dbPAF Protein Information

Tag Content
dbPAF ID dbPAF-0016514
Uniprot Accession Q12149; RRP6_YEAST; D6W267; Q6B280;
Genbank Protein ID NP_014643.1;
Genbank Nucleotide ID NM_001183420.1;
Protein Name Exosome complex exonuclease RRP6
Protein Synonyms/Alias Ribosomal RNA-processing protein 6;
Gene Name RRP6
Gene Synonyms/Alias UNC733;YOR001W;
Organism Saccharomyces cerevisiae (strain ATCC 204508 / S288c)(Baker's yeast)
NCBI Taxa ID 559292
Functional Description
(View all)		 Nuclear-specific catalytic component of the RNA exosome complex which has 3'->5' exoribonuclease activity and participates in a multitude of cellular RNA processing and degradation events. In the nucleus, the RNA exosome complex is involved in proper maturation of stable RNA species such as rRNA, snRNA and snoRNA, in the elimination of RNA processing by-products and non-coding 'pervasive' transcripts, such as antisense RNA species and cryptic unstable transcripts (CUTs), and of mRNAs with processing defects, thereby limiting or excluding their export to the cytoplasm. The catalytic inactive RNA exosome core complex of 9 subunits (Exo-9) is proposed to play a pivotal role in the binding and presentation of RNA for ribonucleolysis, and to serve as a scaffold for the association with catalytic subunits and accessory proteins or complexes. RRP6 has 3'-5' exonuclease activity which is not modulated upon association with Exo-9 suggesting that the complex inner RNA-binding path is not used to access its active site.
Phosphorylation Sites
 dbPAF PTMs: 13
PositionPeptidesSourceReferences ( PMIDs )
107NCAINSKSRGSDLQYcurated22369663; 22817900; 24961812
110INSKSRGSDLQYLGEdbPTM 3.0;PhosphoGRID 2.0;SysPTM 2.0;curated17563356; 18407956; 16381945; 23193290; 19366988; 22817900;
138KPQLKFKSPIDNSESdbPTM 3.0;PhosphoGRID 2.0;PhosphoPep 2.0;SysPTM 2.0;UniProt;curated17330950; 16381945; 23193290; 19060867; 19366988; 22817900;
406RRFEYSKYRPLTPSSdbPTM 3.0;PhosphoGRID 2.0;SysPTM 2.0;curated18407956; 16381945; 23193290; 19366988
410YSKYRPLTPSSEVYSdbPTM 3.0;SysPTM 2.0;curated18407956; 16381945; 23193290; 19366988; 24961812
412KYRPLTPSSEVYSPIdbPTM 3.0;PhosphoGRID 2.0;SysPTM 2.0;curated18407956; 16381945; 23193290; 19366988
417TPSSEVYSPIEKESPcurated24961812
515ALRNIKNTNEEATPIPhosphoGRID 2.021126336
520KNTNEEATPIPSSETdbPTM 3.0;PhosphoGRID 2.0;SysPTM 2.0;UniProt;curated18407956; 16381945; 23193290; 16829593; 19366988; 24961812;
640IKTVDPASAPNHSPEdbPTM 3.0;PhosphoGRID 2.0;SysPTM 2.0;UniProt;curated18407956; 16381945; 23193290; 19779198; 19366988; 22817900
645PASAPNHSPEIDNLDdbPTM 3.0;PhosphoGRID 2.0;PhosphoPep 2.0;SysPTM 2.0;UniProt;curated17330950; 17563356; 18407956; 16381945; 23193290; 19779198;
709RRFDPSSSDSNGPRAcurated25315811
711FDPSSSDSNGPRAAKcurated25315811
Sequence
(Fasta)		MTSENPDVLL SRVINVVRAA SSLASQDVDF YKNLDRGFSK DLKSKADKLA DMANEIILSI 60
DEHHESFELK EEDISDLWNN FGNIMDNLLE MSDHSLDKLN CAINSKSRGS DLQYLGEFSG 120
KNFSPTKRVE KPQLKFKSPI DNSESHPFIP LLKEKPNALK PLSESLRLVD DDENNPSHYP 180
HPYEYEIDHQ EYSPEILQIR EEIPSKSWDD SVPIWVDTST ELESMLEDLK NTKEIAVDLE 240
HHDYRSYYGI VCLMQISTRE RDYLVDTLKL RENLHILNEV FTNPSIVKVF HGAFMDIIWL 300
QRDLGLYVVG LFDTYHASKA IGLPRHSLAY LLENFANFKT SKKYQLADWR IRPLSKPMTA 360
YARADTHFLL NIYDQLRNKL IESNKLAGVL YESRNVAKRR FEYSKYRPLT PSSEVYSPIE 420
KESPWKILMY QYNIPPEREV LVRELYQWRD LIARRDDESP RFVMPNQLLA ALVAYTPTDV 480
IGVVSLTNGV TEHVRQNAKL LANLIRDALR NIKNTNEEAT PIPSSETKAD GILLETISVP 540
QIRDVMERFS VLCNSNISKS RAKPVTNSSI LLGKILPREE HDIAYSKDGL PNKVKTEDIR 600
IRAQNFKSAL ANLEDIIFEI EKPLVVPVKL EEIKTVDPAS APNHSPEIDN LDDLVVLKKK 660
NIQKKQPAKE KGVTEKDAVD YSKIPNILSN KPGQNNRQQK KRRFDPSSSD SNGPRAAKKR 720
RPAAKGKNLS FKR 734
Keyword

KW-0002--3D-structure
KW-0181--Complete proteome
KW-0269--Exonuclease
KW-0271--Exosome
KW-0378--Hydrolase
KW-0540--Nuclease
KW-0539--Nucleus
KW-0597--Phosphoprotein
KW-1185--Reference proteome
KW-0694--RNA-binding
KW-0698--rRNA processing
Interpro

IPR002562--3'-5'_exonuclease_dom
IPR012588--Exosome-assoc_fac_Rrp6_N
IPR010997--HRDC-like
IPR002121--HRDC_dom
IPR012337--RNaseH-like_dom
PROSITE

PS50967--HRDC
Pfam

PF01612--DNA_pol_A_exo1
PF00570--HRDC
PF08066--PMC2NT
Gene Ontology

GO:0000176--C:nuclear exosome (RNase complex)
GO:0005730--C:nucleolus
GO:0005634--C:nucleus
GO:0000175--F:3'-5'-exoribonuclease activity
GO:0000166--F:nucleotide binding
GO:0003723--F:RNA binding
GO:0000467--P:exonucleolytic trimming to generate mature 3'-end of 5
8S rRNA fr--m tricistronic rRNA transcript (SSU-rRNA, 5
8S rRNA, L--U-rRNA)
GO:0071044--P:histone mRNA catabolic process
GO:0071040--P:nuclear polyadenylation-dependent antisense transcript catabolic process
GO:0071039--P:nuclear polyadenylation-dependent CUT catabolic process
GO:0071042--P:nuclear polyadenylation-dependent mRNA catabolic process
GO:0071035--P:nuclear polyadenylation-dependent rRNA catabolic process
GO:0071036--P:nuclear polyadenylation-dependent snoRNA catabolic process
GO:0071037--P:nuclear polyadenylation-dependent snRNA catabolic process
GO:0071038--P:nuclear polyadenylation-dependent tRNA catabolic process
GO:0071033--P:nuclear retention of pre-mRNA at the site of transcription
GO:0071049--P:nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription
GO:0071051--P:polyadenylation-dependent snoRNA 3'-end processing
GO:0000973--P:posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery
GO:0034473--P:U1 snRNA 3'-end processing
GO:0034475--P:U4 snRNA 3'-end processing
GO:0034476--P:U5 snRNA 3'-end processing