Conserved inserts in the Hsp60 (GroEL) and Hsp70 (DnaK) proteins are essential for cellular growth

Molecular Genetics and Genomics

Volumn 281, Issue 4, 2009, Pages 361-373

  Singh, Bhag ^a   Gupta, Radhey S ^a  

^a MCMASTER UNIVERSITY   (Canada)

Author keywords

DnaK (Hsp70); Evolutionary conserved inserts; GroEL (Hsp60); Lineage specific proteins; Molecular chaperones; Protein signatures; Rare genetic changes

Indexed keywords

HEAT SHOCK PROTEIN 60; HEAT SHOCK PROTEIN 70; CHAPERONIN; DNAK PROTEIN, E COLI; ESCHERICHIA COLI PROTEIN; RECOMBINANT PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CELL GROWTH; ESCHERICHIA COLI; GRAM NEGATIVE BACTERIUM; NONHUMAN; PRIORITY JOURNAL; PROTEIN EXPRESSION; TEMPERATURE SENSITIVITY; BACTERIAL GENE; BACTERIUM; CHEMICAL STRUCTURE; CHEMISTRY; CLASSIFICATION; GENE EXPRESSION REGULATION; GENETIC COMPLEMENTATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM; MOLECULAR EVOLUTION; MOLECULAR GENETICS; MUTATION; NUCLEOTIDE SEQUENCE; PHYSIOLOGY; PROTEIN TERTIARY STRUCTURE; SEQUENCE HOMOLOGY; SPECIES DIFFERENCE; TEMPERATURE;

NEGIBACTERIA; PROTEOBACTERIA;

AMINO ACID SEQUENCE; BACTERIA; CONSERVED SEQUENCE; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; EVOLUTION, MOLECULAR; GENES, BACTERIAL; GENETIC COMPLEMENTATION TEST; GROEL PROTEIN; HSP70 HEAT-SHOCK PROTEINS; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTAGENESIS, INSERTIONAL; MUTATION; PROTEIN STRUCTURE, TERTIARY; RECOMBINANT PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SPECIES SPECIFICITY; TEMPERATURE;

EID: 66149157930     PISSN: 16174615     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00438-008-0417-3     Document Type: Article

References (62)

1. S Ahmad R Ahuja TJ Venner RS Gupta 1990 Identification of a protein altered in mutants resistant to microtubule inhibitors as a member of the major heat shock protein (hsp70) family Mol Cell Biol 10 5160 5165
2. D Ang C Georgopoulos 1989 The heat-shock-regulated grpE gene of Escherichia coli is required for bacterial growth at all temperatures but is dispensable in certain mutant backgrounds J Bacteriol 171 2748 2755
3. M Arifuzzaman T Oshima H Mori 2004 The ATPase domain of HscC (DnaK homolog) is essential for interfering sigma70 activity in E. coli FEMS Microbiol Lett 230 99 104 (Pubitemid 38091744)
4. I Artsimovitch V Svetlov KS Murakami R Landick 2003 Co-overexpression of Escherichia coli RNA polymerase subunits allows isolation and analysis of mutant enzymes lacking lineage-specific sequence insertions J Biol Chem 278 12344 12355 (Pubitemid 36800218)
5. SL Baldauf JD Palmer 1993 Animals and fungi are each other's closest relatives: congruent evidence from multiple proteins Proc Natl Acad Sci USA 90 11558 11562
6. P Bork EV Koonin 1998 Predicting functions from protein sequences-where are the bottlenecks Nat Genet 18 313 318 (Pubitemid 28158157)
7. K Braig Z Otwinowski R Hegde DC Boisvert A Joachimiak AL Horwich PB Sigler 1994 The crystal structure of the bacterial chaperonin GroEL at 2.8 A Nature 371 578 586
8. B Bukau AL Horwich 1998 The Hsp70 and Hsp60 chaperone machines Cell 92 351 366 (Pubitemid 28093013)
9. B Bukau GC Walker 1989 Cellular defects caused by deletion of the Escherichia coli dnaK gene indicate roles for heat shock protein in normal metabolism J Bacteriol 171 2337 2346
10. FD Ciccarelli T Doerks C von Mering CJ Creevey B Snel P Bork 2006 Toward automatic reconstruction of a highly resolved tree of life Science 311 1283 1287 (Pubitemid 43334717)
11. EA Craig BD Gambill RJ Nelson 1993 Heat shock proteins: molecular chaperones of protein biogenesis. Microbiol Rev 57 402 414
12. A Danchin 1999 From protein sequence to function Curr Opin Struct Biol 9 363 367 (Pubitemid 29454505)
13. V Daubin H Ochman 2004 Bacterial genomes as new gene homes: the genealogy of ORFans in E. coli Genome Res 14 1036 1042 (Pubitemid 38811539)
14. WF Doolittle 1999 Phylogenetic classification and the universal tree Science 284 2124 2128 (Pubitemid 29297466)
15. RJ Ellis FU Hartl 1999 Principles of protein folding in the cellular environment Curr Opin Struct Biol 9 102 110 (Pubitemid 29471981)
16. TM Embley E Stackebrandt 1993 The molecular phylogeny and systematics of the actinomycetes Annu Rev Microbiol 48 257 289 (Pubitemid 24334098)
17. O Fayet T Ziegelhoffer C Georgopoulos 1989 The groES and groEL heat shock gene products of Escherichia coli are essential for bacterial growth at all temperatures J Bacteriol 171 1379 1385 (Pubitemid 19080775)
18. WA Fenton Y Kashi K Furtak AL Horwich 1994 Residues in chaperonin GroEL required for polypeptide binding and release Nature 371 614 619 (Pubitemid 24315744)
19. KM Flaherty C DeLuca-Flaherty DB McKay 1990 Three-dimensional structure of the ATPase fragment of a 70 K heat-shock cognate protein Nature 346 623 628
20. MY Galperin EV Koonin 2004 'Conserved hypothetical' proteins: prioritization of targets for experimental study Nucleic Acids Res 32 5452 5463 (Pubitemid 39545662)
21. B Gao RS Gupta 2005 Conserved indels in protein sequences that are characteristic of the phylum Actinobacteria Int J Syst Evol Microbiol 55 2401 2412 (Pubitemid 41646421)
22. CP Georgopoulos RW Hendrix SR Casjens AD Kaiser 1973 Host participation in bacteriophage lambda head assembly J Mol Biol 76 45 60
23. JP Gogarten WF Doolittle JG Lawrence 2002 Prokaryotic evolution in light of gene transfer Mol Biol Evol 19 2226 2238 (Pubitemid 35440456)
24. MW Gray 1999 Evolution of organellar genomes Curr Opin Genet Dev 9 678 687
25. E Griffiths RS Gupta 2004 Signature sequences in diverse proteins provide evidence for the late divergence of the order Aquificales Int Microbiol 7 41 52 (Pubitemid 38901144)
26. E Griffiths A Petrich RS Gupta 2005 Conserved indels in essential proteins that are distinctive characteristics of Chlamydiales and provide novel means for their identification Microbiology 151 2647 2657 (Pubitemid 41149787)
27. RS Gupta 1995 Evolution of the chaperonin families (Hsp60, Hsp10 and Tcp-1) of proteins and the origin of eukaryotic cells Mol Microbiol 15 1 11
28. RS Gupta 1998 Protein phylogenies and signature sequences: a reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes Microbiol Mol Biol Rev 62 1435 1491 (Pubitemid 28558305)
29. RS Gupta 2000 The phylogeny of proteobacteria: relationships to other eubacterial phyla and eukaryotes FEMS Microbiol Rev 24 367 402 (Pubitemid 30691507)
30. RS Gupta 2004 The Phylogeny and signature sequences characteristics of Fibrobacters, Chlorobi and Bacteroidetes Crit Rev Microbiol 30 123 143 (Pubitemid 38692171)
31. RS Gupta GB Golding 1993 Evolution of HSP70 gene and its implications regarding relationships between archaebacteria, eubacteria, and eukaryotes J Mol Evol 37 573 582 (Pubitemid 23335720)
32. RS Gupta E Griffiths 2006 Chlamydiae-specific proteins and indels: novel tools for studies Trends Microbiol 14 527 535 (Pubitemid 44751455)
33. RS Gupta A Mok 2007 Phylogenomics and signature proteins for the alpha proteobacteria and its main groups BMC Microbiol 7 106
34. RS Gupta B Singh 1994 Phylogenetic analysis of 70 kD heat shock protein sequences suggests a chimeric origin for the eukaryotic cell nucleus Curr Biol 4 1104 1114 (Pubitemid 124001597)
35. RS Gupta K Aitken M Falah B Singh 1994 Cloning of Giardia lamblia heat shock protein HSP70 homologs: implications regarding origin of eukaryotic cells and of endoplasmic reticulum Proc Natl Acad Sci USA 91 2895 2899 (Pubitemid 24130140)
36. RS Gupta M Pereira C Chandrasekera V Johari 2003 Molecular signatures in protein sequences that are characteristic of cyanobacteria and plastid homologues Int J Syst Evol Microbiol 53 1833 1842 (Pubitemid 37483840)
37. CJ Harrison M Hayer-Hartl M Di Liberto F Hartl J Kuriyan 1997 Crystal structure of the nucleotide exchange factor GrpE bound to the ATPase domain of the molecular chaperone DnaK Science 276 431 435 (Pubitemid 27180708)
38. S Jindal AK Dudani B Singh CB Harley RS Gupta 1989 Primary structure of a human mitochondrial protein homologous to the bacterial and plant chaperonins and to the 65-kilodalton mycobacterial antigen Mol Cell Biol 9 2279 2283 (Pubitemid 19117837)
39. G Klein C Georgopoulos 2001 Identification of important amino acid residues that modulate binding of Escherichia coli GroEL to its various cochaperones Genetics 158 507 517 (Pubitemid 32552292)
40. JA Lake CW Herbold MC Rivera JA Servin RG Skophammer 2007 Rooting the tree of life using nonubiquitous genes Mol Biol Evol 24 130 136 (Pubitemid 46026288)
41. AJL Macario M Lange BK Ahring EC De Macario 1999 Stress genes and proteins in the archaea MMBR 63 923 967
42. Margulis L (1993) Symbiosis in cell evolution. W.H. Freeman, New York, p 452
43. N Opalka RA Mooney C Richter K Severinov R Landick SA Darst 2000 Direct localization of a beta-subunit domain on the three-dimensional structure of Escherichia coli RNA polymerase Proc Natl Acad Sci USA 97 617 622 (Pubitemid 30070358)
44. Palmer JD, Delwiche CF (1998) The origin and evolution of plastids and their genomes. In: Sotis DE, Soltis PE, Doyle JJ (eds) Molecular systematics of plants II DNA sequencing. Kluwer, Norwell, pp 375-409
45. M Pellecchia DL Montgomery SY Stevens CW Vander Kooi HP Feng LM Gierasch ER Zuiderweg 2000 Structural insights into substrate binding by the molecular chaperone DnaK Nat Struct Biol 7 298 303 (Pubitemid 30194453)
46. DJ Picketts CS Mayanil RS Gupta 1989 Molecular cloning of a Chinese hamster mitochondrial protein related to the "chaperonin" family of bacterial and plant proteins J Biol Chem 264 12001 12008 (Pubitemid 19185375)
47. S Popp L Packschies N Radzwill KP Vogel HJ Steinhoff J Reinstein 2005 Structural dynamics of the DnaK-peptide complex J Mol Biol 347 1039 1052 (Pubitemid 40387451)
48. A Richardson F Schwager SJ Landry C Georgopoulos 2001 The importance of a mobile loop in regulating chaperonin/co-chaperonin interaction: humans versus Escherichia coli J Biol Chem 276 4981 4987
49. W Rist C Graf B Bukau MP Mayer 2006 Amide hydrogen exchange reveals conformational changes in hsp70 chaperones important for allosteric regulation J Biol Chem 281 16493 16501 (Pubitemid 43909600)
50. MC Rivera JA Lake 1992 Evidence that eukaryotes and eocyte prokaryotes are immediate relatives Science 257 74 76
51. F Rodriguez-Quinones M Maguire EJ Wallington PS Gould V Yerko JA Downie PA Lund 2005 Two of the three groEL homologues in Rhizobium leguminosarum are dispensable for normal growth Arch Microbiol 183 253 265 (Pubitemid 40768015)
52. A Rokas PW Holland 2000 Rare genomic changes as a tool for phylogenetics Trends Ecol Evol 15 454 459 (Pubitemid 30802813)
53. E Rusanganwa RS Gupta 1993 Cloning and characterization of multiple groEL chaperonin-encoding genes in Rhizobium meliloti Gene 126 67 75
54. S Sugimoto C Higashi K Saruwatari J Nakayama K Sonomoto 2007 A gram-negative characteristic segment in Escherichia coli DnaK is essential for the ATP-dependent cooperative function with the co-chaperones DnaJ and GrpE FEBS Lett 581 2993 2999 (Pubitemid 46908808)
55. JP Suppini M Amor JH Alix MM Ladjimi 2004 Complementation of an Escherichia coli DnaK defect by Hsc70-DnaK chimeric proteins J Bacteriol 186 6248 6253 (Pubitemid 39187013)
56. MD Sussman P Setlow 1987 Nucleotide sequence of a Bacillus megaterium gene homologous to the dnaK gene of Escherichia coli Nucleic Acids Res 15 3923
57. K Tilly R Hauser J Campbell GJ Ostheimer 1993 Isolation of dnaJ, dnaK, and grpE homologues from Borrelia burgdorferi and complementation of Escherichia coli mutants Mol Microbiol 7 359 369
58. M Ventura C Canchaya A Tauch G Chandra GF Fitzgerald KF Chater D van Sinderen 2007 Genomics of Actinobacteria: tracing the evolutionary history of an ancient phylum Microbiol Mol Biol Rev 71 495 548 (Pubitemid 47429283)
59. AM Viale AK Arakaki FC Soncini RG Ferreyra 1994 Evolutionary relationships among eubacterial groups as inferred from GroEL (chaperonin) sequence comparisons Int J Syst Bacteriol 44 527 533 (Pubitemid 24219636)
60. LE Vickery JR Cupp-Vickery 2007 Molecular chaperones HscA/Ssq1 and HscB/Jac1 and their roles in iron-sulfur protein maturation Crit Rev Biochem Mol Biol 42 95 111 (Pubitemid 46598188)
61. J Wild A Kamath-Loeb E Ziegelhoffer M Lonetto Y Kawasaki CA Gross 1992 Partial loss of function mutations in DnaK, the Escherichia coli homologue of the 70-kDa heat shock proteins, affect highly conserved amino acids implicated in ATP binding and hydrolysis Proc Natl Acad Sci USA 89 7139 7143
62. J Zeilstra-Ryalls O Fayet C Georgopoulos 1991 The universally conserved GroE (Hsp60) chaperonins Annu Rev Microbiol 45 301 325 (Pubitemid 21903794)