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Three-dimensional Structures & Models Page

All models are in PDB format.


S. pombe RNA model

A model of the Schizosaccharomyces pombe RNase P RNA by Steve Marquez in the Norm Pace lab (publication pending).


Ternary complex model

Model of the Bacillus stearothermphilus RNase P RNA with the Bacillus subtilus RNase P protein in complex with yeast tRNA^Phe, from Buck, et al. 2005 Nat. Struct. Mol. Biol. (advance online publication).


Type B RNA structure

The structure of the Bacillus stearothermophilus RNase P RNA, determined by X-ray crystallography to 3.3 angstroms, from Kazantsev, et al, 2005 PNAS 24:3360. Parts of the S-domain are not resolved (most of P10.1, P12, J11/12 and J12/11), but the remainder is in agreeement with the Bacillus subtilis S-domain structure.


Type A RNA structure

The structure of the Thermotoga maritima RNase P RNA, determined by X-ray crystallography, from Torres-Larios, et al, 2005 Nature 437:587. The resolution of the structure is 3.85 angstroms. Only residues in helical regions are resolved, except in the "S-domain", where the residues are placed based on the Thermus thermophilus S-domain structure. The crystals are a dimer via the formation of an intermoleular (rather than intramolecular) version of helix P6.


Type B RNA S-domain folding intermediate model

A model of the folding intermediate "Ieq" of the Bacillus subtilis RNase P RNA S-domain from Baird, et al 2005 J Mol Biol 352:712-722.


Type A RNA S-domain structure

The structure of the Thermus thermophilus RNase P RNA S-domain (P7-14), determined by X-ray crystallography, by Kraslinikov, et al, 2004 Science 306:104.


Type B RNA S-domain structure

The structure of the Bacillus subtilis RNase P RNA S-domain (P7-12), determined by X-ray crystallography, by Kraslinikov, et al, 2003 Nature 421: 760.


T. maritima protein structure

The structure of the Thermotoga maritima RNase P protein, determined by X-ray crystallography, by Kazantsev, et al, 2003 PNAS 100:7497.


S. aureus protein structure

The solution structure of the Staphylococcus aureus RNase P protein, determined by NMR, from Spitzfaden, et al., 2000 JMB 295:105. The PDB file contains an ensemble of 20 structures - #1 is the best representative.


P4 structure

The solution structure (determined by NMR) of P4, wild-type and the C70U mutant both alone and as hexamine complexes, from Schmitz & Tinoco, RNA 2000 6:1212.


Bacillus subtilis protein structure

The crystal structure of the B. subtilis RNase P protein subunit from: Stams T, et al., Science 1998 280:752-755


Pace & collegues P RNA models

An updated set of models, all-atom, from Chen, et al., 1998 EMBO J 17: 1515-1525.

An updated model from Harris, et al., 1997, RNA 3, 561.

The previous model from Harris, et al., 1994 EMBO J. 13:3953.


Westhof & collegues P RNA models

A completely reworked model, from Christian Massire, et al., 1998, J. Mol. Biol.279:773.

The previous model from Westhof & Altman, 1994 PNAS 91:5133.


J15/16 models

MC-SYM models from Tom Easterwood & Steve Harvey, 1997 RNA 3:577.

Models of the E. coli P15/16 region based on NMR data - from Glemarec, et al, 1996, NAR., 24:2022.


Last updated
James W. Brown
Department of Microbiology, NC State University
Raleigh, NC 27695 USA
james_brown@ncsu.edu
www.mbio.ncsu.edu/JWB