1L1M Transcription Regulator Dna date Feb 19, 2002
title Solution Structure Of A Dimer Of Lac Repressor Dna-Binding D Complexed To Its Natural Operator O1
authors C.G.Kalodimos, A.M.J.J.Bonvin, R.K.Salinas, R.Wechselberger, R.B R.Kaptein
compound source
Molecule: 5'-D(Gpapaptptpgptpgpapgpcpgpgpapt Apaptptpt)-3';
Chain: C
Engineered: Yes
Other_details: Lac Operator O1; This Is The Wild-Type Opera Sequence Of The Lac Operon In E. Coli.;
 Synthetic: Yes

Molecule: 5'-D(Apapaptptpgptptpaptpcpcpgpcpt Apaptptpc)-3';
Chain: D
Engineered: Yes
Other_details: Lac Operator O1; This Is The Wild-Type Opera Sequence Of The Lac Operon In E. Coli.;
Synthetic: Yes

Molecule: Lactose Operon Repressor
Chain: A, B
Fragment: N-Terminal Dna-Binding Domain, Residues 1-62
Engineered: Yes
Mutation: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Gene: Laci
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh9
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgp1-2,Pet-Hp62
methodSolution NMR
related structures by homologous chain: 1LCC
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referencePlasticity in protein-DNA recognition: lac repressor interacts with its natural operator 01 through alternative conformations of its DNA-binding domain., Kalodimos CG, Bonvin AM, Salinas RK, Wechselberger R, Boelens R, Kaptein R, EMBO J 2002 Jun 17;21(12):2866-76. PMID:12065400
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1256 Kb) [Save to disk]
  • Biological Unit Coordinates (1l1m.pdb1.gz) 62 Kb
  • CSU: Contacts of Structural Units for 1L1M
  • Original NMR restraints for 1L1M from PDB
  • Experimental data, such as chemical shifts, at BioMagResBank (BMRB)
  • NMR Restraints Grid from BioMagResBank (BMRB)
  • Retrieve 1L1M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1L1M from S2C, [Save to disk]
    • View 1L1M 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 1L1M
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1L1M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1l1ma_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1l1mb_, region B [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1l1m] [1l1m_A] [1l1m_B] [1l1m_C] [1l1m_D]
  • SWISS-PROT database: [P03023]
  • Domain organization of [LACI_ECOLI] by SWISSPFAM
  • Domain found in 1L1M: [HTH_LACI ] by SMART
    • Other resources with information on 1L1M
  • Community annotation for 1L1M at PDBWiki (http://pdbwiki.org)
  • NMR Ensemble (OLDERADO: core, domain and representative structure database)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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