The hydrogenase gene cluster of Rhizobium leguminosarum bv. viciae contains an additional gene (hypX), which encodes a protein with sequence similarity to the N10-formyltetrahydrofolate-dependent enzyme family and is required for nickel-dependent hydrogenase processing and activity

Molecular and General Genetics

Volumn 252, Issue 3, 1996, Pages 237-248

  Rey, Luis ^a   Fernández, Domingo ^a   Brito, Belen ^a   Hernando, Yolanda ^a   Palacios, Jose Manuel ^a   Imperial, Juan ^b   Ruiz Argüeso, Tomás ^a  

^a UNIVERSIDAD POLITÉCNICA DE MADRID   (Spain)

^b CSIC   (Spain)

Author keywords

Hydrogenase; hypX; N10 formyl; Nickel; Rhizobium leguminosarum bv. viciae; Tetrahydrofolate

Indexed keywords

BACTERIAL ENZYME; HYDROGENASE;

AMINO TERMINAL SEQUENCE; ARTICLE; BACTERIAL GENE; BRADYRHIZOBIUM JAPONICUM; CARBOXY TERMINAL SEQUENCE; GENE CLUSTER; GENE INSERTION SEQUENCE; HYBRID GENE; NONHUMAN; OPEN READING FRAME; OPERON; PLASMID; PRIORITY JOURNAL; PROMOTER REGION; RHIZOBIUM LEGUMINOSARUM; SEQUENCE HOMOLOGY; STRUCTURAL GENE; WAUTERSIA EUTROPHA;

ALCALIGENES; BACTERIA (MICROORGANISMS); BRADYRHIZOBIUM JAPONICUM; PISUM SATIVUM; RHIZOBIUM; RHIZOBIUM LEGUMINOSARUM BV. VICIAE; SATIVUM; WAUTERSIA EUTROPHA;

EID: 0029841365     PISSN: 00268925     EISSN: None     Source Type: Journal    
DOI: 10.1007/BF02173769     Document Type: Article

References (50)

1. Almassy RJ, Janson CA, Kan C-C, Hostomska Z (1992) Structures of apo and complexed Escherichia coli glycinamide ribonucleotide transformylase. Proc Natl Acad Sci USA 89:6114-6118
2. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410
3. Babbitt PC, Kenyon GL, Martin BM, Charest H, Sylvestre M (1992) Ancestry of the 4-chlorobenzoate dehalogenase: analysis of amino acid sequence identities among families of acyl: adenyl ligases, enoyl-CoA hydratases, isomerases and acyl-CoA thioesterases. Biochemistry 31:5594-5604
4. Bagley KA, Duin EC, Roseboom W, Albracht SPJ, Woodruff WH (1995) Infrared detectable groups sense changes in charge density on the nickel center in hydrogenase from Chromatium vinosum. Biochemistry 34:5527-5535
5. Bairoch A, Bucher P (1994) Prosite: recent developments. Nucleic Acids Res 22:3583-3589
6. Brito B, Palacios JM, Hidalgo H, Imperial J, Ruiz-Argüeso T (1994) Nickel availability to pea (Pisum sativum L.) plants limits hydrogenase activity of Rhizobium leguminosarum bv. viciae bacteroids by affecting the processing of the hydrogenase structural subunits. J Bacteriol 176:5297-5303
7. Brito B, Palacios J, Imperial J, Ruiz-Argüeso T, Yang W, Bisseling T, Schmitt H, Kerl V, Bauer T, Kokotek W, Lotz W (1995) Temporal and spatial co-expression of hydrogenase and nitrogenase genes from Rhizobium leguminosarum bv. viciae in pea (Pisum sativum L.) root nodules. Mol Plant-Microbe Interact 8:235-240
8. Colbeau A, Richaud P, Toussaint B, Caballero JF, Elster C, Delphin C, Smith R, Chabert J, Vignais PM (1993). Organization of the genes necessary for hydrogenase expression in Rhodobacter capsulatus . Sequence analysis and identification of two hyp regulatory mutants. Mol Microbiol 8:15-29
9. Cook RJ, Lloyd RS, Wagner C (1991) Isolation and characterization of complementary DNA clones for rat liver N10-formyltetrahydrofolate dehydrogenase. J Biol Chem 266:4965-4973
10. Chen P, Schulze-Gahmen U, Stura EA, Inglese J, Johnson DL, Marolewski A, Benkovic SJ, Wilson IA (1992) Crystal structure of glycinamide ribonucleotide transformylase from Escherichia coli at 3.0 Å resolution: a target enzyme for chemotherapy. J Mol Biol 227:283-292
11. Dernedde J, Eitinger M, Friedrich B (1993) Analysis of a pleiotropic gene region involved in formation of catalytically active hydrogenases in Alcaligenes eutrophus H16. Arch Microbiol 159:545-553
12. Dunaway-Mariano D, Babbitt PC (1994) On the origins and functions of the enzymes of the 4-chlorobenzoate to 4-hydroxybenzoate converting pathway. Biodegradation 5: 259-276
13. Eberz G, Friedrich B (1991) Three trans-acting functions control hydrogenase synthesis in Alcaligenes eutrophus. J Bacteriol 173:1845-1854
14. Friedrich B, Schwartz E (1993) Molecular biology of hydrogen utilization in aerobic chemolithotrophs. Annu Rev Microbiol 47:351-383
15. Hernando Y, Palacios JM, Imperial J, Ruiz-Argüeso T (1995) The hypBFCDE operon from Rhizobium leguminosarum bv. viciae is expressed from an Fnr-type promoter that escapes mutagenesis of the fnrN gene. J Bacteriol 177:5661-5669
16. Hidalgo E, Leyva A, Ruiz-Argüeso T (1990) Nucleotide sequence of the hydrogenase structural genes from Rhizobium leguminosarum. Plant Mol Biol 15:367-370
17. Hidalgo E, Palacios JM, Murillo J, Ruiz-Argüeso T (1992) Nucleotide sequence and characterization of four additional genes of the hydrogenase structural operon from Rhizobium leguminosarum bv. viciae. J Bacteriol 174:4130-4139
18. Inglese J, Johnson DL, Shiau A, Smith JM, Benkovic SJ (1990a) Subcloning, characterization, and affinity labeling of Escherichia coli glycinamide ribonucleotide transformylase. Biochemistry 29:1436-1443
19. Inglese J, Smith JM, Benkovic SJ (1990b) Active-site mapping and site-specific mutagenesis of glycinamide ribonucleotide transformylase from Escherichia coli. Biochemistry 29:6678-6687
20. Jacobi A, Rossmann R, Böck A (1992) The hyp operon gene products are required for the maturation of catalytically active hydrogenase isoenzymes in Escherichia coli. Arch Microbiol 158:444-451
21. Kan C-C, Gehring MR, Nodes BR, Janson CA, Almassy RJ, Hostomska Z (1992) Heterologous expression and purification of active human phosphoribosylglycinamide formyltransferase as a single domain. J Prot Chem 11:467-473
22. Keen NT, Tamaki S, DK, Trollinger D (1988) Improved broad-host-range plasmids for DNA cloning in Gram-negative bacteria. Gene 70:191-197
23. Kim H, Maier RJ (1990) Transcriptional regulation of hydrogenase synthesis by nickel in Bradyrhizobium japonicum. J Biol Chem 265:18729-18732
24. Klein C, Chen P, Arevalo JH, Stura EA, Marolewski A, Warren MS, Benkovic SJ, Wilson IA (1995) Towards structure-based drug design: crystal structure of a multisubstrate adduct complex of glycinamide ribonucleotide transformylase at 1.96 Å resolution. J Mol Biol 249:153-175
25. Kortlüke C, Friedrich B (1992) Maturation of membrane-bound hydrogenase of Alcaligenes eutrophus H16. J Bacteriol 174: 6290-6293
26. Lenz G, Schwartz E, Dernedde J, Eitinger M, Friedrich B (1994) The Alcaligenes eutrophus H16 hoxX gene participates in hydrogenase regulation. J Bacteriol 176:4385-4393
27. Leyva A, Palacios JM, Mozo T, Ruiz-Argüeso T (1987) Cloning and characterization of hydrogen uptake genes from Rhizobium leguminosarum. J Bacteriol 169:4929-4934
28. Leyva A, Palacios JM, Murillo J, Ruiz-Argüeso T (1990) Genetic organization of the hydrogen uptake (hup) cluster from Rhizobium leguminosarum. J Bacteriol 172:1647-1655
29. Lie T, Soe-Agnie J, Muller G, Gsökdan D (1979) Environmental control of symbiotic nitrogen fixation: limitation to flexibility of the legume-Rhizobium system. In: Brougton W (ed). Proc Symp Soil Microbiol Plants Nutrition. University of Malaysia, Kuala Lumpur, pp 194-212
30. Lutz S, Jacobi A, Schlensog V, Bohm R, Sawers G, Böck A (1991) Molecular characterization of an operon (hyp) necessary for the activity of the three hydrogenase isoenzymes in Escherichia coli. Mol Microbiol 5:123-135.
31. Miller JH (1972) Experiments in molecular genetics. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York
32. Nakahigashi K, Inokuchi H (1990) Nucleotide sequence of the fadA and fadB genes from Escherichia coli. Nucleic Acids Res 18:4937
33. Palacios JM, Murillo J, Leyva A, Ruiz-Argüeso T (1990) Differential expression of hydrogen uptake (hup genes) in vegetative and symbiotic cells of Rhizobium leguminosarum. Mol Gen Genet 221:363-370
34. 2-enoyl coenzyme A isomerase activities. J Biol Chem 265:2446-2449
35. 2-uptake gene cluster from Rhizobium leguminosarum bv. viciae containing a rubredoxin-like gene and four additional open reading frames. J Mol Biol 228:998-1002
36. Rey L, Murillo J, Hernando Y, Hidalgo E, Cabrera E, Imperial J, Ruiz-Argüeso T (1993) Molecular analysis of a microaerobically induced operon required for hydrogenase synthesis in Rhizobium leguminosarum bv. viciae. Mol Microbiol 8:471-481
37. Rey L, Imperial J, Palacios JM, Ruiz-Argüeso T (1994) Purification of Rhizobium leguminosarum HypB, a nickel-binding protein required for hydrogenase synthesis. J Bacteriol 176:6066-6073
38. Richaud P, Culbeau A, Toussaint B, Vignais PM (1991) Identification and sequence analysis of the hupR1 gene which encodes a response regulator of the NtrC family, required for hydrogenase expression in Rhodobacter capsulatus. J Bacteriol 173:5928-5932
39. Ruiz-Argüeso T, Hanus FJ, Evans HJ (1978) Hydrogen production and uptake by pea nodules as affected by strains of Rhizobium leguminosarum. Arch Microbiol 116:113-118
40. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual (2nd edn). Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York
41. Short JM, Fernandez JM, Sorge JA, Huse WD (1988) λ ZAP: a bacteriophage λ expression vector with in vivo excision properties. Nucleic Acids Res 16:7583-7600
42. Smith PK, Krohn RI, Hermanson GT, Mallia AK, Gartner FH, Provenzano MD, Fujimoto EK, Goeke NM, Olso BJ, Klenk DC (1985) Measurement of protein using bicinchoninic acid. Anal Biochem 150:76-85
43. Spaink HP, Okker RJH, Wijffelman CA, Peers E, Lugtenberg BJJ (1987) Promoters in the regulation region of Rhizobium leguminosarum Sym plasmid pRL1J1. Plant Mol Biol 9:27-39
44. Stoker KW, Reijnders NM, Oltmann LF, Stouthamer AH (1989) Initial cloning and squencing of hydHG, an operon homologous to ntrBC and regulating the labile hydrogenase activity in Escherichia coli K-12. J Bacteriol 171:4448-4456
45. Studier FW, Moffatt BA (1986) Use of bacteriophage T7 RNA polymerase to direct selective high-level expression of cloned genes. J Mol Biol 189:113-130
46. Stults LW, Moshiri F, Maier RJ (1986) Aerobic purification of hydrogenase from Rhizobium japonicum by affinity chromatography. J Bacteriol 166:795-800
47. Van Soom C, Verreth C, Sampaio MJ, Vanderleyden J (1993) Identification of a potential transcriptional regulator of hydrogenase activity in free-living Bradyrhizobium japonicum strains. Mol Gen Genet 239:235-240
48. 2-uptake hydrogenases. Arch Microbiol 161:1-10
49. Volbeda A, Charon M, Piras C, Hatchikian E, Frey M, Fontecilla-Camps J (1995) Crystal structure of the nickel-iron hydrogenase from Desulfovibrio gigas. Nature 373:580-587
50. Wada K, Wada Y, Doi H, Ishibashi F, Gojorobi T, Ikemura T (1990) Codon usage tabulated from the GenBank genetic sequence data. Nucleic Acids Res 19:1981-1986