3ERE Dna Binding Protein Dna date Oct 01, 2008
title Crystal Structure Of The Arginine Repressor Protein From Myc Tuberculosis In Complex With The Dna Operator
authors L.T.Cherney, M.M.Cherney, C.R.Garen, G.J.Lu, M.N.James, Tb Struct Genomics Consortium (Tbsgc)
compound source
Molecule: Arginine Repressor
Chain: D
Engineered: Yes
Organism_scientific: Mycobacterium Tuberculosis
Organism_taxid: 83332
Strain: H37rv
Atcc: 25618
Gene: Argr, Ahrc, Rv1657, Mt1695, Mtcy06h11.22
Expression_system: Escherichia Coli
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgst-1657

Molecule: 5'-D(Dtpdtpdgpdcpdapdtpdapdapdcpdgpdap Cpdapda)-3';
Chain: A
Engineered: Yes
Other_details: Argr Box Dna Segment, Strand A

Synthetic: Yes
Other_details: Dna Strand A

Molecule: 5'-D(Dtpdtpdgpdcpdapdtpdcpdgpdtpdtpdap Cpdapda)-3';
Chain: B
Engineered: Yes
Other_details: Argr Box Dna Segment, Strand B

Synthetic: Yes
Other_details: Dna Strand B
symmetry Space Group: P 63 2 2
R_factor 0.227 R_Free 0.255
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.128 94.128 147.014 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
D


Primary referenceCrystal structure of the arginine repressor protein in complex with the DNA operator from Mycobacterium tuberculosis., Cherney LT, Cherney MM, Garen CR, Lu GJ, James MN, J Mol Biol. 2008 Dec 31;384(5):1330-40. Epub 2008 Oct 15. PMID:18952097
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (43 Kb) [Save to disk]
  • Biological Unit Coordinates (3ere.pdb1.gz) 76 Kb
  • Biological Unit Coordinates (3ere.pdb2.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 3ERE
  • CSU: Contacts of Structural Units for 3ERE
  • Likely Quarternary Molecular Structure file(s) for 3ERE
  • Structure Factors (97 Kb)
  • Retrieve 3ERE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ERE from S2C, [Save to disk]
  • Re-refined 3ere structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ERE 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 3ERE
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3ERE, from MSDmotif at EBI
  • Fold representative 3ere from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ere_B] [3ere_A] [3ere_D] [3ere]
  • SWISS-PROT database: [P0A4Y8]
  • Domain organization of [ARGR_MYCTU] by SWISSPFAM
  • Other resources with information on 3ERE
  • Community annotation for 3ERE 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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