RNA polymerase and transcription elongation factor Spt4/5 complex structure

Proceedings of the National Academy of Sciences of the United States of America

Volumn 108, Issue 2, 2011, Pages 557-562

  Klein, Brianna J ^a   Bose, Daniel ^b   Baker, Kevin J ^a   Yusoff, Zahirah M ^a   Zhang, Xiaodong ^b   Murakami, Katsuhiko S ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b IMPERIAL COLLEGE LONDON   (United Kingdom)

Author keywords

Cryo EM; Spt4 5 DSIF NusG; X ray crystallography

Indexed keywords

DNA; DNA POLYMERASE; HELICASE; RNA POLYMERASE; TRANSCRIPTION ELONGATION FACTOR; TRANSCRIPTION FACTOR SPT4 5; UNCLASSIFIED DRUG;

ARTICLE; CONTROLLED STUDY; CRYOELECTRON MICROSCOPY; CRYSTAL STRUCTURE; DNA TRANSCRIPTION; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN STRUCTURE; PYROCOCCUS FURIOSUS; STRUCTURE ANALYSIS; X RAY CRYSTALLOGRAPHY;

BACTERIA (MICROORGANISMS); EUKARYOTA;

EID: 79551663163     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1015520107     Document Type: Article

References (33)

1. Landick R (2006) The regulatory roles and mechanism of transcriptional pausing. Biochem Soc Trans 34:1062-1066.
2. Muse GW, et al. (2007) RNA polymerase is poised for activation across the genome. Nat Genet 39:1507-1511.
3. Guenther MG, Levine SS, Boyer LA, Jaenisch R, Young RA (2007) A chromatin landmark and transcription initiation at most promoters in human cells. Cell 130:77-88. (Pubitemid 47031323)
4. Nechaev S, et al. (2010) Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrestof Pol II in Drosophila. Science 327:335-338.
5. Burova E, Hung SC, Sagitov V, Stitt BL, Gottesman ME (1995) Escherichia coli NusG protein stimulates transcription elongation rates in vivo and in vitro. J Bacteriol 177:1388-1392.
6. Herbert KM, et al. (2010) E coli NusG inhibits backtracking and accelerates pause-free transcription by promoting forward translocation of RNA polymerase. J Mol Biol 399:17-30.
7. Yakhnin AV, Yakhnin H, Babitzke P (2008) Function of the Bacillus subtilis transcription elongation factor NusG in hairpin-dependent RNA polymerase pausing in the trp leader. Proc Natl Acad Sci USA 105:16131-16136.
8. Sevostyanova A, Artsimovitch I (2010) Functional analysis of Thermus thermophilus transcription factor NusG. Nucleic Acids Res 38:7432-7445.
9. Mooney RA, Schweimer K, Rosch P, Gottesman M, Landick R (2009) Two structurally independent domains of E coli NusG create regulatory plasticity via distinct interactions with RNA polymerase and regulators. J Mol Biol 391:341-358.
10. Knowlton JR, et al. (2003) A spring-loaded state of NusG in its functional cycle is suggested by X-ray crystallography and supported by site-directed mutants. Biochemistry 42:2275-2281.
11. Burmann BM, et al. (2010) A NusE:NusG complex links transcription and translation. Science 328:501-504.
12. Guo M, et al. (2008) Core structure of the yeast Spt4-Spt5 complex: A conserved module for regulation of transcription elongation. Structure 16:1649-1658.
13. Wada T, et al. (1998) DSIF, a novel transcription elongation factor that regulates RNA polymerase II processivity, is composed of human Spt4 and Spt5 homologs. Genes Dev 12:343-356.
14. Chen Y, et al. (2009) DSIF, the Paf1 complex, and Tat-SF1 have nonredundant, cooperative roles in RNA polymerase II elongation. Genes Dev 23:2765-2777.
15. Wu CH, et al. (2003) NELF and DSIF cause promoter proximal pausing on the hsp70 promoter in Drosophila. Genes Dev 17:1402-1414.
16. Hirata A, Klein BJ, Murakami KS (2008) The X-ray crystal structure of RNA polymerase from Archaea. Nature 451:851-854. (Pubitemid 351253162)
17. Hirata A, Murakami KS (2009) Archaeal RNA polymerase. Curr Opin Struc Biol 19:724-731.
18. Kostrewa D, et al. (2009) RNA polymerase II-TFIIB structure and mechanism of transcription initiation. Nature 462:323-330.
19. Hirtreiter A, et al. (2010) Spt4/5 stimulates transcription elongation through the RNA polymerase clamp coiled-coil motif. Nucleic Acids Res 38:4040-4051.
20. Wenzel S, Martins BM, Rosch P, Wohrl BM (2010) Crystal structure of the human transcription elongation factor DSIF hSpt4 subunit in complex with the hSpt5 dimerization interface. Biochem J 425:373-380.
21. Belogurov GA, et al. (2007) Structural basis for converting a general transcription factor into an operon-specific virulence regulator. Mol Cell 26:117-129.
22. Missra A, Gilmour DS (2010) Interactions between DSIF (DRB sensitivity inducing factor), NELF (negative elongation factor), and the Drosophila RNA polymerase II transcription elongation complex. Proc Natl Acad Sci USA 107:11301-11306.
23. Cheng B, Price DH (2008) Analysis of factor interactions with RNA polymerase II elongation complexes using a new electrophoretic mobility shift assay. Nucleic Acids Res 36:e135.
24. Carlo SD, Lin S-C, Taatjes DJ, Hoenger A (2010) Molecular basis of transcription initiation in Archaea. Transcription 1:1-9.
25. Kusser AG, et al. (2008) Structure of an archaeal RNA polymerase. J Mol Biol 376:303-307.
26. Vassylyev DG, Vassylyeva MN, Perederina A, Tahirov TH, Artsimovitch I (2007) Structural basis for transcription elongation by bacterial RNA polymerase. Nature 448:157-162. (Pubitemid 47067370)
27. Gnatt AL, Cramer P, Fu J, Bushnell DA, Kornberg RD (2001) Structural basis of transcription: an RNA polymerase II elongation complex at 3.3 Å resolution. Science 292:1876-1882. (Pubitemid 32538357)
28. Pomerantz RT, O'Donnell M (2007) Replisome mechanics: insights into a twin DNA polymerase machine. Trends Microbiol 15:156-164.
29. Enemark EJ, Joshua-Tor L (2008) On helicases and other motor proteins. Curr Opin Struc Biol 18:243-257.
30. Andrecka J, et al. (2009) Nano positioning system reveals the course of upstream and nontemplate DNA within the RNA polymerase II elongation complex. Nucleic Acids Res 37:5803-5809.
31. Korzheva N, et al. (2000) A structural model of transcription elongation. Science 289:619-625.
32. Steiner T, Kaiser JT, Marinkovic S, Huber R, Wahl MC (2002) Crystal structures of transcription factor NusG in light of its nucleic acid- and protein-binding activities. EMBO J 21:4641-4653. (Pubitemid 34984351)
33. Pettersen EF, et al. (2004) UCSF Chimera - a visualization system for exploratory research and analysis. J Comput Chem 25:1605-1612.