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Open AccessJournal ArticleDOI

Crystal Structure of Thermus aquaticus Core RNA Polymerase at 3.3 Å Resolution

TLDR
The X-ray crystal structure of Thermus aquaticus core RNA polymerase reveals a "crab claw"-shaped molecule with a 27 A wide internal channel that places key functional sites, defined by mutational and cross-linking analysis, on the inner walls of the channel in close proximity to the active center Mg2+.
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This article is published in Cell.The article was published on 1999-09-17 and is currently open access. It has received 814 citations till now. The article focuses on the topics: Thermus aquaticus & RNA polymerase.

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Citations
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Structural Mechanism for Rifampicin Inhibition of Bacterial RNA Polymerase

TL;DR: The crystal structure of Thermus aquaticus core RNAP complexed with Rif explains the effects of Rif on RNAP function and indicates that the inhibitor acts by directly blocking the path of the elongating RNA when the transcript becomes 2 to 3 nt in length.
Journal ArticleDOI

Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution.

TL;DR: Structures of a 10-subunit yeast RNA polymerase II derived from two crystal forms at 2.8 and 3.1 angstrom resolution provide evidence for RNA exit in the vicinity of the carboxyl-terminal repeat domain, coupling synthesis to RNA processing by enzymes bound to this domain.
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The protein-protein interaction map of Helicobacter pylori.

TL;DR: A large-scale protein–protein interaction map of the human gastric pathogen Helicobacter pylori is built and the assignment of unannotated proteins to biological pathways is permitted.
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The regulation of bacterial transcription initiation

TL;DR: Bacteria use their genetic material with great effectiveness to make the right products in the correct amounts at the appropriate time, but for reasons of economy, the key step to regulate is the initiation of RNA-transcript formation.
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Structural Basis of Transcription: An RNA Polymerase II Elongation Complex at 3.3 Å Resolution

TL;DR: The crystal structure of RNA polymerase II in the act of transcription was determined at 3.3 Å resolution and protein–nucleic acid contacts help explain DNA and RNA strand contacts, the specificity of RNA synthesis, “abortive cycling” during transcription initiation, and RNA and DNA translocation during transcription elongation.
References
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Journal ArticleDOI

Improved methods for building protein models in electron density maps and the location of errors in these models.

TL;DR: In this paper, the authors describe strategies and tools that help to alleviate this problem and simplify the model-building process, quantify the goodness of fit of the model on a per-residue basis and locate possible errors in peptide and side-chain conformations.
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The interpretation of protein structures: estimation of static accessibility.

TL;DR: The accessibility of atoms in the twenty common amino acids in model tripeptides of the type Ala-X-Ala are given for defined conformation and the larger non-polar amino acids tend to be more “buried” in the native form of all three proteins.
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Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons.

TL;DR: It is demonstrated in this work that the surface tension, water‐organic solvent, transfer‐free energies and the thermodynamics of melting of linear alkanes provide fundamental insights into the nonpolar driving forces for protein folding and protein binding reactions.
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Prediction of protein secondary structure at better than 70% accuracy.

TL;DR: A two-layered feed-forward neural network is trained on a non-redundant data base to predict the secondary structure of water-soluble proteins with a new key aspect is the use of evolutionary information in the form of multiple sequence alignments that are used as input in place of single sequences.
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