Crystal structure of the YjgF/YER057c/UK114 family protein from the hyperthermophilic archaeon Sulfolobus tokodaii strain 7

Proteins: Structure, Function and Genetics

Volumn 62, Issue 2, 2006, Pages 557-561

  Miyakawa, Takuya ^a   Lee, Woo Cheol ^a   Hatano, Ken Ichi ^b   Kato, Yusuke ^a   Sawano, Yoriko ^a   Miyazono, Ken Ichi ^a   Nagata, Koji ^a   Tanokura, Masaru ^a  

^a UNIVERSITY OF TOKYO   (Japan)

^b GUNMA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; MESSENGER RNA; UNCLASSIFIED DRUG; YJGF PROTEIN;

ARCHAEBACTERIUM; ARTICLE; CRYSTAL STRUCTURE; HYDROPHOBICITY; LIGHT SCATTERING; MOLECULAR MODEL; NONHUMAN; PRIORITY JOURNAL; PROTEIN STRUCTURE; RNA DEGRADATION; STRAIN DIFFERENCE; STRUCTURE ANALYSIS; SULFOLOBUS; THERMOPHILIC BACTERIUM; ULTRAVIOLET SPECTROSCOPY; X RAY CRYSTALLOGRAPHY; X RAY DIFFRACTION;

AMINO ACID SEQUENCE; ARCHAEAL PROTEINS; MODELS, MOLECULAR; PROTEIN CONFORMATION; PROTEIN STRUCTURE, SECONDARY; RECOMBINANT PROTEINS; SEQUENCE ALIGNMENT; SULFOLOBUS; X-RAY DIFFRACTION;

ARCHAEA; BACTERIA (MICROORGANISMS); SULFOLOBUS; SULFOLOBUS TOKODAII STR. 7;

EID: 30144434671     PISSN: 08873585     EISSN: None     Source Type: Journal    
DOI: 10.1002/prot.20778     Document Type: Article

References (30)

1. Parsons L, Bonander N, Eisenstein E, Gilson M, Kairys V, Orban J. Solution structure and functional ligand screening of HI0719, a highly conserved protein from bacteria to humans in the YjgF/YER057c/UK114 family. Biochemistry 2003;42:80-89.
2. Enos-Berlage JL, Langendorf MJ, Downs DM. Complex metabolic phenotypes caused by a mutation in yjgF, encoding a member of the highly conserved YER057c/YjgF family of proteins. J Bacteriol 1998;180:6519-6528.
3. Schmitz G, Downs DM. Reduced transaminase B (IlvE) activity caused by the lack of yjgF is dependent on the status of threonine deaminase (IlvA) in Salmonella enterica serovar typhimurium. J Bacteriol 2004;186:803-810.
4. Kim JM, Yoshikawa H, Shirahige K. A member of the YER057c/yjgf/Uk114 family links isoleucine biosynthesis and intact mitochondoria maintenance in Saccharomyces cerevisiae. Genes Cells 2001;6:507-517.
5. Rappu P, Shin BS, Zalkin H, Mäntsälä P. A role for a highly conserved protein of unknown function in regulation of Bacillus subtilis purA by the purine repressor. J Bacteriol 1999;181:3810-3815.
6. Asagi K, Oka T, Arao H, Suzuki I, Thakur MK, Izumi K, Natori Y. Purification, characterization and differentiation-dependent expression of a perchloric acid soluble protein from rat kidney. Nephron 1998;79:80-90.
7. Kaneki K, Kanouchi H, Matsumoto M, Kawasaki Y, Akuzawa M, Oka T. Down regulation of a novel protein, PSP, in rat hepatoma cell dRLh 84-beared tumor. J Vet Med Sci 2003;65:781-785.
8. Oka T, Tsuji H, Noda C, Sakai K, Hong YM, Suzuki I, Muñoz S, Natori Y. Isolation and characterization of a novel perchloric acid-soluble protein inhibiting cell-free protein synthesis. J Biol Chem 1995;270:30060-30067.
9. Schmiedeknecht G, Kerkhoff C, Orso E, Stohr J, Aslanidis C, Nagy GM, Knuechel R, Schmits G. Isolation and characterization of a 14.5-kDa trichloroacetic-acid-soluble translational inhibitor protein from human monocytes that is upregulated upon cellular differentiation. Eur J Biochem 1996;242:339-351.
10. Morishita R, Kawagoshi A, Sawasaki T, Madin K, Ogasawara T, Oka T, Endo Y. Ribonuclease activity of rat liver perchloric acid-soluble protein, a potent inhibitor of protein synthesis. J Biol Chem 1999;274:20688-20692.
11. Volz K. A test case for structure-based functional assignment: the 1.2 Å crystal structure of the yjgF gene product from Escherichia coli. Protein Sci 1999;8:2428-2437.
12. Sinha S, Rappu P, Lange SC, Mäntsälä P, Zalkin H, Smith JL. Crystal structure of Bacillus subtilis YabJ, a purine regulatory protein and member of the highly conserved YjgF family. Proc Natl Acad Aci USA 1999;96:13074-13079.
13. Deriu D, Briand C, Mistiniene E, Naktinis V, Grütter MG. Structure and oligomeric state of the mammalian tumour-associated antigen Uk114. Acta Crystallogr D 2003;59:1676-1678.
14. Manjasetty BA, Delbrück H, Pham DT, Mueller U, Fieber-Erdmann M, Scheich C, Sievert V, Büssow K, Neisen FH, Wilhelm W, Loll B, Saenger W, Heinemann U. Crystal structure of Homo sapiens protein hp14.5. Proteins 2004;54:797-800.
15. Kawarabayasi Y, Hino Y, Horikawa H, Jin-no K, Takahashi M, Sekine M, Baba S, Ankai A, Kosugi H, Hosoyama A, Fukui S, Nagai Y, Nishijima K, Otsuka R, Nakazawa H, Takamiya M, Kato Y, Yoshizawa T, Tanaka T, Kudoh Y, Yamazaki J, Kushida N, Oguchi A, Aoki K, Masuda S, Yanagii M, Nishimura M, Yamagishi A, Oshima T, Kikuchi H. Complete genome sequence of an aerobic thermoacidophilic crenarchaeon, Sulfolobus tokodaii strain 7. DNA Res 2001;8:123-140.
16. Miyakawa T, Hatano K, Lee WC, Kato Y, Sawano Y, Yumoto F, Nagata K, Tanokura M. Crystallization and preliminary X-ray analysis of the YjgF/YER057c/UK114-family protein ST0811 from Sulfolobus tokodaii strain 7. Acta Crystallogr F 2005;61:828-830.
17. Leslie AGW. Jnt CCP4/ESF-EAMCB Newsl Protein Crystallogr 1992;26:27-33.
18. CCP4. The CCP4 Suite: programs for protein crystallography. Acta Crystallogr D 1994;50:760-763.
19. Collaborative Computational Project Number 4. The CCP4 suite: programs for protein crystallography. Acta Crystallogr D 1994;50:760-763.
20. Murshudov GN, Vagin AA, Dodson EJ. Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr D 1997;53:240-255.
21. McRee DE. XtalView/Xfit - a versatile program for manipulating atomic coordinates and electron density. J Struct Biol 1999;125:156-165.
22. Lamzin VS, Wilson KS. Automated refinement for protein crystallography. Methods Enzymol 1997;277:269-305.
23. Laskowski RA, MacArthur MW, Moss DS, Thornton JM. PRO-CHECK: a program to check the stereochemistry quality of protein structures. J Appl Crystallog 1993;26:283-291.
24. Guex N, Peitsch MC. SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis 1997;18:2714-2723.
25. Gouet P, Courcelle E, Stuart DI, Metoz F. ESPript: analysis of multiple sequence alignments in PostScript. Bioinformatics 1999; 14:305-308.
26. Nicholls A, Sharp KA, Honig B. Protein folding and association: insights from the interfacial and thermodynamic properties of hydrocarbons. Proteins 1991;11:281-296.
27. Matthews BW. Solvent content of protein crystals. J Mol Biol 1968;33:491-497.
28. Ramachandran GN, Sasisekharan V. Conformation of polypeptides and proteins. Adv Protein Chem 1968;23:283-438.
29. Ibrahim MA, Hamed RR, Rasched I. Purification and characterization of a novel acid-soluble nuclear protein from developing embryos of the camel tick Hyalomma dromedarii (Acarina: Ixodidae). Biochim Biophys Acta 1995;1249:79-85.
30. Schmiedeknecht G, Buchler C, Schmitz G. A bidirectional promoter connects the p14.5 gene to the gene for RNase P and RNase MRP protein subunit hPOP1. Biochem Biophys Res Commun 1997;241:59-67.