.176 R_Free 0.196
crystal
cell
length a length b length c angle alpha angle beta angle gamma
70.800 70.800 557.480 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.80 Å
ligand PO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B


Primary referenceInvestigation of DNA sequence recognition by a streptomycete MarR family transcriptional regulator through surface plasmon resonance and X-ray crystallography., Stevenson CE, Assaad A, Chandra G, Le TB, Greive SJ, Bibb MJ, Lawson DM, Nucleic Acids Res. 2013 Jun 7. PMID:23748564
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (293 Kb) [Save to disk]
  • Biological Unit Coordinates (3zpl.pdb1.gz) 141 Kb
  • Biological Unit Coordinates (3zpl.pdb2.gz) 141 Kb
  • LPC: Ligand-Protein Contacts for 3ZPL
  • CSU: Contacts of Structural Units for 3ZPL
  • Structure Factors (1439 Kb)
  • Retrieve 3ZPL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ZPL from S2C, [Save to disk]
  • Re-refined 3zpl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ZPL 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 3ZPL
  • 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
  • 3D motif for 3ZPL, from MSDmotif at EBI
  • Fold representative 3zpl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3zpl_G] [3zpl_A] [3zpl_C] [3zpl] [3zpl_B] [3zpl_F] [3zpl_D] [3zpl_E] [3zpl_H]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3ZPL: [HTH_MARR ] by SMART
  • Other resources with information on 3ZPL
  • Community annotation for 3ZPL at PDBWiki (http://pdbwiki.org)

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