Nature. 1988 Sep 22;335(6188):321-9.

Crystal structure of trp repressor/operator complex at atomic resolution.

Otwinowski Z, Schevitz RW, Zhang RG, Lawson CL, Joachimiak A, Marmorstein RQ, Luisi BF, Sigler PB.

Source

Department of Biochemistry and Molecular Biology, University of Chicago, Illinois 60637.

Erratum in

Nature 1988 Oct 27;335(6193):837.

Abstract

The crystal structure of the trp repressor/operator complex shows an extensive contact surface, including 24 direct and 6 solvent-mediated hydrogen bonds to the phosphate groups of the DNA. There are no direct hydrogen bonds or non-polar contacts to the bases that can explain the repressor's specificity for the operator sequence. Rather, the sequence seems to be recognized indirectly through its effects on the geometry of the phosphate backbone, which in turn permits the formation of a stable interface. Water-mediated polar contacts to the bases also appear to contribute part of the specificity.

PMID:: 3419502; [PubMed - indexed for MEDLINE]

Publication Types, MeSH Terms, Substances

Publication Types

MeSH Terms

Substances

LinkOut - more resources

Full Text Sources

Other Literature Sources

COS Scholar Universe

Molecular Biology Databases

(L)-TRYPTOPHAN - HSDB

Supplemental Content

Save items

Related citations in PubMed

An alkaline phosphatase protection assay to investigate trp repressor/operator interactions. [Biochemistry. 1991]
An alkaline phosphatase protection assay to investigate trp repressor/operator interactions.
Marmorstein RQ, Sprinzl M, Sigler PB. Biochemistry. 1991 Jan 29; 30(4):1141-8.
Probing the physical basis for trp repressor-operator recognition. [J Mol Biol. 1999]
Probing the physical basis for trp repressor-operator recognition.
Grillo AO, Brown MP, Royer CA. J Mol Biol. 1999 Apr 2; 287(3):539-54.
Stereochemical effects of L-tryptophan and its analogues on trp repressor's affinity for operator-DNA. [J Biol Chem. 1989]
Stereochemical effects of L-tryptophan and its analogues on trp repressor's affinity for operator-DNA.
Marmorstein RQ, Sigler PB. J Biol Chem. 1989 Jun 5; 264(16):9149-54.
Review Direct recognition of the trp operator by the trp holorepressor--a review. [Gene. 1994]
Review Direct recognition of the trp operator by the trp holorepressor--a review.
Youderian P, Arvidson DN. Gene. 1994 Dec 2; 150(1):1-8.
Review Protein-DNA recognition. [Annu Rev Biochem. 1984]
Review Protein-DNA recognition.
Pabo CO, Sauer RT. Annu Rev Biochem. 1984; 53:293-321.

See reviews... See all...

Cited by over 100 PubMed Central articles

Indirect read-out of the promoter DNA by RNA polymerase in the closed complex. [Nucleic Acids Res. 2013]
Indirect read-out of the promoter DNA by RNA polymerase in the closed complex.
Debnath S, Roy NS, Bera I, Ghoshal N, Roy S. Nucleic Acids Res. 2013 Jan 7; 41(1):366-77. Epub 2012 Oct 31.
Protein-DNA docking with a coarse-grained force field. [BMC Bioinformatics. 2012]
Protein-DNA docking with a coarse-grained force field.
Setny P, Bahadur RP, Zacharias M. BMC Bioinformatics. 2012 Sep 11; 13:228. Epub 2012 Sep 11.
Functional specificity of a protein-DNA complex mediated by two arginines bound to the minor groove. [J Bacteriol. 2012]
Functional specificity of a protein-DNA complex mediated by two arginines bound to the minor groove.
Mendieta J, Pérez-Lago L, Salas M, Camacho A. J Bacteriol. 2012 Sep; 194(17):4727-35. Epub 2012 Jun 29.

See all...

Structures reported by this article

Crystal Structure Of Trp Repressor Operator Complex At Atomic Resolution

PDB: 1TRO

Source: Escherichia coli str. K-12 substr. W3110, synthetic construct

Method: X-Ray Diffraction

Resolution: 1.9 Å

Related information

Related Citations
Calculated set of PubMed citations closely related to the selected article(s) retrieved using a word weight algorithm. Related articles are displayed in ranked order from most to least relevant, with the “linked from” citation displayed first.
Compound
PubChem chemical compound records that cite the current articles. These references are taken from those provided on submitted PubChem chemical substance records. Multiple substance records may contribute to the PubChem compound record.
Compound (MeSH Keyword)
PubChem chemical compound records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Gene
Gene records that cite the current articles. Citations in Gene are added manually by NCBI or imported from outside public resources.
Nucleotide
Primary database (GenBank) nucleotide records reported in the current articles as well as Reference Sequences (RefSeqs) that include the articles as references.
Nucleotide (Weighted)
Nucleotide records associated with the current articles through the Gene database. These are the related sequences on the Gene record that are added manually by NCBI.
Protein (RefSeq)
NCBI protein Reference Sequences (RefSeqs) that are cited in the current articles, included in the corresponding Gene Reference into Function, or that include the PubMed articles as references.
Protein (Weighted)
Protein records associated with the current articles through related Gene database records. These are the related sequences on the Gene record that are added manually by NCBI.
Substance
PubChem chemical substance records that cite the current articles. These references are taken from those provided on submitted PubChem chemical substance records.
Substance (MeSH Keyword)
PubChem chemical substance (submitted) records that are classified under the same Medical Subject Headings (MeSH) controlled vocabulary as the current articles.
Taxonomy via GenBank
Taxonomy records associated with the current articles through taxonomic information on related molecular database records (Nucleotide, Protein, Gene, SNP, Structure).
Domains
Conserved Domain Database (CDD) records that cite the current articles. Citations are from the CDD source database records (PFAM, SMART).
Protein
Protein translation features of primary database (GenBank) nucleotide records reported in the current articles as well as Reference Sequences (RefSeqs) that include the articles as references.
Structure
Three-dimensional structure records in the NCBI Structure database for data reported in the current articles.
GEO Profiles
Gene Expression Omnibus (GEO) Profiles of molecular abundance data. The current articles are references on the Gene record associated with the GEO profile.
Cited in PMC
Full-text articles in the PubMed Central Database that cite the current articles.

Recent activity

Clear Turn Off Turn On

Crystal structure of trp repressor/operator complex at atomic resolution.
Crystal structure of trp repressor/operator complex at atomic resolution.
Nature. 1988 Sep 22 ;335(6188):321-9.

PubMed

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

PubMed

Result Filters

Display Settings:

Send to: