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O59543

- RNP3_PYRHO

UniProt

O59543 - RNP3_PYRHO

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Protein

Ribonuclease P protein component 3

Gene
rnp3, PH1877
Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Part of ribonuclease P, a protein complex that generates mature tRNA molecules by cleaving their 5'-ends. Not absolutely essential for activity in vitro, however it strongly stimulates activity. Binds RNase P RNA.3 Publications

Catalytic activityi

Endonucleolytic cleavage of RNA, removing 5'-extranucleotides from tRNA precursor.UniRule annotation

Temperature dependencei

Optimum temperature is 70 degrees Celsius.2 Publications

GO - Molecular functioni

  1. protein binding Source: IntAct
  2. ribonuclease P activity Source: UniProtKB

GO - Biological processi

  1. RNA phosphodiester bond hydrolysis Source: GOC
  2. RNA phosphodiester bond hydrolysis, endonucleolytic Source: GOC
  3. tRNA 5'-leader removal Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

tRNA processing

Enzyme and pathway databases

BioCyciPHOR70601:GJWR-1877-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ribonuclease P protein component 3 (EC:3.1.26.5)
Short name:
RNase P component 3
Alternative name(s):
Rpp30
Gene namesi
Name:rnp3
Ordered Locus Names:PH1877
OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Taxonomic identifieri70601 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
ProteomesiUP000000752: Chromosome

Subcellular locationi

Cytoplasm By similarity UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. ribonuclease P complex Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi42 – 421K → A: Fully reconstitutes RNase P activity. 1 Publication
Mutagenesisi68 – 681R → A: 75% reconstituted RNase P activity. 1 Publication
Mutagenesisi87 – 871R → A: Fully reconstitutes RNase P activity. 1 Publication
Mutagenesisi90 – 901R → A: 45% reconstituted RNase P activity. 1 Publication
Mutagenesisi98 – 981D → A: 80% reconstituted RNase P activity. 1 Publication
Mutagenesisi107 – 1071R → A: 45% reconstituted RNase P activity. 1 Publication
Mutagenesisi114 – 1141H → A: 75% reconstituted RNase P activity. 1 Publication
Mutagenesisi123 – 1231K → A: 45% reconstituted RNase P activity. 1 Publication
Mutagenesisi158 – 1581K → A: 75% reconstituted RNase P activity. 1 Publication
Mutagenesisi176 – 1761R → A: 45% reconstituted RNase P activity. 1 Publication
Mutagenesisi180 – 1801D → A: 50% reconstituted RNase P activity. 1 Publication
Mutagenesisi196 – 1961K → A: 45% reconstituted RNase P activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 212212Ribonuclease P protein component 3UniRule annotationPRO_0000140046Add
BLAST

Interactioni

Subunit structurei

Consists of a catalytic RNA component and at least 5 protein subunits. Forms a heterotetrameric subcomplex with Rnp2. Reconstituted enzyme missing individual protein subunits is suboptimally active, showing each subunit contributes to optimization of activity.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
rnp2O591502EBI-2603192,EBI-2603177

Protein-protein interaction databases

IntActiO59543. 1 interaction.
STRINGi70601.PH1877.

Structurei

Secondary structure

1
212
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi4 – 63
Beta strandi10 – 145
Helixi17 – 2610
Beta strandi28 – 3811
Helixi42 – 5211
Beta strandi55 – 617
Helixi64 – 7310
Beta strandi75 – 828
Helixi86 – 949
Beta strandi98 – 1014
Turni103 – 1064
Beta strandi107 – 1093
Helixi114 – 12310
Beta strandi126 – 1316
Helixi132 – 1365
Helixi139 – 15921
Beta strandi163 – 1664
Helixi172 – 1743
Helixi178 – 18710
Helixi192 – 1976
Turni198 – 2003
Helixi201 – 2077

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1V77X-ray1.80A1-212[»]
2CZVX-ray2.00A/B1-212[»]
ProteinModelPortaliO59543.
SMRiO59543. Positions 2-209.

Miscellaneous databases

EvolutionaryTraceiO59543.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1603.
HOGENOMiHOG000073988.
KOiK03539.
OMAiDALISPW.

Family and domain databases

HAMAPiMF_00756. RNase_P_3.
InterProiIPR016195. Pol/histidinol_Pase-like.
IPR023539. RNase_P_comp-3_arc.
IPR002738. RNase_P_p30.
[Graphical view]
PANTHERiPTHR13031. PTHR13031. 1 hit.
PfamiPF01876. RNase_P_p30. 1 hit.
[Graphical view]
SUPFAMiSSF89550. SSF89550. 1 hit.

Sequencei

Sequence statusi: Complete.

O59543-1 [UniParc]FASTAAdd to Basket

« Hide

MVGGGGVKFI EMDIRDKEAY ELAKEWFDEV VVSIKFNEEV DKEKLREARK    50
EYGKVAILLS NPKPSLVRDT VQKFKSYLIY VESNDLRVIR YSIEKGVDAI 100
ISPWVNRKDP GIDHVLAKLM VKKNVALGFS LRPLLYSNPY ERANLLRFMM 150
KAWKLVEKYK VRRFLTSSAQ EKWDVRYPRD LISLGVVIGM EIPQAKASIS 200
MYPEIILKRL KY 212
Length:212
Mass (Da):24,694
Last modified:August 1, 1998 - v1
Checksum:i321490D4A2859C24
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000001 Genomic DNA. Translation: BAA30999.1.
PIRiH71200.
RefSeqiNP_143706.1. NC_000961.1.
WP_010885939.1. NC_000961.1.

Genome annotation databases

EnsemblBacteriaiBAA30999; BAA30999; BAA30999.
GeneIDi1442721.
KEGGipho:PH1877.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000001 Genomic DNA. Translation: BAA30999.1 .
PIRi H71200.
RefSeqi NP_143706.1. NC_000961.1.
WP_010885939.1. NC_000961.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1V77 X-ray 1.80 A 1-212 [» ]
2CZV X-ray 2.00 A/B 1-212 [» ]
ProteinModelPortali O59543.
SMRi O59543. Positions 2-209.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi O59543. 1 interaction.
STRINGi 70601.PH1877.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAA30999 ; BAA30999 ; BAA30999 .
GeneIDi 1442721.
KEGGi pho:PH1877.

Phylogenomic databases

eggNOGi COG1603.
HOGENOMi HOG000073988.
KOi K03539.
OMAi DALISPW.

Enzyme and pathway databases

BioCyci PHOR70601:GJWR-1877-MONOMER.

Miscellaneous databases

EvolutionaryTracei O59543.

Family and domain databases

HAMAPi MF_00756. RNase_P_3.
InterProi IPR016195. Pol/histidinol_Pase-like.
IPR023539. RNase_P_comp-3_arc.
IPR002738. RNase_P_p30.
[Graphical view ]
PANTHERi PTHR13031. PTHR13031. 1 hit.
Pfami PF01876. RNase_P_p30. 1 hit.
[Graphical view ]
SUPFAMi SSF89550. SSF89550. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.
  2. "Reconstitution of archaeal ribonuclease P from RNA and four protein components."
    Kouzuma Y., Mizoguchi M., Takagi H., Fukuhara H., Tsukamoto M., Numata T., Kimura M.
    Biochem. Biophys. Res. Commun. 306:666-673(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, BIOPHYSICOCHEMICAL PROPERTIES, SUBUNIT, RNA-BINDING.
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.
  3. "A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3."
    Fukuhara H., Kifusa M., Watanabe M., Terada A., Honda T., Numata T., Kakuta Y., Kimura M.
    Biochem. Biophys. Res. Commun. 343:956-964(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, BIOPHYSICOCHEMICAL PROPERTIES, SUBUNIT.
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.
  4. "Characterization of the archaeal ribonuclease P proteins from Pyrococcus horikoshii OT3."
    Terada A., Honda T., Fukuhara H., Hada K., Kimura M.
    J. Biochem. 140:293-298(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBUNIT.
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.
  5. "Crystal structure of the ribonuclease P protein Ph1877p from hyperthermophilic archaeon Pyrococcus horikoshii OT3."
    Takagi H., Watanabe M., Kakuta Y., Kamachi R., Numata T., Tanaka I., Kimura M.
    Biochem. Biophys. Res. Commun. 319:787-794(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS), MUTAGENESIS OF LYS-42; ARG-68; ARG-87; ARG-90; ASP-98; ARG-107; HIS-114; LYS-123; LYS-158; ARG-176; ASP-180 AND LYS-196.
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.
  6. "Crystal structure of protein Ph1481p in complex with protein Ph1877p of archaeal RNase P from Pyrococcus horikoshii OT3: implication of dimer formation of the holoenzyme."
    Kawano S., Nakashima T., Kakuta Y., Tanaka I., Kimura M.
    J. Mol. Biol. 357:583-591(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.0 ANGSTROMS) IN COMPLEX WITH RNP2, SUBUNIT.
    Strain: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.

Entry informationi

Entry nameiRNP3_PYRHO
AccessioniPrimary (citable) accession number: O59543
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 13, 2004
Last sequence update: August 1, 1998
Last modified: September 3, 2014
This is version 86 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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