P0CG19 (RNPH_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Inactive ribonuclease PH
Short name=RNase PH
EC=2.7.7.56

Alternative name(s):
tRNA nucleotidyltransferase

Gene names

Name:	rph
Ordered Locus Names:	b3643, JW3618

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia › Escherichia coli

Protein attributes

Sequence length	228 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

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. Also acts to regulate the attenuation of PyrE. HAMAP-Rule MF_00564
Catalytic activity	tRNA(n+1) + phosphate = tRNA(n) + a nucleoside diphosphate. HAMAP-Rule MF_00564
Subunit structure	Homodimer By similarity. HAMAP-Rule MF_00564
Miscellaneous	The gene in K12 strains MG1655 and W3110 (and also other derivatives of K12 W1485) has a frameshift mutation that leads to loss of activity, although the protein is translated. Thus in those strains rph is an expressed but non-functional pseudogene. For the functional protein without the frameshift mutation see AC P0CG18. HAMAP-Rule MF_00564
Sequence similarities	Belongs to the RNase PH family.

Ontologies

Keywords
Biological process	tRNA processing
Molecular function	Nucleotidyltransferase Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	tRNA 3'-end processing Inferred from direct assay PubMed 2455297. Source: EcoCyc
Molecular_function	exonuclease activity Inferred from direct assay PubMed 7509797. Source: EcoCyc tRNA binding Inferred from electronic annotation. Source: InterPro tRNA nucleotidyltransferase activity Inferred from direct assay PubMed 2455297. Source: EcoCyc 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 – 228	228	Inactive ribonuclease PH HAMAP-Rule MF_00564		PRO_0000139889

Sequences

	Sequence		Length	Mass (Da)
	P0CG19 [UniParc]. Last modified June 15, 2010. Version 1. Checksum: 028BC8F5A6859447	FASTA	228	24,425
	10 20 30 40 50 60 MRPAGRSNNQ VRPVTLTRNY TKHAEGSVLV EFGDTKVLCT ASIEEGVPRF LKGQGQGWIT 70 80 90 100 110 120 AEYGMLPRST HTRNAREAAK GKQGGRTMEI QRLIARALRA AVDLKALGEF TITLDCDVLQ 130 140 150 160 170 180 ADGGTRTASI TGACVALVDA LQKLVENGKL KTNPMKGMVA AVSVGIVNGE AVCDLEYVED 190 200 210 220 SAAETDMNVV MTEDGRIIEV QGTAEGEPFT HEELLILLAL ARGESNPL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication." Burland V.D., Plunkett G. III, Daniels D.L., Blattner F.R. Genomics 16:551-561(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[2]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[4]	"The Escherichia coli K-12 'wild types' W3110 and MG1655 have an rph frameshift mutation that leads to pyrimidine starvation due to low pyrE expression levels." Jensen K.F. J. Bacteriol. 175:3401-3407(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 208-228 (STRAIN W3110), EXPRESSION, LOSS OF ACTIVITY IN SOME K12 STRAINS. Strain: K12 / MG1655 / ATCC 47076, K12 / W1485 and K12 / W3110 / ATCC 27325 / DSM 5911.

Cross-references

Sequence databases
EMBL GenBank DDBJ	V01578 Genomic DNA. No translation available. L10328 Genomic DNA. Translation: AAA61996.1. U00096 Genomic DNA. Translation: ABV59576.1. AP009048 Genomic DNA. No translation available. X72920 Genomic DNA. No translation available.
PIR	QQECPE. A04470.
RefSeq	YP_001491547.1. NC_000913.2.
3D structure databases
ProteinModelPortal	P0CG19.
SMR	P0CG19. Positions 2-222.
ModBase	Search...
Protein-protein interaction databases
IntAct	P0CG19. 8 interactions.
MINT	MINT-1233748.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABV59576; ABV59576; b3643.
GeneID	948156.
KEGG	eco:b3643.
PATRIC	32122773. VBIEscCol129921_3763.
Organism-specific databases
EcoGene	EG10863. rph.
Phylogenomic databases
KO	K00989.
Enzyme and pathway databases
BioCyc	EcoCyc:EG10863-MONOMER. MetaCyc:EG10863-MONOMER.
Family and domain databases
Gene3D	3.30.230.70. 1 hit.
HAMAP	MF_00564. RNase_PH. Divergent sequence.
InterPro	IPR001247. ExoRNase_PH_dom1. IPR015847. ExoRNase_PH_dom2. IPR027408. PNPase/RNase_PH_dom. IPR020568. Ribosomal_S5_D2-typ_fold. IPR002381. RNase_PH_bac-type. IPR018336. RNase_PH_CS. [Graphical view]
Pfam	PF01138. RNase_PH. 1 hit. PF03725. RNase_PH_C. 1 hit. [Graphical view]
SUPFAM	SSF55666. 3_ExoRNase. 1 hit. SSF54211. Ribosomal_S5_D2-typ_fold. 1 hit.
TIGRFAMs	TIGR01966. RNasePH. 1 hit.
PROSITE	PS01277. RIBONUCLEASE_PH. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RNPH_ECOLI

Accession

Primary (citable) accession number: P0CG19
Secondary accession number(s): A8DYQ0, P03842

Entry history

Integrated into UniProtKB/Swiss-Prot:	June 15, 2010
Last sequence update:	June 15, 2010
Last modified:	May 29, 2013
This is version 17 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program