Structural characterization of the functional regions in the archaeal protein Sso7d

Proteins: Structure, Function and Genetics

Volumn 67, Issue 1, 2007, Pages 189-197

  Renzone, Giovanni ^a   Vitale, Rosa M ^b   Scaloni, Andrea ^a   Rossi, Mosè ^c,d   Amodeo, Pietro ^e   Guagliardi, Annamaria ^c  

^a CNR   (Italy)

^b CNR   (Italy)

^c UNIVERSITY OF NAPLES FEDERICO II   (Italy)

^d INSTITUTE OF PROTEIN BIOCHEMISTRY   (Italy)

^e CNR Consiglio Nazionale delle Ricerche   (Italy)

Author keywords

Archaea; ATPase site; Chaperone; FSBA; Protein binding; Sso7d; Sulfolobus

Indexed keywords

ADENOSINE TRIPHOSPHATASE; BACTERIAL PROTEIN; MELITTIN; PROTEIN SSO7D; UNCLASSIFIED DRUG;

ARCHAEBACTERIUM; ARTICLE; COMPLEX FORMATION; ELECTROSPRAY MASS SPECTROMETRY; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MOLECULAR MODEL; NONHUMAN; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN PURIFICATION; PROTEIN STRUCTURE; STRUCTURE ANALYSIS; SULFOLOBUS;

ADENOSINE; ADENOSINE TRIPHOSPHATASES; ADENOSINE TRIPHOSPHATE; AFFINITY LABELS; ARCHAEAL PROTEINS; DNA-BINDING PROTEINS; MELITTEN; MODELS, MOLECULAR; PROTEIN BINDING; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TANDEM MASS SPECTROMETRY; TRYPSIN;

ARCHAEA; CRENARCHAEOTA; SULFOLOBUS; SULFOLOBUS SOLFATARICUS;

EID: 33847352108     PISSN: 08873585     EISSN: 10970134     Source Type: Journal    
DOI: 10.1002/prot.21220     Document Type: Article

References (34)

1. Woese CR. Interpreting the universal phylogenetic tree. Proc Natl Acad Sci USA 2000;97:8392-8396.
2. Edmondson SP, Shriver JW. DNA binding proteins Sac7d and Sso7d from Sulfolobus. Methods Enzymol 2001;334:129-145.
3. Gao YG, Su SY, Robinson H, Padmanabhan S, Lim L, McCrary BS, Edmondson SP, Shriver JW, Wang AH. The crystal structure of the hyperthermophile chromosomal protein Sso7d bound to DNA. Nat Struct Biol 1998;5:82-786.
4. Ball LJ, Murzina NV, Broadhurst RW, Raine ARC, Archer SJ, Stott FJ, Murzin AG, Singh PB, Domaille PJ, Laue ED. Structure of the chromatin binding (chromo) domain from mouse modifier protein 1. EMBO J 1997;16:2473-2481.
5. Knapp S, Mattson PT, Christova P, Berndt KD, Karshikoff A, Vihinen M, Smith CI, Ladenstein R. Thermal unfolding of small proteins with SH3 domain folding pattern. Proteins 1998;31:309-319.
6. Granata V, Del Vecchio P, Barone G, Shehi E, Fusi P, Tortora P, Graziano G. Guanidine-induced unfolding of the Sso7d protein from the hyperthermophilic archaeon Sulfolobus solfataricus. Int J Biol Macromol 2004;34:195-201.
7. Guagliardi A, Napoli A, Rossi M, Ciaramella M. Annealing of complementary DNA strands above the melting point of the duplex promoted by an archaeal protein. J Mol Biol 1997;267:841-848.
8. Lopez-Garcia P, Knapp S, Ladenstein R, Forterre P. In vitro DNA binding of the archaeal protein Sso7d induces negative supercoiling at temperatures typical for thermophilic growth. Nucleic Acids Res 1998;26:2322-2328.
9. Napoli A, Zivanovic Y, Bocs C, Buhler C, Rossi M, Forterre P, Ciaramella M. DNA bending, compaction and negative supercoiling by the architectural protein Sso7d of Sulfolobus solfataricus. Nucleic Acids Res 2002;30:2656-2662.
10. Sandman K, Reeve JN. Archaeal chromatin proteins: different structures but common function? Curr Opin Microbiol 2005;8:656-661.
11. Guagliardi A, Cerchia L, Moracci M, Rossi M. The chromosomal protein Sso7d of the crenarchaeon Sulfolobus solfataricus rescues aggregated proteins in an ATP hydrolysis-dependent manner. J Biol Chem 2000;275:31813- 31818.
12. Guagliardi A, Cerchia L, Camardella L, Rossi M, Bartolucci S. DBF (disulfide bond forming) enzyme from the hyperthermophilic archaebacterium Sulfolobus solfataricus behaves as a molecular chaperone. Biocatalysis 1994;11:181-190.
13. Guagliardi A, Cerchia L, De Rosa M, Rossi M, Bartolucci S. Isolation of a thermostable enzyme catalyzing disulfide bond formation from the archaebacterium Sulfolobus solfataricus. FEBS Lett 1992;303:27-30.
14. Guagliardi A, Mancusi L, Rossi M. Reversion of protein aggregation by Sso7d in cell extracts of Sulfolobus solfataricus. Biochem J 2004;381:249-255.
15. Consonni R, Arosio I, Belloni B, Fogolari F, Fusi P, Shehi E, Zetta L. Investigations of Sso7d catalytic residues by NMR titration shifts and electrostatic calculations. Biochemistry 2003;42:1421-1429.
16. Bradford MM. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 1976;72:248-254.
17. Baumann H, Knapp S, Lundback T, Ladenstein R, Hard T. Solution structure and DNA-binding properties of a thermostable protein from the archaeon Sulfolobus solfataricus. Nat Struct Biol 1994;1:808-819.
18. Schägger H, von Jagow G. Tricine-sodium dodecyl sulfate- polyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal Chem 1987;166:368-379.
19. Allegrini S, Scaloni A, Ferrara L, Pesi R, Pinna P, Sgarrella F, Camici M, Eriksson S, Tozzi MG. Bovine cytosolic 5′-nucleotidase acts through the formation of an aspartate 52-phosphoenzyme intermediate. J Biol Chem 2001;276:33526-33532.
20. Talamo F, D'Ambrosio C, Arena S, Del Vecchio P, Ledda L, Zehender G, Ferrara L, Scaloni A. Proteins from bovine tissues and biological fluids: defining a reference electrophoresis map for liver, kidney, muscle, plasma and red blood cells. Proteomics 2003;3:440-460.
21. D'Ambrosio C, Arena S, Fulcoli G, Scheinfeld MH, Zhou D, Adamio L, Scaloni A. Hyperphosphorylation of JNK-interacting protein 1, a protein associated with Alzheimer disease. Mol Cell Proteomics 2006;5:97-113.
22. Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, Shindyalov IN, Bourne E. The protein data bank. Nucleic Acids Res 2000;28:235-242.
23. Chen R, Li L, Wenig Z. ZDOCK: an initial-stage protein-docking algorithm. Proteins 2003;52:80-87.
24. Koradi R, Billeter M, Wüthrich KJ. MOLMOL: a program for display and analysis of macromolecular structures. J Mol Graph 1996;14:51-55.
25. Case DA, Darden TA, Cheatham TE, III, Simmerling CL, Wang J, Duke RE, Luo R, Merz KM, Wang B, Pearlman DA, Crowley M, Brozell S, Tsui V, Gohlke H, Mongan J, Hornak V, Cui G, Beroza P, Schafmeister C, Caldwell JW, Ross WS, Kollman PA. AMBER 8. University of California: San Francisco; 2004.
26. Simmerling C, Strockbine B, Roitberg AE. All-atom structure prediction and folding simulations of a stable protein. J Am Chem Soc 2002;124:11258,11259.
27. Bayly CI, Cieplak P, Cornell WD, Kollman PA. A well-behaved electrostatic potential based method using charge restraints for determining atom-centered charges: the RESP model. J Phys Chem 1993;97:10269-10280.
28. Guagliardi A, Cerchia L, Rossi M. Sso7d protein of Sulfolobus solfataricus: in vitro relationship among different activities. Archaea 2002;1:87-93.
29. Zappacosta F, Pessi A, Bianchi E, Venturini S, Sollazzo M, Tramontano A, Marino G, Pucci P. Probing the tertiary structure of proteins by limited proteolysis and mass spectrometry: the case of Minibody. Protein Sci 1996;5:802-813.
30. D'Ambrosio C, Talamo F, Vitale RM, Amodeo P, Tell G, Ferrara L, Scaloni A. Probing the dimeric structure of porcine aminoacylase 1 by mass spectrometric and modeling procedures. Biochemistry 2003;42:4430-4443.
31. Scaloni A, Miraglia N, Orrù S, Amodeo P, Motta P, Marino G, Pucci P. Topology of the calmodulin-melittin complex. J Mol Biol 1998;277:945-958.
32. Colman RF. Site-specific modification of enzyme sites. In: Syman DD, Boyer PD, editors. The enzymes. San Diego, CA: Academic Press; 1990. pp 283-321.
33. Bossemeyer D. The glycine-rich sequence of protein kinases: a multifunctional element. Trends Biochem Sci 1994;19:201-205.
34. Takahshi M, Maraboeuf F, Norden B. Locations of functional domains in the RecA protein. Eur J Biochem 1996;242:20-28.