Protein Overview: SSN3

General Information:
Name(s) found:	SSN3 / YPL042C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|6325215\|ref\|NP_015283.1\| Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression; Ssn3p [Saccharomyces cerevisiae] [NCBI NR] gi\|439215\|gb\|AAA35193.1\| regulatory protein [Saccharomyces cerevisiae] [NCBI NR] pir\|\|S50157 cyclin-dependent kinase chain SRB10 - yeast (Saccharomyces cerevisiae) [NCBI NR] gi\|1171416\|gb\|AAB68178.1\| Ssn3p: a cyclin(SSN8)-dependent serine/threonine protein kinase [Saccharomyces cerevisiae] [NCBI NR] gi\|114152902\|sp\|P39073.3\|SSN3_YEAST RecName: Full=Meiotic mRNA stability protein kinase SSN3; AltName: Full=Cyclin-dependent kinase 8; AltName: Full=Suppressor of RNA polymerase B SRB10 [NCBI NR] (P39073) Meiotic mRNA stability protein kinase UME5 (EC 2.7.11.23) (Cyclin-dependent kinase 8) [Swiss-Prot] Meiotic mRNA stability protein kinase SSN3 OS=Saccharomyces cerevisiae GN=SSN3 PE=1 SV=3 [Swiss-Prot] SSN3 Cyclin-dependent CTD kinase [mips] Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression [SGD] Chr XVI from 474702-473035, reverse complement [hmr_yeast5_DM3-1_pombe.fasta] Chr XVI from 473035-474702, reverse complement [yeastorf3.fasta] SSN3, Chr XVI from 473035-474702, reverse complement [yeast_orfs2] SSN3 SGDID:S0005963, Chr XVI from 474702-473035, reverse complement, Verified ORF [yeastflysequest.fasta] SSN3 SGDID:S0005963, Chr XVI from 474704-473037, reverse complement, Verified ORF [10112005cervSGD.fasta] Component of RNA polymerase II holoenzyme, involved in RNA pol II carboxy-terminal domain phosphorylation [Saccharomyces cerevisiae]gi\|2131219\|pir\|\|S50157 cyclin-dependent kinase chain SRB10 - yeast (Saccharomyces cerevisiae)gi\|1171416\|gb\|AAB68178.1\| Ss [nrdb_11152004_Chlamydomonas] SSN3 SGDID:S000005963, Chr XVI from 474704-473037, reverse complement, Verified ORF, "Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose r [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] Meiotic mRNA stability protein kinase UME5 (Cyclin-dependent kinase 8) [nr-271106-contam.fasta] regulatory protein [nr-271106-contam.fasta] Ssn3p: a cyclin(SSN8)-dependent serine/threonine protein kinase [Saccharomyces cerevisiae] [nr-271106-contam.fasta] Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression; Ssn3p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] SSN3 SGDID:S000005963, Chr XVI from 474704-473037, reverse complement, Verified ORF, "Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression" [yeast-bovrabprots.fasta] [chemostatdb.fasta] Meiotic mRNA stability protein kinase SSN3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=SSN3 PE=1 SV=3 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] SSN3 SGDID:S000005963, Chr XVI from 474707-473040, Genome Release 64-1-1, reverse complement, Verified ORF, "Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression" [yeast-030211-contam.fasta] SSN3 SGDID:S000005963, Chr XVI from 474707-473040, Genome Release 64-2-1, reverse complement, Verified ORF, "Cyclin-dependent protein kinase; component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression" [20141208_orf_trans.fasta] YPL042C SGDID:S000005963, Chr XVI from 474707-473040, Genome Release 64-1-1, reverse complement, Verified ORF, "Cyclin-dependent protein kinase, component of RNA polymerase II holoenzyme; involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	555 amino acids
Gene Ontology:
Cellular Component:	transcription factor complex [TAS]
Biological Process:	negative regulation of transcription from RNA polymerase II promoter [TAS] telomere maintenance [IMP] protein amino acid phosphorylation [TAS] regulation of transcription [IMP][IPI] meiosis [TAS]
Molecular Function:	general RNA polymerase II transcription factor activity [TAS] cyclin-dependent protein kinase activity [TAS]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MYNGKDRAQN SYQPMYQRPM QVQGQQQAQS FVGKKNTIGS VHGKAPMLMA NNDVFTIGPY  60
   61 RARKDRMRVS VLEKYEVIGY IAAGTYGKVY KAKRQINSGT NSANGSSLNG TNAKIPQFDS 120
  121 TQPKSSSSMD MQANTNALRR NLLKDEGVTP GRIRTTREDV SPHYNSQKQT LIKKPLTVFY 180
  181 AIKKFKTEKD GVEQLHYTGI SQSACREMAL CRELHNKHLT TLVEIFLERK CVHMVYEYAE 240
  241 HDLLQIIHFH SHPEKRMIPP RMVRSIMWQL LDGVSYLHQN WVLHRDLKPA NIMVTIDGCV 300
  301 KIGDLGLARK FHNMLQTLYT GDKVVVTIWY RAPELLLGAR HYTPAVDLWS VGCIFAELIG 360
  361 LQPIFKGEEA KLDSKKTVPF QVNQLQRILE VLGTPDQKIW PYLEKYPEYD QITKFPKYRD 420
  421 NLATWYHSAG GRDKHALSLL YHLLNYDPIK RIDAFNALEH KYFTESDIPV SENVFEGLTY 480
  481 KYPARRIHTN DNDIMNLGSR TKNNTQASGI TAGAAANALG GLGVNRRILA AAAAAAAAVS 540
  541 GNNASDEPSR KKNRR

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		CSE2 GAL11 MED1 MED11 MED4 MED6 MED7 MED8 NUT1 NUT2 PGD1 RGR1 SIN4 SRB2 SRB4 SRB5 SRB6 SRB7 SRB8 SSN2 SSN3 YAP1
View Details	(MIPS) Mewes HW, et al. (2004)		SRB8 SSN2 SSN3 SSN8
View Details	Krogan NJ, et al. (2006)		CSE2 DSS1 GAL11 GPT2 IRC11 MED1 MED11 MED2 MED4 MED6 MED7 MED8 NUT1 NUT2 PGD1 RGR1 ROX3 SIN4 SOH1 SRB2 SRB4 SRB5 SRB6 SRB7 SSN3 SSN8 THI72
View Details	Gavin AC, et al. (2002)		ADA2 ADH1 COG3 CSE2 ENO2 FAB1 FBA1 GAL11 GCN5 MED1 MED11 MED2 MED4 MED6 MED7 MED8 MLP1 MRPL6 NUT1 NUT2 PGD1 PGK1 RGR1 ROX3 RPG1 RPO21 SIN4 SPT7 SRB2 SRB4 SRB5 SRB6 SRB7 SRB8 SRP1 SSE2 SSN2 SSN3 SSN8 TAF6 TIF1, TIF2 YIL077C

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	RPA135	No Comments	Schneider, DA, et al. (2006)
View Run	MLP2	#26 Asynchronous Prep4-TiO2 Phosphopeptide enriched, Steps1-2	Keck JM, et al. (2011)

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	CIT2	SSN3	1	Unpublished Fields Lab Data
View Screen	PTC2	SSN3	1	Unpublished Fields Lab Data
View Screen	RAD54	SSN3	1	Unpublished Fields Lab Data
View Screen	TPK3	SSN3	1	Unpublished Fields Lab Data
View Screen	RAS2	SSN3	1	Unpublished Fields Lab Data
View Screen	COG4	SSN3	1	Unpublished Fields Lab Data

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..415]	PSI-BLAST	53.522879	Abl tyrosine kinase, SH3 domain; Abl tyrosine kinase; Abelsone tyrosine kinase (abl)
2	View Details	[416..555]	PSI-BLAST	75.09691	Structure of CDK2/Cyclin A with PNU-292137

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
acetylcholine receptor activator activity	5.9159846946654	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	5.68265749805481	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	5.49988294224815	bayes_pls_golite062009
protein kinase activity	5.4586557943719	bayes_pls_golite062009
kinase activity	5.3287080791198	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	4.96052051118534	bayes_pls_golite062009
cyclin-dependent protein kinase activity	4.62392503670521	bayes_pls_golite062009
protein serine/threonine kinase activity	4.46381887831481	bayes_pls_golite062009
transferase activity	3.97138602499442	bayes_pls_golite062009
structural molecule activity	3.82327979736517	bayes_pls_golite062009
transmembrane receptor protein tyrosine kinase activity	3.41480681854114	bayes_pls_golite062009
transmembrane receptor protein kinase activity	3.40140621607334	bayes_pls_golite062009
MAP kinase 2 activity	3.27009208121248	bayes_pls_golite062009
protein tyrosine kinase activity	2.8153155526437	bayes_pls_golite062009
phosphoinositide 3-kinase binding	2.79505438761262	bayes_pls_golite062009
binding	2.74863538127007	bayes_pls_golite062009
transmembrane receptor activity	2.59526003830791	bayes_pls_golite062009
ion transmembrane transporter activity	2.52531786618214	bayes_pls_golite062009
RNA binding	2.47233810641059	bayes_pls_golite062009
cation transmembrane transporter activity	2.46424348876434	bayes_pls_golite062009
signal transducer activity	2.40586892801446	bayes_pls_golite062009
molecular transducer activity	2.40586892801446	bayes_pls_golite062009
receptor activity	2.39311927684508	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.37122853419919	bayes_pls_golite062009
protein binding	2.276111749106	bayes_pls_golite062009
tubulin binding	2.18641675163967	bayes_pls_golite062009
cytoskeletal protein binding	2.12615078788254	bayes_pls_golite062009
receptor signaling protein activity	2.10379226653669	bayes_pls_golite062009
ATP binding	1.97600611746091	bayes_pls_golite062009
ubiquitin-protein ligase activity	1.94085498993561	bayes_pls_golite062009
adenyl ribonucleotide binding	1.93596671856664	bayes_pls_golite062009
adenyl nucleotide binding	1.90928021591891	bayes_pls_golite062009
metal ion transmembrane transporter activity	1.9016235206634	bayes_pls_golite062009
microtubule binding	1.88110801192607	bayes_pls_golite062009
actin binding	1.87817875565699	bayes_pls_golite062009
receptor signaling protein serine/threonine kinase activity	1.81249386965144	bayes_pls_golite062009
molecular adaptor activity	1.81145713371725	bayes_pls_golite062009
telethonin binding	1.75733591474207	bayes_pls_golite062009
small conjugating protein ligase activity	1.74206248731815	bayes_pls_golite062009
fibroblast growth factor 1 binding	1.66976264488423	bayes_pls_golite062009
purine ribonucleotide binding	1.65732943334212	bayes_pls_golite062009
ribonucleotide binding	1.65726906484847	bayes_pls_golite062009
purine nucleotide binding	1.63763394711025	bayes_pls_golite062009
nucleotide binding	1.63195828048121	bayes_pls_golite062009
insulin receptor substrate binding	1.62657794525303	bayes_pls_golite062009
JUN kinase kinase kinase activity	1.60259443694567	bayes_pls_golite062009
SH3/SH2 adaptor activity	1.59474164216385	bayes_pls_golite062009
transcription regulator activity	1.56748951434625	bayes_pls_golite062009
growth factor binding	1.53863828216563	bayes_pls_golite062009
nucleic acid binding	1.46547714006072	bayes_pls_golite062009
MAP kinase kinase activity	1.42275431028856	bayes_pls_golite062009
DNA binding	1.35333135345112	bayes_pls_golite062009
ErbB-3 class receptor binding	1.34841233233438	bayes_pls_golite062009
ErbB-2 class receptor binding	1.33825339298024	bayes_pls_golite062009
kinase binding	1.26086833316556	bayes_pls_golite062009
epidermal growth factor receptor binding	1.24312972088703	bayes_pls_golite062009
acid-amino acid ligase activity	1.2266791546014	bayes_pls_golite062009
catalytic activity	1.21655087018101	bayes_pls_golite062009
transcription elongation regulator activity	1.16995153203536	bayes_pls_golite062009
transcription repressor activity	1.14496167267281	bayes_pls_golite062009
histone kinase activity (H3-S10 specific)	1.14432210832726	bayes_pls_golite062009
transporter activity	1.11833481501707	bayes_pls_golite062009
non-membrane spanning protein tyrosine kinase activity	1.11664317075762	bayes_pls_golite062009
transcription factor activity	1.10928254946881	bayes_pls_golite062009
transmembrane receptor protein serine/threonine kinase activity	1.10045286406485	bayes_pls_golite062009
transforming growth factor beta receptor activity	1.10045286406485	bayes_pls_golite062009
vinculin binding	1.06656350652527	bayes_pls_golite062009
protein kinase binding	1.06030596516506	bayes_pls_golite062009
cation channel activity	1.04999722123563	bayes_pls_golite062009
type II transforming growth factor beta receptor binding	1.03605423743048	bayes_pls_golite062009
transcription activator activity	0.997272622653026	bayes_pls_golite062009
PTB domain binding	0.9900774724568	bayes_pls_golite062009
transmembrane transporter activity	0.97575992765505	bayes_pls_golite062009
sequence-specific DNA binding	0.925299895386908	bayes_pls_golite062009
alpha-actinin binding	0.877087652539674	bayes_pls_golite062009
insulin-like growth factor receptor binding	0.872782211382796	bayes_pls_golite062009
fibroblast growth factor binding	0.870666814073948	bayes_pls_golite062009
protein binding, bridging	0.83823250804321	bayes_pls_golite062009
MAP kinase activity	0.81943579965027	bayes_pls_golite062009
actin filament binding	0.794152600084	bayes_pls_golite062009
fibroblast growth factor receptor activity	0.75189004129952	bayes_pls_golite062009
substrate-specific transporter activity	0.705905455086486	bayes_pls_golite062009
phosphoinositide 3-kinase regulator activity	0.688047400629641	bayes_pls_golite062009
ribonuclease activity	0.643419988727243	bayes_pls_golite062009
structural constituent of cytoskeleton	0.612883428421652	bayes_pls_golite062009
cyclin-dependent protein kinase activating kinase activity	0.529121666062889	bayes_pls_golite062009
activin binding	0.510364757301021	bayes_pls_golite062009
protein serine/threonine/tyrosine kinase activity	0.48345772948903	bayes_pls_golite062009
enzyme binding	0.46284745266176	bayes_pls_golite062009
protein kinase C activity	0.41587987561486	bayes_pls_golite062009
cyclin-dependent protein kinase regulator activity	0.406297251827056	bayes_pls_golite062009
RNA polymerase II transcription factor activity	0.401250804041384	bayes_pls_golite062009
structural constituent of muscle	0.399773397398032	bayes_pls_golite062009
magnesium ion binding	0.393328812780268	bayes_pls_golite062009
MAP kinase kinase kinase activity	0.37115026509016	bayes_pls_golite062009
structure-specific DNA binding	0.318153468064373	bayes_pls_golite062009
phosphotyrosine binding	0.311079584914389	bayes_pls_golite062009
channel activity	0.287189255116606	bayes_pls_golite062009
passive transmembrane transporter activity	0.287189255116606	bayes_pls_golite062009
insulin receptor binding	0.266450215230107	bayes_pls_golite062009
substrate-specific channel activity	0.261869836686301	bayes_pls_golite062009
ion channel activity	0.241519346930618	bayes_pls_golite062009
protein complex binding	0.239339759110451	bayes_pls_golite062009
insulin receptor activity	0.237134032032089	bayes_pls_golite062009
SH2 domain binding	0.226760162354251	bayes_pls_golite062009
peptide binding	0.118578378753757	bayes_pls_golite062009
brain-derived neurotrophic factor binding	0.0794053647730006	bayes_pls_golite062009
transforming growth factor beta receptor activity, type I	0.0506751594607393	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.0040394359628233	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:	0.85

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