Protein Overview: RRP6

General Information:
Name(s) found:	RRP6 / YOR001W [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6324574\|ref\|NP_014643.1\| Exonuclease component of the nuclear exosome; contributes to the quality-control system that retains and degrades aberrant mRNAs in the nucleus; Rrp6p [Saccharomyces cerevisiae] [NCBI NR] pir\|\|S61984 probable membrane protein YOR001w - yeast (Saccharomyces cerevisiae) [NCBI NR] gi\|1420088\|emb\|CAA99189.1\| unnamed protein product [Saccharomyces cerevisiae] [NCBI NR] gi\|14195186\|sp\|Q12149.1\|RRP6_YEAST RecName: Full=Exosome complex exonuclease RRP6; AltName: Full=Ribosomal RNA-processing protein 6 [NCBI NR] gi\|1150996\|gb\|AAC49480.1\| hypothetical protein UNC733 [NCBI NR] Exosome complex exonuclease RRP6 OS=Saccharomyces cerevisiae GN=RRP6 PE=1 SV=1 [Swiss-Prot] RRP6 Exonuclease component of the nuclear exosome [mips] Nuclear exosome exonuclease component; has 3'-5' exonuclease activity; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10) [SGD] (Q12149) Exosome complex exonuclease RRP6 (EC 3.1.13.-) (Ribosomal RNA processing protein 6) [4932.FASTACCERV.txt] Chr XV from 326832-329033 [hmr_yeast5_DM3-1_pombe.fasta] RRP6, Chr XV from 326832-329033 [yeast_orfs2] RRP6 SGDID:S0005527, Chr XV from 326832-329033, Verified ORF [yeastflysequest.fasta] Exonuclease component of the nuclear exosome; contributes to the quality-control system that retains and degrades aberrant mRNAs in the nucleus [Saccharomyces cerevisiae]gi\|1420088\|emb\|CAA99189.1\| unnamed protein product [Saccharomyces cerevisiae]gi\|141 [nrdb_11152004_Chlamydomonas] RRP6 SGDID:S000005527, Chr XV from 326832-329033, Verified ORF, "Exonuclease component of the nuclear exosome; contributes to the quality-control system that retains and degrades aberrant mRNAs in the nucleus" [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] RRP6 SGDID:S000005527, Chr XV from 326833-329034, Verified ORF, "Exonuclease component of the nuclear exosome; contributes to the quality-control system that retains and degrades aberrant mRNAs in the nucleus" [yeast-contam.fasta] RRP6 SGDID:S000005527, Chr XV from 326833-329034, Verified ORF, "Nuclear exosome exonuclease component; has 3'-5' exonuclease activity; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; has similarity to E. coli RNa [yeast-200209-contam.fasta] Exosome complex exonuclease RRP6 (Ribosomal RNA-processing protein 6) [nr-271106-contam.fasta] Exonuclease component of the nuclear exosome; contributes to the quality-control system that retains and degrades aberrant mRNAs in the nucleus; Rrp6p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] hypothetical protein UNC733 [nr-271106-contam.fasta] unnamed protein product [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RRP6 SGDID:S000005527, Chr XV from 326833-329034, Verified ORF, "Nuclear exosome exonuclease component; has 3'-5' exonuclease activity; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10)" [yeast-bovrabprots.fasta] [chemostatdb.fasta] Exosome complex exonuclease RRP6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RRP6 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] RRP6 SGDID:S000005527, Chr XV from 326832-329033, Genome Release 64-1-1, Verified ORF, "Nuclear exosome exonuclease component; has 3'-5' exonuclease activity; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10); mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay" [yeast-030211-contam.fasta] RRP6 SGDID:S000005527, Chr XV from 326832-329033, Genome Release 64-2-1, Verified ORF, "Nuclear exosome exonuclease component; has 3'-5' exonuclease activity that is regulated by Lrp1p; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; role in sn/snoRNAs precursor degradation; forms a stable heterodimer with Lrp1p; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10); mutant displays reduced transcription elongation in the G-less-based" [20141208_orf_trans.fasta] YOR001W SGDID:S000005527, Chr XV from 326832-329033, Genome Release 64-1-1, Verified ORF, "Nuclear exosome exonuclease component; has 3'-5' exonuclease activity; involved in RNA processing, maturation, surveillance, degradation, tethering, and export; has similarity to E. coli RNase D and to human PM-Sc1 100 (EXOSC10); mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	733 amino acids
Gene Ontology:
Cellular Component:	nuclear exosome (RNase complex) [IDA] nuclear outer membrane [TAS]
Biological Process:	ribosome biogenesis [RCA] mRNA catabolic process [IMP ] polyadenylation-dependent ncRNA catabolic process [IDA][IMP ]
Molecular Function:	3'-5'-exoribonuclease activity [TAS]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTSENPDVLL SRVINVVRAA SSLASQDVDF YKNLDRGFSK DLKSKADKLA DMANEIILSI  60
   61 DEHHESFELK EEDISDLWNN FGNIMDNLLE MSDHSLDKLN CAINSKSRGS DLQYLGEFSG 120
  121 KNFSPTKRVE KPQLKFKSPI DNSESHPFIP LLKEKPNALK PLSESLRLVD DDENNPSHYP 180
  181 HPYEYEIDHQ EYSPEILQIR EEIPSKSWDD SVPIWVDTST ELESMLEDLK NTKEIAVDLE 240
  241 HHDYRSYYGI VCLMQISTRE RDYLVDTLKL RENLHILNEV FTNPSIVKVF HGAFMDIIWL 300
  301 QRDLGLYVVG LFDTYHASKA IGLPRHSLAY LLENFANFKT SKKYQLADWR IRPLSKPMTA 360
  361 YARADTHFLL NIYDQLRNKL IESNKLAGVL YESRNVAKRR FEYSKYRPLT PSSEVYSPIE 420
  421 KESPWKILMY QYNIPPEREV LVRELYQWRD LIARRDDESP RFVMPNQLLA ALVAYTPTDV 480
  481 IGVVSLTNGV TEHVRQNAKL LANLIRDALR NIKNTNEEAT PIPSSETKAD GILLETISVP 540
  541 QIRDVMERFS VLCNSNISKS RAKPVTNSSI LLGKILPREE HDIAYSKDGL PNKVKTEDIR 600
  601 IRAQNFKSAL ANLEDIIFEI EKPLVVPVKL EEIKTVDPAS APNHSPEIDN LDDLVVLKKK 660
  661 NIQKKQPAKE KGVTEKDAVD YSKIPNILSN KPGQNNRQQK KRRFDPSSSD SNGPRAAKKR 720
  721 RPAAKGKNLS FKR

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		CSL4 DIS3 LRP1 MPP6 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6 SKI7 SRP1
View Details	Krogan NJ, et al. (2006)		CSL4 DDI1 DIS3 ENT3 LRP1 MPP6 MTR3 OSM1 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6 SKI7 YBL055C
View Details	Gavin AC, et al. (2006)		CSL4 DIS3 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6 SKI7
View Details	Gavin AC, et al. (2002)		CMD1 CSL4 CTR9 DIS3 ECM16 GCN1 LRP1 MAM33 MLC1 MTR3 MYO2 NMD5 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SAM1 SHE4 SKI2 SKI3 SKI6 SKI7 SRP1 UTP10 UTP20 UTP22 YIR035C
View Details	Ho Y, et al. (2002)		DIS3 EAF3 FIP1 HAS1 HPR1 KAP95 MES1 MFT1 NAM8 NOP6 NUP1 NUP2 NUP60 PAP1 PCT1 REB1 RNT1 RRP4 RRP43 RRP6 RTT103 SIF2 SIN3 SNU56 SRP1 STO1 THO2 TRA1 UME1 YPR090W
View Details	Qiu et al. (2008)		CSL4 MTR3 RRP4 RRP40 RRP42 RRP43 RRP45 RRP46 RRP6 SKI6

Mass Spectrometry Data

No mass spectrometry results found for this protein.

Yeast Two-Hybrid Data

The following interactions contain this protein:

SHOWING SINGLE HITS. [ Hide Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	UBC7	RRP6	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	RRP6 and NOP56	Huh WK, et al. (2003)
View Data	RRP6	Huh WK, et al. (2003)

Protein Structure Data

[What does the above image mean?]
[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..187]	PSI-BLAST	8.69897	No description for 1j5fA_ was found.
2	View Details	[188..420]	PSI-BLAST	1049.09691	No description for 1m0yA_ was found.
3	View Details	[421..527]	MSA	11.125993	View MSA. Confident ab initio structure predictions are available.
4	View Details	[528..733]	MSA	1.030973	View MSA. No confident structure predictions are available.

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
ribonuclease activity	8.897633904438	bayes_pls_golite062009
exoribonuclease activity	8.06617873723494	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	7.94412552409677	bayes_pls_golite062009
3'-5'-exoribonuclease activity	6.42138754551191	bayes_pls_golite062009
exonuclease activity	5.51415931494501	bayes_pls_golite062009
3'-5' exonuclease activity	5.26222975375789	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	5.22368891565602	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	4.91798726616235	bayes_pls_golite062009
nuclease activity	3.11657409772275	bayes_pls_golite062009
ribonuclease H activity	2.91966688044755	bayes_pls_golite062009
hydrolase activity	2.78602644579272	bayes_pls_golite062009
	2.73492915653996	bayes_pls_golite062009
endonuclease activity	2.63074055051349	bayes_pls_golite062009
endoribonuclease activity	2.59247838057313	bayes_pls_golite062009
binding	1.92623883978176	bayes_pls_golite062009
transcription regulator activity	1.7470402498426	bayes_pls_golite062009
endoribonuclease activity, producing 5'-phosphomonoesters	1.74431545836806	bayes_pls_golite062009
nucleic acid binding	1.73824903971928	bayes_pls_golite062009
endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	1.59628511603826	bayes_pls_golite062009
DNA binding	1.46904214736532	bayes_pls_golite062009
RNA binding	1.43996903907704	bayes_pls_golite062009
catalytic activity	1.25233849524628	bayes_pls_golite062009
transcription factor activity	0.857419485352409	bayes_pls_golite062009
deoxyribonuclease activity	0.24906263529692	bayes_pls_golite062009
DNA polymerase activity	0.0189279348688405	bayes_pls_golite062009
5'-3' exonuclease activity	0.00858768379909414	bayes_pls_golite062009

No functions predicted.

Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

Philius Transmembrane Prediction:

Protein predicted to be:	GLOBULAR (No transmembrane regions or signal peptide)
Confidence of classification:	0.96

Source: Reynolds et al. (2008)

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2