Reviewed, UniProtKB/Swiss-Prot P28619 (RNPH_BACSU)

Names and origin

Protein names

Recommended name:
    Ribonuclease PH
      Short name=RNase PH
    EC=2.7.7.56
Alternative name(s):
    tRNA nucleotidyltransferase

Gene names

Name:	rph
Ordered Locus Names:	BSU28370

Organism

Bacillus subtilis [Complete proteome] [HAMAP]

Taxonomic identifier

1423 [NCBI]

Taxonomic lineage

Bacteria › Firmicutes › Bacillales › Bacillaceae › Bacillus

Protein attributes

Sequence length	245 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates. HAMAP MF_00564
Catalytic activity	tRNA(n+1) + phosphate = tRNA(n) + a nucleoside diphosphate. HAMAP MF_00564
Sequence similarities	Belongs to the RNase PH family.

Ontologies

Keywords
Biological process	tRNA processing
Molecular function	Nucleotidyltransferase Transferase
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Biological process	tRNA processing Inferred from electronic annotation. Source: HAMAP
Molecular function	3'-5'-exoribonuclease activity Inferred from electronic annotation. Source: InterPro tRNA binding Inferred from electronic annotation. Source: HAMAP tRNA nucleotidyltransferase activity Inferred from electronic annotation. Source: HAMAP tRNA-specific ribonuclease activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 245

245

Ribonuclease PH HAMAP MF_00564

PRO_0000139869

Secondary structure

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245

Helix Strand Turn

Details...

Beta strand

14 – 17

4

Beta strand

28 – 32

5

Beta strand

35 – 45

11

Helix

49 – 51

3

Beta strand

58 – 64

7

Helix

86 – 100

15

Helix

104 – 107

4

Beta strand

111 – 120

10

Helix

125 – 146

22

Beta strand

149 – 152

4

Beta strand

159 – 167

9

Turn

168 – 170

3

Beta strand

171 – 175

5

Helix

178 – 183

6

Beta strand

185 – 193

9

Beta strand

198 – 207

10

Helix

212 – 236

25

Helix

238 – 240

3

Sequences

	Sequence		Length	Mass (Da)
	P28619-1 [UniParc]. Last modified December 1, 1992. Version 1. Checksum: D180DB086A5316B8	FASTA	245	26,681
	10 20 30 40 50 60 MRHDGRQHDE LRPITFDLDF ISHPEGSVLI TAGNTKVICN ASVEDRVPPF LRGGGKGWIT 70 80 90 100 110 120 AEYSMLPRAT NQRTIRESSK GKISGRTMEI QRLIGRALRA VVDLEKLGER TIWIDCDVIQ 130 140 150 160 170 180 ADGGTRTASI TGAFLAMAIA IGKLIKAGTI KTNPITDFLA AISVGIDKEQ GILLDLNYEE 190 200 210 220 230 240 DSSAEVDMNV IMTGSGRFVE LQGTGEEATF SREDLNGLLG LAEKGIQELI DKQKEVLGDS LPELK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Identification of the rph (RNase PH) gene of Bacillus subtilis: evidence for suppression of cold-sensitive mutations in Escherichia coli." Craven M.G., Henner D.J., Alessi D., Schauer A.T., Ost K.A., Deutscher M.P., Friedman D.I. J. Bacteriol. 174:4727-4735(1992) [PubMed: 1624460] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The dnaB-pheA (256 degrees-240 degrees) region of the Bacillus subtilis chromosome containing genes responsible for stress responses, the utilization of plant cell walls and primary metabolism." Wipat A., Carter N., Brignell C.S., Guy J.B., Piper K., Sanders J., Emmerson P.T., Harwood C.R. Microbiology 142:3067-3078(1996) [PubMed: 8969504] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: 168.
[3]	"The complete genome sequence of the Gram-positive bacterium Bacillus subtilis." Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V. , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A. Nature 390:249-256(1997) [PubMed: 9384377] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: 168.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

M85163 Genomic DNA. Translation: AAA22705.1.
Z75208 Genomic DNA. Translation: CAA99554.1.
AL009126 Genomic DNA. Translation: CAB14797.1.

PIR

A44914.

RefSeq

NP_390715.1.

3D structure databases

PDBPDBe

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1OYP	X-ray	2.76	A/B/C/D/E/F	1-245	[»]
1OYR	X-ray	3.10	A/B/C/D/E/F	1-245	[»]
1OYS	X-ray	2.40	A	1-245	[»]

ModBase

Search...

Genome annotation databases

GeneID

937463.

GenomeReviews

Gene locus BSU28370 in contig AL009126_GR.

KEGG

bsu:BSU28370.

NMPDR

fig|224308.1.peg.2840.

Organism-specific databases

SubtiList

BG10357. rph. [Micado]

CMR

Search...

Phylogenomic databases

HOGENOM

P28619.

OMA

P28619. YAMLPRA.

Enzyme and pathway databases

BioCyc

BSUB224308:BSU2833-MON.

BRENDA

2.7.7.56. 150.

Family and domain databases

HAMAP

MF_00564.
[Tree]

InterPro

IPR001247. ExoRNase_PH_dom1.
IPR015847. ExoRNase_PH_dom2.
IPR018336. Ribonuclease-PH_CS.
IPR002381. RNase_PH_bac-type.
[Graphical view]

Pfam

PF01138. RNase_PH. 1 hit.
PF03725. RNase_PH_C. 1 hit.
[Graphical view]

TIGRFAMs

TIGR01966. RNasePH. 1 hit.

PROSITE

PS01277. RIBONUCLEASE_PH. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RNPH_BACSU

Accession

Primary (citable) accession number: P28619

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 1, 1992
Last sequence update:	December 1, 1992
Last modified:	June 16, 2009
This is version 66 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HAMAP (High-quality Automated and Manual Annotation of microbial Proteomes)