Structure of small protein B: The protein component of the tmRNA-SmpB system for ribosome rescue

EMBO Journal

Volumn 21, Issue 7, 2002, Pages 1845-1854

  Dong, Gang ^a   Nowakowski, Jacek ^b   Hoffman, David W ^a  

^a UNIVERSITY OF TEXAS AT AUSTIN   (United States)

^b Takeda San Diego Inc   (United States)

Author keywords

NMR; Protein structure; SmpB; SsrA; tmRNA

Indexed keywords

ASPARTIC ACID TRANSFER RNA; MESSENGER RNA; RIBOSOME PROTEIN; RNA BINDING PROTEIN; SMALL PROTEIN B; TRANSFER RNA; UNCLASSIFIED DRUG;

AQUIFEX AEOLICUS; ARTICLE; BETA SHEET; MOLECULAR CLONING; NONHUMAN; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN PURIFICATION; PROTEIN STRUCTURE; RIBOSOME; SEQUENCE ANALYSIS;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; CONSERVED SEQUENCE; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; PROTEIN STRUCTURE, SECONDARY; RIBOSOMES; RNA, BACTERIAL; SEQUENCE HOMOLOGY, AMINO ACID;

AQUIFEX AEOLICUS;

EID: 0037007224     PISSN: 02614189     EISSN: None     Source Type: Journal    
DOI: 10.1093/emboj/21.7.1845     Document Type: Article

References (40)

1. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
2. The complete atomic structure of the large ribosomal subunit at 2.4 Å resolution
3. Kinetic parameters for tmRNA binding to alanyl-tRNA synthetase and elongation factor Tu from Escherichia coli
4. Simultaneous and functional binding of SmpB and EF-Tu GTP to the alanyl acceptor arm of tmRNA
5. Crystallography and NMR system: A new software suite for macromolecular structure determination
6. Crystal structure of an initiation factor bound to the 30S ribosomal subunit
7. Yeast tRNA(Asp) recognition by its cognate class II aminoacyl-tRNA synthetase
8. RNA binding strategies of ribosomal proteins
9. Structural organization of Escherichia coli tmRNA
10. The CIpXP and CIpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system
11. DALI/FSSP classification of three-dimensional protein folds
12. Protein factors associated with the SsrA-SmpB tagging and ribosome rescue complex
13. SmpB, a unique RNA-binding protein essential for the peptide tagging activity of SsrA (tmRNA)
14. The SsrA-SmpB system for protein tagging, directed degradation and ribosome rescue
15. Role of a peptide tagging system in degradation of proteins synthesized from damaged messenger RNA
16. tmRNAs that encode proteolysis-inducing tags are found in all known bacterial gemiomes: A two piece tmRNA functions in Caulobacter
17. Excision of a P4-like cryptic prophage leads to A1p protease expression in Escherichia coli
18. tmRDB (tmRNA database)
19. A tRNA like structure is present in 10Sa RNA, a small stable RNA from Escherichia coli
20. MOLMOL: A program for display and analysis of macromolecular structures
21. MOLSCRIPT: A program for display and analysis of macromolecular structures
22. AQUA and PROCHECK-NMR: Programs for checking the quality of protein structures solved by NMR
23. fMet-binding domain of B. stearothermophilus initiation factor IF2
24. OB (oligonucleotide/oligosaccharide binding)-fold: Common structural and functional solution for non-homologous sequences
25. Three of four pseudoknots in tmRNA are interchangeable and are substitutable with single-stranded RNAs
26. Phe. EF-Tu and GTP analog
27. A role for small stable RNA in modulating the activity of DNA-binding proteins
28. Role for 10Sa RNA in the growth of lambda-P22 hybrid phage
29. X-ray structures of the universal translation initiation factor IF2/eIF5B: Conformational changes GDP and GTP binding
30. Aminoacylated tmRNA from Esrherichia coli interacts with prokaryotic elongation factor Tu
31. Structural preordering in the N-terminal region of ribosomal protein S4 revealed by heteronuclear NMR spectroscopy
32. C-terminal extension of truncated recombinant proteins in Escherichia coli with a I0Sa RNA decapeptide
33. tRNA-like structures in I0Sa RNAs of Mycoplasma capricolum and Bacillus subtilis
34. SsrA-mediated tagging in Bacillus subtilis
35. The tmRNA website
36. Structure of the 30S ribosomal subunit
37. Binding and cross-linking of tmRNA to ribosomal protein SI, on and off the Escherichia coli ribosome
38. Quality control of the elongation step of protein synthesis by tmRNP
39. Complex of tmRNA and EF-Tu: Complex modes of interaction
40. Three-dimensional folding of the tRNA-like domain of Escherichia coli tmRNA