Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
twitter

Escherichia coli K-12 substr. MG1655 Polypeptide: RNase P protein component; processes tRNA, 4.5S RNA



Gene: rnpA Accession Numbers: EG10862 (EcoCyc), b3704, ECK3696

Regulation Summary Diagram: ?

Component of: RNase P

Summary:
RnpB RNA and RnpA protein together compose ribonuclease P (RNAse P) [Kole79, Kole81]. RNAse P acts in processing of 4.5S RNA [Bothwell76] and tRNA precursor molecules [Schedl75]. The RnpB RNA subunit alone exhibits catalytic activity toward tRNA precursors, but requires the protein subunit for efficient activity toward an 4.5S RNA precursor substrate [GuerrierTakada83, GuerrierTakada84, PeckMiller91]. RNAse P also exhibits activity toward C4 repressor RNA of bacteriophages P1 and P7, which may indicate a role for RNAse P in lysogeny/lysis regulation [Hartmann95], and toward CI RNA, which is involved in immunity to bacteriophage P4 [Briani02].

Activity of the RNAse P RNA and holoenzyme [Schedl75, Chang75, Bikoff75, Bikoff75a, Sakano75, Kirsebom89, Ilgen76, Burgin90, GuerrierTakada83, GuerrierTakada84, Orellana86, GuerrierTakada86, GuerrierTakada88, Vioque89, Surratt90, PeckMiller91, Kazakov91, Nomura88, Tallsjo93, Hardt95, Kufel94, Hartmann95, Steitz93, Warnecke96, Lazard98, Brannvall98, Hori01, Li02a, Kirsebom92, Mikkelsen99, Warnecke00, Pomeranz00, Busch00, Tanaka01, Eubank02, Kaye02, Persson03] and substrate interaction and specificity [Schmidt76, Bothwell76a, Bothwell76a, Thurlow91, Subbarao84, Shlyapnikov86, Kirsebom89, GuerrierTakada84a, Holm92, Green88a, McClain87, Burkard88, Reilly86, Baer88, Vold88, Burkard88a, GuerrierTakada88, Samuelsson88, GuerrierTakada89, Knap90, Surratt90a, Surratt90, Krupp91, Perreault92, Svard92, Schlegl92, Furdon83, Gurevitz83, Nolan93, Gaur93, Svard93, Kleineidam93, Kirsebom93, GuerrierTakada93, Hardt93, Hardt93a, Westhof94, LaGrandeur94, Oh94, Kirsebom94, Hardt95a, Meinnel95a, Yan94, Tallsjo96, Svard96, Kufel96, Gaur96, Liu96c, Kufel96a, Lazard98, Brannvall98, Park00, Brannvall02, Brannvall03, Hardt96, Harris97a, Christian98, Heide99, Siew99, Pascual99, Heide01, Heide01a, Hansen01a, Zahler03, Ando03, Ando03a, Tanaka03, Nagai03, Ando03b] have been examined in detail.

The association of RnpB RNA and RnpA protein has been examined [Vioque88, Baer89, Talbot94, Talbot94a, Gopalan97, Gopalan99, Kim00d, Biswas00, Sharkady01, Tsai03]. The enzyme complex exhibits 1:1 stoichiometry of RnpB RNA to RnpA protein [Talbot94].

RNAse P fractionates with the inner membrane [Srivastava91a]. Overproduced RNAse P enzyme is also localized to the inner membrane, whereas overproduced RnpB RNA is localized to the cytoplasm [Miczak91].

Structural properties of RnpA have been investigated [Gopalan97a]. The N terminus plays a role in the catalytic activity of RNAse P [Kim00d]. The RNR motif, centrally located in the RnpA protein, and the C-terminal region, are both required for interaction with the RnpB RNA [Kim00d]. RnpA is very basic [Hansen85]. The RnpA protein has been crystallized for structural studies [Choe03]. RnpA may interact with additional, non-RnpB RNAs [Lee02c].

An rnpA49 mutation results in a recessive heat sensitivity phenotype [Apirion80] and reduced RNAse P Kcat [Kirsebom89]. The rnp-241 also causes heat sensitivity [Hansen85]. An rnpA49 mutant harboring a ColE1-type episome exhibits buildup of RNA I-derived RNAs [Jung92]. R46H (C5A49) mutant protein shows defects in interaction with RnpB RNA [Baer89].

Mutations in RnpA affect RNAse P substrate specificity [Gopalan97]. The large-scale gene expression profile of an rnpA mutant has been evaluated [Li03d]. Mutations in RnbP RNA and in the RnpA protein subunit of RNAse P exhibit different effects on tRNA precursor processing [Kirsebom88].

The gene encoding the RNAse P protein subunit has been isolated from Bacillus subtilis [Ogasawara85], Borrelia burgdorferi [Old93], Synechocystis sp. PCC 6803 [Pascual96], Thermotoga maritima [Paul01a], Mycoplasma capricolum [Miyata93], Proteus mirabilis [Skovgaard90], Micrococcus luteus [Fujita90], Buchnera aphidicola [Lai92, Hassan96, Clark98], Streptomyces coelicolor [Calcutt92], Streptomyces bikiniensis var. zorbonensis [Morse92], Mycobacterium leprae [Fsihi96], Xanthomonas campestris pv. campestris 17 [Yen02], Thermus thermophilus [Feltens03], and Thermus filiformis [Feltens03]. The RnpA protein exhibits antigenic similarity to proteins from human cells and from Bacillus subtilis [Mamula89]. E. coli rnpA mutant phenotypes are functionally complemented by RnpA from Synechocystis sp. PCC 6803 [Pascual96] or Streptomyces bikiniensis var. zorbonensis [Morse92], or by Brevibacterium albidum arginine tRNA [Kim97].

Regulation has been described [Hansen85, Panagiotidis92].

Citations: [Ohnishi90, RiveraLeon95, Park98d, Baer90]

Gene Citations: [Hansen82]

Locations: cytosol

Map Position: [3,882,516 -> 3,882,875] (83.68 centisomes)
Length: 360 bp / 119 aa

Molecular Weight of Polypeptide: 13.789 kD (from nucleotide sequence), 14 kD (experimental)

Unification Links: ASAP:ABE-0012117 , CGSC:267 , DIP:DIP-36039N , EchoBASE:EB0855 , EcoGene:EG10862 , EcoliWiki:b3704 , Mint:MINT-1218365 , ModBase:P0A7Y8 , OU-Microarray:b3704 , PortEco:rnpA , PR:PRO_000023798 , Protein Model Portal:P0A7Y8 , RefSeq:NP_418159 , RegulonDB:EG10862 , SMR:P0A7Y8 , String:511145.b3704 , UniProt:P0A7Y8

Relationship Links: InterPro:IN-FAMILY:IPR000100 , InterPro:IN-FAMILY:IPR014721 , InterPro:IN-FAMILY:IPR020539 , InterPro:IN-FAMILY:IPR020568 , PDB:Structure:2LJP , Pfam:IN-FAMILY:PF00825 , ProDom:IN-FAMILY:PD003629 , Prosite:IN-FAMILY:PS00648

Gene-Reaction Schematic: ?

GO Terms:

Biological Process: GO:0001682 - tRNA 5'-leader removal Inferred from experiment [Chang75]
GO:0006396 - RNA processing Inferred from experiment [Bothwell76]
GO:0008033 - tRNA processing Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Hansen85]
GO:0090501 - RNA phosphodiester bond hydrolysis Inferred from experiment [Li94a]
GO:0090502 - RNA phosphodiester bond hydrolysis, endonucleolytic Inferred by computational analysis Inferred from experiment [Li94a, GOA01a, GOA01]
GO:0090305 - nucleic acid phosphodiester bond hydrolysis Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0004526 - ribonuclease P activity Inferred from experiment Inferred by computational analysis [GOA01a, GOA01, Li94a]
GO:0000049 - tRNA binding Inferred by computational analysis [GOA01]
GO:0003723 - RNA binding Inferred by computational analysis [UniProtGOA11]
GO:0004518 - nuclease activity Inferred by computational analysis [UniProtGOA11]
GO:0004519 - endonuclease activity Inferred by computational analysis [UniProtGOA11]
GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: information transfer RNA related RNA modification
metabolism degradation of macromolecules RNA

Essentiality data for rnpA knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB Lennox No 37 Aerobic 7   No [Baba06, Comment 1]

Credits:
Revised 25-May-2011 by Brito D


Subunit of: RNase P

Subunit composition of RNase P = [RnpB][RnpA]
         RnpB RNA; catalytic subunit of RNAse P = RnpB (extended summary available)
         RNase P protein component; processes tRNA, 4.5S RNA = RnpA (extended summary available)


Enzymatic reaction of: ribonuclease (RNase P)

EC Number: 3.1.26.5

a tRNA precursor with a 5' extension + H2O <=> an uncharged tRNA + a single-stranded RNA

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction of enzyme catalysis.

The reaction is irreversible in the direction shown.

In Pathways: tRNA processing


Enzymatic reaction of: ribonuclease (RNase P)

Synonyms: ribonuclease P, RNase P

EC Number: 3.1.26.5

a tRNA precursor with a 5' extension and a short 3' extension + H2O <=> a tRNA precursor with a short 3' extension + a single-stranded RNA

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction of enzyme catalysis.

The reaction is irreversible in the direction shown.

In Pathways: tRNA processing

Cofactors or Prosthetic Groups: Mg2+ [Kazakov91]


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
10/20/97 Gene b3704 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG10862; confirmed by SwissProt match.


References

Ando03: Ando T, Tanaka T, Kikuchi Y (2003). "Substrate shape specificity of E coli RNase P ribozyme is dependent on the concentration of magnesium ion." J Biochem (Tokyo) 133(4);445-51. PMID: 12761291

Ando03a: Ando T, Tanaka T, Kikuchi Y (2003). "Comparative analyses of hairpin substrate recognition by Escherichia coli and Bacillus subtilis ribonuclease P ribozymes." Biosci Biotechnol Biochem 67(8);1825-7. PMID: 12951523

Ando03b: Ando T, Tanaka T, Kikuchi Y (2003). "Bacterial ribonuclease P reaction is affected by substrate shape and magnesium ion concentration." Nucleic Acids Res Suppl (3);293-4. PMID: 14510496

Apirion80: Apirion D (1980). "Genetic mapping and some characterization of the rnpA49 mutation of Escherichia coli that affects the RNA-processing enzyme ribonuclease P." Genetics 94(2);291-9. PMID: 6156104

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

Baer88: Baer MF, Reilly RM, McCorkle GM, Hai TY, Altman S, RajBhandary UL (1988). "The recognition by RNase P of precursor tRNAs." J Biol Chem 263(5);2344-51. PMID: 3123492

Baer89: Baer MF, Wesolowski D, Altman S (1989). "Characterization in vitro of the defect in a temperature-sensitive mutant of the protein subunit of RNase P from Escherichia coli." J Bacteriol 171(12);6862-6. PMID: 2480345

Baer90: Baer MF, Arnez JG, Guerrier-Takada C, Vioque A, Altman S (1990). "Preparation and characterization of RNase P from Escherichia coli." Methods Enzymol 181;569-82. PMID: 2199767

Bikoff75: Bikoff EK, Gefter ML (1975). "In vitro synthesis of transfer RNA. I. Purification of required components." J Biol Chem 250(16);6240-7. PMID: 1099089

Bikoff75a: Bikoff EK, LaRue BF, Gefter ML (1975). "In vitro synthesis of transfer RNA. II. Identification of required enzymatic activities." J Biol Chem 250(16);6248-55. PMID: 1099090

Biswas00: Biswas R, Ledman DW, Fox RO, Altman S, Gopalan V (2000). "Mapping RNA-protein interactions in ribonuclease P from Escherichia coli using disulfide-linked EDTA-Fe." J Mol Biol 296(1);19-31. PMID: 10656815

Bothwell76: Bothwell AL, Garber RL, Altman S (1976). "Nucleotide sequence and in vitro processing of a precursor molecule to Escherichia coli 4.5 S RNA." J Biol Chem 251(23);7709-16. PMID: 794064

Bothwell76a: Bothwell AL, Stark BC, Altman S (1976). "Ribonuclease P substrate specificity: cleavage of a bacteriophage phi80-induced RNA." Proc Natl Acad Sci U S A 73(6);1912-6. PMID: 778851

Brannvall02: Brannvall M, Fredrik Pettersson BM, Kirsebom LA (2002). "The residue immediately upstream of the RNase P cleavage site is a positive determinant." Biochimie 84(8);693-703. PMID: 12457557

Brannvall03: Brannvall M, Pettersson BM, Kirsebom LA (2003). "Importance of the +73/294 interaction in Escherichia coli RNase P RNA substrate complexes for cleavage and metal ion coordination." J Mol Biol 325(4);697-709. PMID: 12507473

Brannvall98: Brannvall M, Mattsson JG, Svard SG, Kirsebom LA (1998). "RNase P RNA structure and cleavage reflect the primary structure of tRNA genes." J Mol Biol 283(4);771-83. PMID: 9790839

Briani02: Briani F, Del Vecchio E, Migliorini D, Hajnsdorf E, Regnier P, Ghisotti D, Deho G (2002). "RNase E and polyadenyl polymerase I are involved in maturation of CI RNA, the P4 phage immunity factor." J Mol Biol 318(2);321-31. PMID: 12051840

Burgin90: Burgin AB, Pace NR (1990). "Mapping the active site of ribonuclease P RNA using a substrate containing a photoaffinity agent." EMBO J 9(12);4111-8. PMID: 1701142

Burkard88: Burkard U, Soll D (1988). "The unusually long amino acid acceptor stem of Escherichia coli selenocysteine tRNA results from abnormal cleavage by RNase P." Nucleic Acids Res 16(24);11617-24. PMID: 3062578

Burkard88a: Burkard U, Willis I, Soll D (1988). "Processing of histidine transfer RNA precursors. Abnormal cleavage site for RNase P." J Biol Chem 263(5);2447-51. PMID: 3276688

Busch00: Busch S, Kirsebom LA, Notbohm H, Hartmann RK (2000). "Differential role of the intermolecular base-pairs G292-C(75) and G293-C(74) in the reaction catalyzed by Escherichia coli RNase P RNA." J Mol Biol 299(4);941-51. PMID: 10843849

Calcutt92: Calcutt MJ, Schmidt FJ (1992). "Conserved gene arrangement in the origin region of the Streptomyces coelicolor chromosome." J Bacteriol 174(10);3220-6. PMID: 1577691

Chang75: Chang S, Carbon J (1975). "The nucleotide sequence of a precursor to the glycine- and threonine-specific transfer ribonucleic acids of Escherichia coli." J Biol Chem 250(14);5542-55. PMID: 167017

Choe03: Choe HW, Jeong DG, Park JH, Schlesinger R, Labahn J, Hofmann KP, Buldt G (2003). "Preliminary X-ray characterization of the ribonuclease P (C5 protein) from Escherichia coli: expression, crystallization and cryoconditions." Acta Crystallogr D Biol Crystallogr 59(Pt 2);350-2. PMID: 12554950

Christian98: Christian EL, McPheeters DS, Harris ME (1998). "Identification of individual nucleotides in the bacterial ribonuclease P ribozyme adjacent to the pre-tRNA cleavage site by short-range photo-cross-linking." Biochemistry 37(50);17618-28. PMID: 9860878

Clark98: Clark MA, Baumann L, Baumann P (1998). "Sequence analysis of a 34.7-kb DNA segment from the genome of Buchnera aphidicola (endosymbiont of aphids) containing groEL, dnaA, the atp operon, gidA, and rho." Curr Microbiol 36(3);158-63. PMID: 9516544

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Eubank02: Eubank TD, Biswas R, Jovanovic M, Litovchick A, Lapidot A, Gopalan V (2002). "Inhibition of bacterial RNase P by aminoglycoside-arginine conjugates." FEBS Lett 511(1-3);107-12. PMID: 11821058

Feltens03: Feltens R, Gossringer M, Willkomm DK, Urlaub H, Hartmann RK (2003). "An unusual mechanism of bacterial gene expression revealed for the RNase P protein of Thermus strains." Proc Natl Acad Sci U S A 100(10);5724-9. PMID: 12719542

Fsihi96: Fsihi H, De Rossi E, Salazar L, Cantoni R, Labo M, Riccardi G, Takiff HE, Eiglmeier K, Bergh S, Cole ST (1996). "Gene arrangement and organization in a approximately 76 kb fragment encompassing the oriC region of the chromosome of Mycobacterium leprae." Microbiology 142 ( Pt 11);3147-61. PMID: 8969512

Fujita90: Fujita MQ, Yoshikawa H, Ogasawara N (1990). "Structure of the dnaA region of Micrococcus luteus: conservation and variations among eubacteria." Gene 93(1);73-8. PMID: 2172090

Furdon83: Furdon PJ, Guerrier-Takada C, Altman S (1983). "A G43 to U43 mutation in E. coli tRNAtyrsu3+ which affects processing by RNase P." Nucleic Acids Res 11(5);1491-505. PMID: 6298744

Gaur93: Gaur RK, Krupp G (1993). "Modification interference approach to detect ribose moieties important for the optimal activity of a ribozyme." Nucleic Acids Res 21(1);21-6. PMID: 8441616

Gaur96: Gaur RK, Hanne A, Conrad F, Kahle D, Krupp G (1996). "Differences in the interaction of Escherichia coli RNase P RNA with tRNAs containing a short or a long extra arm." RNA 2(7);674-81. PMID: 8756410

GOA01: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA01a: GOA, MGI (2001). "Gene Ontology annotation based on Enzyme Commission mapping." Genomics 74;121-128.

Gopalan97: Gopalan V, Baxevanis AD, Landsman D, Altman S (1997). "Analysis of the functional role of conserved residues in the protein subunit of ribonuclease P from Escherichia coli." J Mol Biol 267(4);818-29. PMID: 9135114

Gopalan97a: Gopalan V, Golbik R, Schreiber G, Fersht AR, Altman S (1997). "Fluorescence properties of a tryptophan residue in an aromatic core of the protein subunit of ribonuclease P from Escherichia coli." J Mol Biol 267(4);765-9. PMID: 9135109

Gopalan99: Gopalan V, Kuhne H, Biswas R, Li H, Brudvig GW, Altman S (1999). "Mapping RNA-protein interactions in ribonuclease P from Escherichia coli using electron paramagnetic resonance spectroscopy." Biochemistry 38(6);1705-14. PMID: 10026248

Green88a: Green CJ, Vold BS (1988). "Structural requirements for processing of synthetic tRNAHis precursors by the catalytic RNA component of RNase P." J Biol Chem 263(2);652-7. PMID: 2447080

GuerrierTakada83: Guerrier-Takada C, Gardiner K, Marsh T, Pace N, Altman S (1983). "The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme." Cell 35(3 Pt 2);849-57. PMID: 6197186

GuerrierTakada84: Guerrier-Takada C, Altman S (1984). "Catalytic activity of an RNA molecule prepared by transcription in vitro." Science 223(4633);285-6. PMID: 6199841

GuerrierTakada84a: Guerrier-Takada C, McClain WH, Altman S (1984). "Cleavage of tRNA precursors by the RNA subunit of E. coli ribonuclease P (M1 RNA) is influenced by 3'-proximal CCA in the substrates." Cell 38(1);219-24. PMID: 6380759

GuerrierTakada86: Guerrier-Takada C, Haydock K, Allen L, Altman S (1986). "Metal ion requirements and other aspects of the reaction catalyzed by M1 RNA, the RNA subunit of ribonuclease P from Escherichia coli." Biochemistry 25(7);1509-15. PMID: 2423112

GuerrierTakada88: Guerrier-Takada C, van Belkum A, Pleij CW, Altman S (1988). "Novel reactions of RNAase P with a tRNA-like structure in turnip yellow mosaic virus RNA." Cell 53(2);267-72. PMID: 3359488

GuerrierTakada89: Guerrier-Takada C, Lumelsky N, Altman S (1989). "Specific interactions in RNA enzyme-substrate complexes." Science 246(4937);1578-84. PMID: 2480641

GuerrierTakada93: Guerrier-Takada C, Altman S (1993). "A physical assay for and kinetic analysis of the interactions between M1 RNA and tRNA precursor substrates." Biochemistry 32(28);7152-61. PMID: 7688247

Gurevitz83: Gurevitz M, Apirion D (1983). "Interplay among processing and degradative enzymes and a precursor ribonucleic acid in the selective maturation and maintenance of ribonucleic acid molecules." Biochemistry 22(17);4000-5. PMID: 6351914

Hansen01a: Hansen A, Pfeiffer T, Zuleeg T, Limmer S, Ciesiolka J, Feltens R, Hartmann RK (2001). "Exploring the minimal substrate requirements for trans-cleavage by RNase P holoenzymes from Escherichia coli and Bacillus subtilis." Mol Microbiol 41(1);131-43. PMID: 11454206

Hansen82: Hansen FG, Hansen EB, Atlung T (1982). "The nucleotide sequence of the dnaA gene promoter and of the adjacent rpmH gene, coding for the ribosomal protein L34, of Escherichia coli." EMBO J 1982;1(9);1043-8. PMID: 6329723

Hansen85: Hansen FG, Hansen EB, Atlung T (1985). "Physical mapping and nucleotide sequence of the rnpA gene that encodes the protein component of ribonuclease P in Escherichia coli." Gene 38(1-3);85-93. PMID: 2415431

Hardt93: Hardt WD, Schlegl J, Erdmann VA, Hartmann RK (1993). "Gel retardation analysis of E. coli M1 RNA-tRNA complexes." Nucleic Acids Res 21(15);3521-7. PMID: 7688454

Hardt93a: Hardt WD, Schlegl J, Erdmann VA, Hartmann RK (1993). "Role of the D arm and the anticodon arm in tRNA recognition by eubacterial and eukaryotic RNase P enzymes." Biochemistry 32(48);13046-53. PMID: 7694652

Hardt95: Hardt WD, Schlegl J, Erdmann VA, Hartmann RK (1995). "Kinetics and thermodynamics of the RNase P RNA cleavage reaction: analysis of tRNA 3'-end variants." J Mol Biol 247(2);161-72. PMID: 7535857

Hardt95a: Hardt WD, Warnecke JM, Erdmann VA, Hartmann RK (1995). "Rp-phosphorothioate modifications in RNase P RNA that interfere with tRNA binding." EMBO J 14(12);2935-44. PMID: 7540978

Hardt96: Hardt WD, Erdmann VA, Hartmann RK (1996). "Rp-deoxy-phosphorothioate modification interference experiments identify 2'-OH groups in RNase P RNA that are crucial to tRNA binding." RNA 2(12);1189-98. PMID: 8972769

Harris97a: Harris ME, Kazantsev AV, Chen JL, Pace NR (1997). "Analysis of the tertiary structure of the ribonuclease P ribozyme-substrate complex by site-specific photoaffinity crosslinking." RNA 3(6);561-76. PMID: 9174092

Hartmann95: Hartmann RK, Heinrich J, Schlegl J, Schuster H (1995). "Precursor of C4 antisense RNA of bacteriophages P1 and P7 is a substrate for RNase P of Escherichia coli." Proc Natl Acad Sci U S A 92(13);5822-6. PMID: 7597035

Hassan96: Hassan AK, Moriya S, Baumann P, Yoshikawa H, Ogasawara N (1996). "Structure of the dnaA region of the endosymbiont, Buchnera aphidicola, of aphid Schizaphis graminum." DNA Res 3(6);415-9. PMID: 9097044

Heide01: Heide C, Busch S, Feltens R, Hartmann RK (2001). "Distinct modes of mature and precursor tRNA binding to Escherichia coli RNase P RNA revealed by NAIM analyses." RNA 7(4);553-64. PMID: 11345434

Heide01a: Heide C, Feltens R, Hartmann RK (2001). "Purine N7 groups that are crucial to the interaction of Escherichia coli rnase P RNA with tRNA." RNA 7(7);958-68. PMID: 11453068

Heide99: Heide C, Pfeiffer T, Nolan JM, Hartmann RK (1999). "Guanosine 2-NH2 groups of Escherichia coli RNase P RNA involved in intramolecular tertiary contacts and direct interactions with tRNA." RNA 5(1);102-16. PMID: 9917070

Holm92: Holm PS, Krupp G (1992). "The acceptor stem in pre-tRNAs determines the cleavage specificity of RNase P." Nucleic Acids Res 20(3);421-3. PMID: 1371348

Hori01: Hori Y, Bichenkova EV, Wilton AN, El-Attug MN, Sadat-Ebrahimi S, Tanaka T, Kikuchi Y, Araki M, Sugiura Y, Douglas KT (2001). "Synthetic inhibitors of the processing of pretransfer RNA by the ribonuclease P ribozyme: enzyme inhibitors which act by binding to substrate." Biochemistry 40(3);603-8. PMID: 11170376

Ilgen76: Ilgen C, Kirk LL, Carbon J (1976). "Isolation and characterization of large transfer ribonucleic acid precursors from Escherichia coli." J Biol Chem 251(4);922-9. PMID: 765341

Jung92: Jung YH, Park I, Lee Y (1992). "Alteration of RNA I metabolism in a temperature-sensitive Escherichia coli rnpA mutant strain." Biochem Biophys Res Commun 186(3);1463-70. PMID: 1380803

Kaye02: Kaye NM, Christian EL, Harris ME (2002). "NAIM and site-specific functional group modification analysis of RNase P RNA: magnesium dependent structure within the conserved P1-P4 multihelix junction contributes to catalysis." Biochemistry 41(14);4533-45. PMID: 11926814

Kazakov91: Kazakov S, Altman S (1991). "Site-specific cleavage by metal ion cofactors and inhibitors of M1 RNA, the catalytic subunit of RNase P from Escherichia coli." Proc Natl Acad Sci U S A 88(20);9193-7. PMID: 1718000

Kim00d: Kim M, Hyun Park B, Lee Y (2000). "Effects of terminal deletions in C5 protein on promoting RNase P catalysis." Biochem Biophys Res Commun 268(1);118-23. PMID: 10652223

Kim97: Kim MS, Kim S, Kim SC, Lee YM, Jeon ES, Park CU, Lee Y (1997). "The Brevibacterium albidum gene encoding the arginine tRNACCG complements the growth defect of an Escherichia coli strain carrying a thermosensitive mutation in the rnpA gene at the nonpermissive temperature." Mol Gen Genet 254(4);464-8. PMID: 9180701

Kirsebom88: Kirsebom LA, Baer MF, Altman S (1988). "Differential effects of mutations in the protein and RNA moieties of RNase P on the efficiency of suppression by various tRNA suppressors." J Mol Biol 204(4);879-88. PMID: 2464697

Kirsebom89: Kirsebom LA, Altman S (1989). "Reaction in vitro of some mutants of RNase P with wild-type and temperature-sensitive substrates." J Mol Biol 207(4);837-40. PMID: 2474662

Kirsebom92: Kirsebom LA, Svard SG (1992). "The kinetics and specificity of cleavage by RNase P is mainly dependent on the structure of the amino acid acceptor stem." Nucleic Acids Res 20(3);425-32. PMID: 1371349

Kirsebom93: Kirsebom LA, Svard SG (1993). "Identification of a region within M1 RNA of Escherichia coli RNase P important for the location of the cleavage site on a wild-type tRNA precursor." J Mol Biol 231(3);594-604. PMID: 7685824

Kirsebom94: Kirsebom LA, Svard SG (1994). "Base pairing between Escherichia coli RNase P RNA and its substrate." EMBO J 13(20);4870-6. PMID: 7525271

Kleineidam93: Kleineidam RG, Pitulle C, Sproat B, Krupp G (1993). "Efficient cleavage of pre-tRNAs by E. coli RNAse P RNA requires the 2'-hydroxyl of the ribose at the cleavage site." Nucleic Acids Res 21(5);1097-101. PMID: 7681942

Knap90: Knap AK, Wesolowski D, Altman S (1990). "Protection from chemical modification of nucleotides in complexes of M1 RNA, the catalytic subunit of RNase P from E coli, and tRNA precursors." Biochimie 72(11);779-90. PMID: 1707681

Kole79: Kole R, Altman S (1979). "Reconstitution of RNase P activity from inactive RNA and protein." Proc Natl Acad Sci U S A 76(8);3795-9. PMID: 386349

Kole81: Kole R, Altman S (1981). "Properties of purified ribonuclease P from Escherichia coli." Biochemistry 20(7);1902-6. PMID: 6164392

Krupp91: Krupp G, Kahle D, Vogt T, Char S (1991). "Sequence changes in both flanking sequences of a pre-tRNA influence the cleavage specificity of RNase P." J Mol Biol 217(4);637-48. PMID: 1706437

Kufel94: Kufel J, Kirsebom LA (1994). "Cleavage site selection by M1 RNA the catalytic subunit of Escherichia coli RNase P, is influenced by pH." J Mol Biol 244(5);511-21. PMID: 7527466

Kufel96: Kufel J, Kirsebom LA (1996). "Different cleavage sites are aligned differently in the active site of M1 RNA, the catalytic subunit of Escherichia coli RNase P." Proc Natl Acad Sci U S A 93(12);6085-90. PMID: 8650223

Kufel96a: Kufel J, Kirsebom LA (1996). "Residues in Escherichia coli RNase P RNA important for cleavage site selection and divalent metal ion binding." J Mol Biol 263(5);685-98. PMID: 8947568

LaGrandeur94: LaGrandeur TE, Huttenhofer A, Noller HF, Pace NR (1994). "Phylogenetic comparative chemical footprint analysis of the interaction between ribonuclease P RNA and tRNA." EMBO J 13(17);3945-52. PMID: 7521296

Lai92: Lai CY, Baumann P (1992). "Genetic analysis of an aphid endosymbiont DNA fragment homologous to the rnpA-rpmH-dnaA-dnaN-gyrB region of eubacteria." Gene 113(2);175-81. PMID: 1572539

Lazard98: Lazard M, Meinnel T (1998). "Role of base G-2 of pre-tRNAfMet in cleavage site selection by Escherichia coli RNase P in vitro." Biochemistry 37(17);6041-9. PMID: 9558342

Lee02c: Lee JH, Kim H, Ko J, Lee Y (2002). "Interaction of C5 protein with RNA aptamers selected by SELEX." Nucleic Acids Res 30(24);5360-8. PMID: 12490703

Li02a: Li Z, Deutscher MP (2002). "RNase E plays an essential role in the maturation of Escherichia coli tRNA precursors." RNA 8(1);97-109. PMID: 11871663

Li03d: Li Y, Cole K, Altman S (2003). "The effect of a single, temperature-sensitive mutation on global gene expression in Escherichia coli." RNA 9(5);518-32. PMID: 12702811

Li94a: Li Z, Deutscher MP (1994). "The role of individual exoribonucleases in processing at the 3' end of Escherichia coli tRNA precursors." J Biol Chem 269(8);6064-71. PMID: 7509797

Liu96c: Liu F, Altman S (1996). "Requirements for cleavage by a modified RNase P of a small model substrate." Nucleic Acids Res 24(14);2690-6. PMID: 8758997

Mamula89: Mamula MJ, Baer M, Craft J, Altman S (1989). "An immunological determinant of RNase P protein is conserved between Escherichia coli and humans." Proc Natl Acad Sci U S A 86(22);8717-21. PMID: 2479027

McClain87: McClain WH, Guerrier-Takada C, Altman S (1987). "Model substrates for an RNA enzyme." Science 238(4826);527-30. PMID: 2443980

Meinnel95a: Meinnel T, Blanquet S (1995). "Maturation of pre-tRNA(fMet) by Escherichia coli RNase P is specified by a guanosine of the 5'-flanking sequence." J Biol Chem 270(26);15908-14. PMID: 7797595

Miczak91: Miczak A, Srivastava RA, Apirion D (1991). "Location of the RNA-processing enzymes RNase III, RNase E and RNase P in the Escherichia coli cell." Mol Microbiol 5(7);1801-10. PMID: 1943711

Mikkelsen99: Mikkelsen NE, Brannvall M, Virtanen A, Kirsebom LA (1999). "Inhibition of RNase P RNA cleavage by aminoglycosides." Proc Natl Acad Sci U S A 96(11);6155-60. PMID: 10339557

Miyata93: Miyata M, Sano K, Okada R, Fukumura T (1993). "Mapping of replication initiation site in Mycoplasma capricolum genome by two-dimensional gel-electrophoretic analysis." Nucleic Acids Res 21(20);4816-23. PMID: 8233831

Morse92: Morse DP, Schmidt FJ (1992). "Sequences encoding the protein and RNA components of ribonuclease P from Streptomyces bikiniensis var. zorbonensis." Gene 117(1);61-6. PMID: 1379566

Nagai03: Nagai Y, Ando T, Tanaka T, Kikuchi Y (2003). "Recognition of tRNA bottom half by bacterial ribonuclease P." Nucleic Acids Res Suppl (3);281-2. PMID: 14510490

Nolan93: Nolan JM, Burke DH, Pace NR (1993). "Circularly permuted tRNAs as specific photoaffinity probes of ribonuclease P RNA structure." Science 261(5122);762-5. PMID: 7688143

Nomura88: Nomura T, Ishihama A (1988). "A novel function of RNase P from Escherichia coli: processing of a suppressor tRNA precursor." EMBO J 7(11);3539-45. PMID: 3061798

Ogasawara85: Ogasawara N, Moriya S, von Meyenburg K, Hansen FG, Yoshikawa H (1985). "Conservation of genes and their organization in the chromosomal replication origin region of Bacillus subtilis and Escherichia coli." EMBO J 4(12);3345-50. PMID: 3004954

Oh94: Oh BK, Pace NR (1994). "Interaction of the 3'-end of tRNA with ribonuclease P RNA." Nucleic Acids Res 22(20);4087-94. PMID: 7524035

Ohnishi90: Ohnishi K (1990). "Possible evolutionary origin of primitive protein-encoding mRNAs as a virusoid-like ribo-organism." Nucleic Acids Symp Ser (22);39-40. PMID: 1714569

Old93: Old IG, Margarita D, Saint Girons I (1993). "Unique genetic arrangement in the dnaA region of the Borrelia burgdorferi linear chromosome: nucleotide sequence of the dnaA gene." FEMS Microbiol Lett 111(1);109-14. PMID: 8359672

Orellana86: Orellana O, Cooley L, Soll D (1986). "The additional guanylate at the 5' terminus of Escherichia coli tRNAHis is the result of unusual processing by RNase P." Mol Cell Biol 6(2);525-9. PMID: 3023854

Panagiotidis92: Panagiotidis CA, Drainas D, Huang SC (1992). "Modulation of ribonuclease P expression in Escherichia coli by polyamines." Int J Biochem 24(10);1625-31. PMID: 1397490

Park00: Park BH, Lee JH, Kim M, Lee Y (2000). "Effects of C5 protein on Escherichia coli RNase P catalysis with a precursor tRNA(Phe) bearing a single mismatch in the acceptor stem." Biochem Biophys Res Commun 268(1);136-40. PMID: 10652227

Park98d: Park BH, Choi YN, Park JW, Sim S, Gil MC, Kim S, Kim M, Lee Y (1998). "Expression of C5 protein, the protein component of Escherichia coli RNase P, from the tac promoter." Mol Cells 8(1);96-100. PMID: 9571638

Pascual96: Pascual A, Vioque A (1996). "Cloning, purification and characterization of the protein subunit of ribonuclease P from the cyanobacterium Synechocystis sp. PCC 6803." Eur J Biochem 241(1);17-24. PMID: 8898883

Pascual99: Pascual A, Vioque A (1999). "Substrate binding and catalysis by ribonuclease P from cyanobacteria and Escherichia coli are affected differently by the 3' terminal CCA in tRNA precursors." Proc Natl Acad Sci U S A 96(12);6672-7. PMID: 10359770

Paul01a: Paul R, Lazarev D, Altman S (2001). "Characterization of RNase P from Thermotoga maritima." Nucleic Acids Res 29(4);880-5. PMID: 11160919

PeckMiller91: Peck-Miller KA, Altman S (1991). "Kinetics of the processing of the precursor to 4.5 S RNA, a naturally occurring substrate for RNase P from Escherichia coli." J Mol Biol 221(1);1-5. PMID: 1717693

Perreault92: Perreault JP, Altman S (1992). "Important 2'-hydroxyl groups in model substrates for M1 RNA, the catalytic RNA subunit of RNase P from Escherichia coli." J Mol Biol 226(2);399-409. PMID: 1379304

Persson03: Persson T, Cuzic S, Hartmann RK (2003). "Catalysis by RNase P RNA: unique features and unprecedented active site plasticity." J Biol Chem 278(44):43394-401. PMID: 12904300

Pomeranz00: Pomeranz Krummel DA, Kent O, MacMillan AM, Altman S (2000). "Evidence for helical unwinding of an RNA substrate by the RNA enzyme RNase P: use of an interstrand disulfide crosslink in substrate." J Mol Biol 295(5);1113-8. PMID: 10653690

Reilly86: Reilly RM, RajBhandary UL (1986). "A single mutation in loop IV of Escherichia coli SuIII tRNA blocks processing at both 5'- and 3'-ends of the precursor tRNA." J Biol Chem 261(6);2928-35. PMID: 3081499

RiveraLeon95: Rivera-Leon R, Green CJ, Vold BS (1995). "High-level expression of soluble recombinant RNase P protein from Escherichia coli." J Bacteriol 177(9);2564-6. PMID: 7730292

Sakano75: Sakano H, Shimura Y (1975). "Sequential processing of precursor tRNA molecules in Escherichia coli." Proc Natl Acad Sci U S A 72(9);3369-73. PMID: 1103144

Samuelsson88: Samuelsson T, Boren T, Johansen TI, Lustig F (1988). "Properties of a transfer RNA lacking modified nucleosides." J Biol Chem 263(27);13692-9. PMID: 2843531

Schedl75: Schedl P, Primakoff P, Roberts J (1975). "Processing of E. coli tRNA precursors." Brookhaven Symp Biol (26);53-76. PMID: 1104100

Schlegl92: Schlegl J, Furste JP, Bald R, Erdmann VA, Hartmann RK (1992). "Cleavage efficiencies of model substrates for ribonuclease P from Escherichia coli and Thermus thermophilus." Nucleic Acids Res 20(22);5963-70. PMID: 1281315

Schmidt76: Schmidt FJ, Seidman JG, Bock RM (1976). "Transfer ribonucleic acid biosynthesis. Substrate specificity of ribonuclease P." J Biol Chem 251(8);2440-5. PMID: 770465

Sharkady01: Sharkady SM, Nolan JM (2001). "Bacterial ribonuclease P holoenzyme crosslinking analysis reveals protein interaction sites on the RNA subunit." Nucleic Acids Res 29(18);3848-56. PMID: 11557817

Shlyapnikov86: Shlyapnikov MG, Ksenzenko VN, Kryukov VM, Bayev AA (1986). "Nucleotide sequence of the bacteriophage T5 DNA fragment which contains the gene for tRNAAsp." Eur J Biochem 156(2);285-9. PMID: 3516691

Siew99: Siew D, Zahler NH, Cassano AG, Strobel SA, Harris ME (1999). "Identification of adenosine functional groups involved in substrate binding by the ribonuclease P ribozyme." Biochemistry 38(6);1873-83. PMID: 10026268

Skovgaard90: Skovgaard O (1990). "Nucleotide sequence of a Proteus mirabilis DNA fragment homologous to the 60K-rnpA-rpmH-dnaA-dnaN-recF-gyrB region of Escherichia coli." Gene 93(1);27-34. PMID: 2172087

Srivastava91a: Srivastava RA, Srivastava N, Apirion D (1991). "RNA processing enzymes RNase III, E and P in Escherichia coli are not ribosomal enzymes." Biochem Int 25(1);57-65. PMID: 1722976

Steitz93: Steitz TA, Steitz JA (1993). "A general two-metal-ion mechanism for catalytic RNA." Proc Natl Acad Sci U S A 90(14);6498-502. PMID: 8341661

Subbarao84: Subbarao MN, Makam H, Apirion D (1984). "A site in a tRNA precursor that can be processed by the whole RNase P enzyme but not by the RNA alone." J Biol Chem 259(23);14339-42. PMID: 6209276

Surratt90: Surratt CK, Carter BJ, Payne RC, Hecht SM (1990). "Metal ion and substrate structure dependence of the processing of tRNA precursors by RNase P and M1 RNA." J Biol Chem 265(36);22513-9. PMID: 2266141

Surratt90a: Surratt CK, Lesnikowski Z, Schifman AL, Schmidt FJ, Hecht SM (1990). "Construction and processing of transfer RNA precursor models." J Biol Chem 265(36);22506-12. PMID: 2266140

Svard92: Svard SG, Kirsebom LA (1992). "Several regions of a tRNA precursor determine the Escherichia coli RNase P cleavage site." J Mol Biol 227(4);1019-31. PMID: 1279179

Svard93: Svard SG, Kirsebom LA (1993). "Determinants of Escherichia coli RNase P cleavage site selection: a detailed in vitro and in vivo analysis." Nucleic Acids Res 21(3);427-34. PMID: 7680119

Svard96: Svard SG, Kagardt U, Kirsebom LA (1996). "Phylogenetic comparative mutational analysis of the base-pairing between RNase P RNA and its substrate." RNA 2(5);463-72. PMID: 8665413

Talbot94: Talbot SJ, Altman S (1994). "Gel retardation analysis of the interaction between C5 protein and M1 RNA in the formation of the ribonuclease P holoenzyme from Escherichia coli." Biochemistry 33(6);1399-405. PMID: 8312258

Talbot94a: Talbot SJ, Altman S (1994). "Kinetic and thermodynamic analysis of RNA-protein interactions in the RNase P holoenzyme from Escherichia coli." Biochemistry 33(6);1406-11. PMID: 8312259

Tallsjo93: Tallsjo A, Kirsebom LA (1993). "Product release is a rate-limiting step during cleavage by the catalytic RNA subunit of Escherichia coli RNase P." Nucleic Acids Res 21(1);51-7. PMID: 7680114

Tallsjo96: Tallsjo A, Kufel J, Kirsebom LA (1996). "Interaction between Escherichia coli RNase P RNA and the discriminator base results in slow product release." RNA 2(4);299-307. PMID: 8634910

Tanaka01: Tanaka T, Baba H, Hori Y, Kikuchi Y (2001). "Guide DNA technique reveals that the protein component of bacterial ribonuclease P is a modifier for substrate recognition." FEBS Lett 491(1-2);94-8. PMID: 11226427

Tanaka03: Tanaka T, Ando T, Kikuchi Y (2003). "Revisiting the substrate recognition of bacterial ribonuclease P: in the view of the recognition of the base N73 in the substrate." Nucleic Acids Res Suppl (3);275-6. PMID: 14510487

Thurlow91: Thurlow DL, Shilowski D, Marsh TL (1991). "Nucleotides in precursor tRNAs that are required intact for catalysis by RNase P RNAs." Nucleic Acids Res 19(4);885-91. PMID: 1901990

Tsai03: Tsai HY, Masquida B, Biswas R, Westhof E, Gopalan V (2003). "Molecular modeling of the three-dimensional structure of the bacterial RNase P holoenzyme." J Mol Biol 325(4);661-75. PMID: 12507471

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Vioque88: Vioque A, Arnez J, Altman S (1988). "Protein-RNA interactions in the RNase P holoenzyme from Escherichia coli." J Mol Biol 202(4);835-48. PMID: 2459398

Vioque89: Vioque A (1989). "Protein synthesis inhibitors and catalytic RNA. Effect of puromycin on tRNA precursor processing by the RNA component of Escherichia coli RNase P." FEBS Lett 246(1-2);137-9. PMID: 2468523

Vold88: Vold BS, Green CJ (1988). "Processing of a multimeric tRNA precursor from Bacillus subtilis by the RNA component of RNase P." J Biol Chem 263(28);14390-6. PMID: 3139656

Warnecke00: Warnecke JM, Sontheimer EJ, Piccirilli JA, Hartmann RK (2000). "Active site constraints in the hydrolysis reaction catalyzed by bacterial RNase P: analysis of precursor tRNAs with a single 3'-S-phosphorothiolate internucleotide linkage." Nucleic Acids Res 28(3);720-7. PMID: 10637323

Warnecke96: Warnecke JM, Furste JP, Hardt WD, Erdmann VA, Hartmann RK (1996). "Ribonuclease P (RNase P) RNA is converted to a Cd(2+)-ribozyme by a single Rp-phosphorothioate modification in the precursor tRNA at the RNase P cleavage site." Proc Natl Acad Sci U S A 93(17);8924-8. PMID: 8799129

Westhof94: Westhof E, Altman S (1994). "Three-dimensional working model of M1 RNA, the catalytic RNA subunit of ribonuclease P from Escherichia coli." Proc Natl Acad Sci U S A 91(11);5133-7. PMID: 7515186

Yan94: Yan W, Francklyn C (1994). "Cytosine 73 is a discriminator nucleotide in vivo for histidyl-tRNA in Escherichia coli." J Biol Chem 269(13);10022-7. PMID: 8144499

Yen02: Yen MR, Lin NT, Hung CH, Choy KT, Weng SF, Tseng YH (2002). "oriC region and replication termination site, dif, of the Xanthomonas campestris pv. campestris 17 chromosome." Appl Environ Microbiol 68(6);2924-33. PMID: 12039751

Zahler03: Zahler NH, Christian EL, Harris ME (2003). "Recognition of the 5' leader of pre-tRNA substrates by the active site of ribonuclease P." RNA 9(6);734-45. PMID: 12756331


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Wed Nov 26, 2014, biocyc13.