Protein Overview: RNA15

General Information:
Name(s) found:	RNA15 / YGL044C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6321394\|ref\|NP_011471.1\| Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; Rna15p [Saccharomyces cerevisia [NCBI NR] gi\|172434\|gb\|AAA34984.1\| RNA15 [Saccharomyces cerevisiae] [NCBI NR] gi\|133144\|sp\|P25299.1\|RNA15_YEAST RecName: Full=mRNA 3'-end-processing protein RNA15 [NCBI NR] gi\|1322531\|emb\|CAA96746.1\| RNA15 [Saccharomyces cerevisiae] [NCBI NR] pir\|\|B40257 RNA15 protein - yeast (Saccharomyces cerevisiae) [NCBI NR] mRNA 3'-end-processing protein RNA15 OS=Saccharomyces cerevisiae GN=RNA15 PE=1 SV=1 [Swiss-Prot] (P25299) mRNA 3'-end processing protein RNA15 [Swiss-Prot] RNA15 Component of pre-mRNA 3`-end processing factor CF I [mips] Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p [SGD] RNA15, Chr VII from 416141-417031, reverse complement [yeast_orfs2] Chr VII from 416141-417031, reverse complement [yeastorf3.fasta] Chr VII from 416148-417038, reverse complement [yeastorf4.fasta] Chr VII from 417038-416148, reverse complement [yeastorf5.fasta] RNA15 SGDID:S0003012, Chr VII from 417038-416148, reverse complement, Verified ORF [yeastflysequest.fasta] RNA15 SGDID:S0003012, Chr VII from 417040-416150, reverse complement, Verified ORF [10112005cervSGD.fasta] Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p [Saccharomyces cerevisiae]gi\|1322531\|emb\|CAA96746.1\| RNA15 [nrdb_11152004_Chlamydomonas] RNA15 SGDID:S000003012, Chr VII from 417040-416150, reverse complement, Verified ORF, "Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in com [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] RNA15 [Saccharomyces cerevisiae] [nr-271106-contam.fasta] mRNA 3'-end-processing protein RNA15 [nr-271106-contam.fasta] RNA15 [nr-271106-contam.fasta] Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; Rna15p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] RNA15 SGDID:S000003012, Chr VII from 417040-416150, reverse complement, Verified ORF, "Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p" [yeast-bovrabprots.fasta] [chemostatdb.fasta] mRNA 3'-end-processing protein RNA15 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RNA15 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] RNA15 SGDID:S000003012, Chr VII from 417036-416146, Genome Release 64-1-1, reverse complement, Verified ORF, "Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping" [yeast-030211-contam.fasta] RNA15 SGDID:S000003012, Chr VII from 417036-416146, Genome Release 64-2-1, reverse complement, Verified ORF, "Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping and maintenance of genome stability" [20141208_orf_trans.fasta] TR6705\|c0_g1_i1\|g.4720 ORF TR6705\|c0_g1_i1\|g.4720 TR6705\|c0_g1_i1\|m.4720 type:complete len:297 (+) TR6705\|c0_g1_i1:227-1117(+) [Y12_S_cerevisiae-Sep2015-contam.fasta] TR1014\|c0_g1_i1\|g.671 ORF TR1014\|c0_g1_i1\|g.671 TR1014\|c0_g1_i1\|m.671 type:complete len:297 (+) TR1014\|c0_g1_i1:231-1121(+) [DBVPG6044_S_cerevisiae-Sep2015-contam.fasta] YGL044C SGDID:S000003012, Chr VII from 417036-416146, Genome Release 64-1-1, reverse complement, Verified ORF, "Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta] asmbl_1912\|g.1093 ORF asmbl_1912\|g.1093 asmbl_1912\|m.1093 type:complete len:297 (+) asmbl_1912:230-1120(+) [DBVPG6044_Trinity_v2_2_0_PASA_6May2016-contam.fasta] asmbl_1984\|g.1324 ORF asmbl_1984\|g.1324 asmbl_1984\|m.1324 type:complete len:297 (+) asmbl_1984:226-1116(+) [Y12_Trinity_v2_2_0_PASA_6May2016-contam.fasta] ID=asmbl_1916\|g.1135 ORF ID=asmbl_1916\|g.1135 ID=asmbl_1916\|m.1135 type:complete len:297 (+) ID=asmbl_1916:230-1120(+) [DBVPG6044_quiverGenomes_Trinity_v2_2_0_PASA_2June2016-contam.fasta] ID=asmbl_1988\|g.1113 ORF ID=asmbl_1988\|g.1113 ID=asmbl_1988\|m.1113 type:complete len:297 (+) ID=asmbl_1988:226-1116(+) [Y12_quiver_Trinity_v2_2_0_PASA_2June2016-contam.fasta]
Organism:	Saccharomyces cerevisiae
Length:	296 amino acids
Gene Ontology:
Cellular Component:	mRNA cleavage factor complex [IPI]
Biological Process:	mRNA polyadenylation [IDA] mRNA cleavage [IDA]
Molecular Function:	RNA binding [TAS] protein heterodimerization activity [IPI]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNRQSGVNAG VQNNPPSRVV YLGSIPYDQT EEQILDLCSN VGPVINLKMM FDPQTGRSKG  60
   61 YAFIEFRDLE SSASAVRNLN GYQLGSRFLK CGYSSNSDIS GVSQQQQQQY NNINGNNNNN 120
  121 GNNNNNSNGP DFQNSGNANF LSQKFPELPS GIDVNINMTT PAMMISSELA KKPKEVQLKF 180
  181 LQKFQEWTRA HPEDAVSLLE LCPQLSFVTA ELLLTNGICK VDDLIPLASR PQEEASATNN 240
  241 NSVNEVVDPA VLNKQKELLK QVLQLNDSQI SILPDDERMA IWDLKQKALR GEFGAF

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		CLP1 PCF11 RNA14 RNA15
View Details	(MIPS) Mewes HW, et al. (2004)		CLP1 HRP1 PCF11 RNA14 RNA15
View Details	Krogan NJ, et al. (2006)		CLP1 RNA14 RNA15
View Details	Gavin AC, et al. (2006)		CLP1 PCF11 RNA14 RNA15
View Details	Gavin AC, et al. (2002)		ACT1 AIM31 CFT1 CFT2 CKA1 CLP1 ENO2 FIP1 GLC7 HHF1, HHF2 HTA1 MPE1 PAP1 PCF11 PFK1 PFS2 PTA1 PTI1 REF2 RNA14 RNA15 RSA3 SEC13 SEC31 SSA3 SSU72 SYC1 TAF6 TIF4632 TYE7 VID24 VMR1 VPS53 YCL046W YSH1 YTH1
View Details	Qiu et al. (2008)		CFT1 CFT2 CLP1 FIP1 HRP1 MPE1 PAP1 PCF11 PFS2 PTI1 REF2 RNA14 RNA15 SSU72 SWD2 YSH1 YTH1

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	ZDS1	Sample 3 - cpn + atp, from june 2005	McCusker D, et al (2007)

Yeast Two-Hybrid Data

The following interactions contain this protein:

NOT SHOWING SINGLE HITS. [ Show Single Hits ]

[View our yeast two-hybrid interpretation guidelines.]

	BAIT	PREY	HITS	PUBLICATION
View Screen	PCF11	RNA15	2	Unpublished Fields Lab Data
View Screen	PCF11	RNA15	2	Unpublished Fields Lab Data
View Screen	PCF11	RNA15	2	Uetz P, et al. (2000)

Microscopy / Localization Data

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No microscopy data found in the PDR for this protein.

Protein Structure Data

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[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..96]	PSI-BLAST	104.9897	Hu antigen D (Hud)
2	View Details	[97..202]	PSI-BLAST	104.9897	Hu antigen D (Hud)
3	View Details	[203..296]	PSI-BLAST	14.69897	poly(A) binding protein

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
RNA binding	5.15097136329571	bayes_pls_golite062009
mRNA binding	4.05281507540116	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
	3.4479220904723	bayes_pls_golite062009
binding	3.05116833253954	bayes_pls_golite062009
single-stranded RNA binding	1.46469774223879	bayes_pls_golite062009
poly-pyrimidine tract binding	1.36691748240059	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snRNA binding	0.73428616955527	bayes_pls_golite062009
mRNA 3'-UTR binding	0.591700155096213	bayes_pls_golite062009
protein binding	0.42571879933058	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009

Term	Confidence	Notes
RNA binding	4.11788426448287	bayes_pls_golite062009
mRNA binding	4.06818972936809	bayes_pls_golite062009
single-stranded RNA binding	3.03728178586535	bayes_pls_golite062009
nucleic acid binding	2.68703240185319	bayes_pls_golite062009
poly(A) RNA binding	2.66269581586161	bayes_pls_golite062009
poly-purine tract binding	2.20136693536924	bayes_pls_golite062009
binding	2.16883445607402	bayes_pls_golite062009
eukaryotic initiation factor 4G binding	2.1187709602541	bayes_pls_golite062009
catalytic activity	0.287695754348243	bayes_pls_golite062009
protein self-association	0.283882327957323	bayes_pls_golite062009
protein binding	0.159640166509248	bayes_pls_golite062009
ubiquitin-protein ligase activity	0.04158498339604	bayes_pls_golite062009
small conjugating protein ligase activity	0.0311121204326499	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:	0.99

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