Protein Overview: MTR4

General Information:
Name(s) found:	MTR4 / YJL050W [SGD]
Description(s) found: Found 25 descriptions. SHOW ALL	ATP-dependent 3'-5' RNA helicase, involved in nuclear RNA processing and degredation both as a component of the TRAMP complex and in TRAMP independent processes; member of the Dead-box family of helicases [SGD]
Organism:	Saccharomyces cerevisiae
Length:	1073 amino acids
Gene Ontology:
Cellular Component:	nucleus [IDA] nuclear outer membrane [TAS] nucleolus [IDA] TRAMP complex [IDA ][IPI ]
Biological Process:	mRNA export from nucleus [IMP] rRNA catabolic process [IMP] ribosome biogenesis [RCA] tRNA catabolic process [IDA ] ncRNA polyadenylation involved in polyadenylation-dependent ncRNA catabolic process [IDA] polyadenylation-dependent ncRNA catabolic process [IMP]
Molecular Function:	ATP-dependent RNA helicase activity [ISS]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSTDLFDVF EETPVELPTD SNGEKNADTN VGDTPDHTQD KKHGLEEEKE EHEENNSENK  60
   61 KIKSNKSKTE DKNKKVVVPV LADSFEQEAS REVDASKGLT NSETLQVEQD GKVRLSHQVR 120
  121 HQVALPPNYD YTPIAEHKRV NEARTYPFTL DPFQDTAISC IDRGESVLVS AHTSAGKTVV 180
  181 AEYAIAQSLK NKQRVIYTSP IKALSNQKYR ELLAEFGDVG LMTGDITINP DAGCLVMTTE 240
  241 ILRSMLYRGS EVMREVAWVI FDEVHYMRDK ERGVVWEETI ILLPDKVRYV FLSATIPNAM 300
  301 EFAEWICKIH SQPCHIVYTN FRPTPLQHYL FPAHGDGIYL VVDEKSTFRE ENFQKAMASI 360
  361 SNQIGDDPNS TDSRGKKGQT YKGGSAKGDA KGDIYKIVKM IWKKKYNPVI VFSFSKRDCE 420
  421 ELALKMSKLD FNSDDEKEAL TKIFNNAIAL LPETDRELPQ IKHILPLLRR GIGIHHSGLL 480
  481 PILKEVIEIL FQEGFLKVLF ATETFSIGLN MPAKTVVFTS VRKWDGQQFR WVSGGEYIQM 540
  541 SGRAGRRGLD DRGIVIMMID EKMEPQVAKG MVKGQADRLD SAFHLGYNMI LNLMRVEGIS 600
  601 PEFMLEHSFF QFQNVISVPV MEKKLAELKK DFDGIEVEDE ENVKEYHEIE QAIKGYREDV 660
  661 RQVVTHPANA LSFLQPGRLV EISVNGKDNY GWGAVVDFAK RINKRNPSAV YTDHESYIVN 720
  721 VVVNTMYIDS PVNLLKPFNP TLPEGIRPAE EGEKSICAVI PITLDSIKSI GNLRLYMPKD 780
  781 IRASGQKETV GKSLREVNRR FPDGIPVLDP VKNMKIEDED FLKLMKKIDV LNTKLSSNPL 840
  841 TNSMRLEELY GKYSRKHDLH EDMKQLKRKI SESQAVIQLD DLRRRKRVLR RLGFCTPNDI 900
  901 IELKGRVACE ISSGDELLLT ELIFNGNFNE LKPEQAAALL SCFAFQERCK EAPRLKPELA 960
  961 EPLKAMREIA AKIAKIMKDS KIEVVEKDYV ESFRHELMEV VYEWCRGATF TQICKMTDVY1020
 1021 EGSLIRMFKR LEELVKELVD VANTIGNSSL KEKMEAVLKL IHRDIVSAGS LYL

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		AIR1 AIR2 MTR4 NAB3 PAP2 PRP43
View Details	Krogan NJ, et al. (2006)		AIR1 AIR2 MTR4 PAP2 PSO2 RPL18A, RPL18B STE4 TRF5
View Details	Gavin AC, et al. (2006)		MTR4 NAB3 NRD1 SEN1 STO1
View Details	Gavin AC, et al. (2002)		ACE2 ALT2 BCK1 CDC11 DRE2 ECM30 ENP2 GCN1 IML1 MNL1 MTR4 MYO2 NAB3 RGC1 SEC3 UBP15 YBL044W YJR098C YNL313C
View Details	Ho Y, et al. (2002)		AIR1 AIR2 IMD1 IMD3 IMD4 MTR4 NAP1 NOP53 NOP56 PAP2 PSE1
View Details	Qiu et al. (2008)		AIR1 AIR2 DBP10 DBP3 DBP6 DBP7 DBP8 DHR2 DRS1 FAL1 GAR1 HAS1 HCA4 MAK5 MTR4 NSR1 PAP2 POP1 RNT1 RRP3 SPB4 SUB2 UTP13 UTP18 UTP4 UTP6 UTP9

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	ASF1	sample 3121 run on DecaLCQ: searched for phosphorylation	Green EM, et al (2005)
View Run	CEP3	sample cbf3 from feb 2005	Sandall S, et all (2006)
View Run	MLP2	#29 Asynchronous Prep5-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#12 Mitotic Prep1-TiO2 Flowthrough	Keck JM, et al. (2011)
View Run	MLP2	#30 Asynchronous Prep6-TiO2 Phosphopeptide enrichment	Keck JM, et al. (2011)
View Run	MLP2	#11 Mitotic Prep1-TiO2 enriched, new search criteria	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	HRT1	MTR4	1	Unpublished Fields Lab Data

Microscopy / Localization Data

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	PROTEIN(S)	PUBLICATION
View Data	MTR4 and NOP56	Huh WK, et al. (2003)
View Data	MTR4	Huh WK, et al. (2003)

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..109]	deduced	N/A	No confident structure predictions are available.
2	View Details	[110..321]	PSI-BLAST	89.522879	Putative DEAD box RNA helicase
3	View Details	[322..455]	PSI-BLAST	89.522879	Putative DEAD box RNA helicase
4	View Details	[456..636]	PSI-BLAST	25.39794	Initiation factor 4a
5	View Details	[637..752]	deduced	N/A	No confident structure predictions are available.
6	View Details	[753..838] [852..859] [940..1073]	ORFEUS	8.05	(+)-bornyl diphosphate synthase
7	View Details	[839..851] [860..939]	ORFEUS	8.05	(+)-bornyl diphosphate synthase

Functions predicted (by domain):

Gene Ontology predictions

No functions predicted.

Term	Confidence	Notes
nucleoside-triphosphatase activity	2.95079405147356	bayes_pls_golite062009
pyrophosphatase activity	2.87427509025394	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.85499564954033	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.85178667290149	bayes_pls_golite062009
binding	2.64537357529343	bayes_pls_golite062009
transporter activity	2.58140740499725	bayes_pls_golite062009
hydrolase activity	2.55157966585974	bayes_pls_golite062009
transmembrane transporter activity	2.39695871109024	bayes_pls_golite062009
ATPase activity	2.39535714892224	bayes_pls_golite062009
ATPase activity, coupled	2.18396165590908	bayes_pls_golite062009
RNA helicase activity	1.42791449104435	bayes_pls_golite062009
nucleic acid binding	1.41477043612798	bayes_pls_golite062009
RNA-dependent ATPase activity	1.39335733374328	bayes_pls_golite062009
ATP-dependent RNA helicase activity	1.36724390116598	bayes_pls_golite062009
motor activity	1.34881124154297	bayes_pls_golite062009
substrate-specific transporter activity	1.29730375126024	bayes_pls_golite062009
protein binding	1.22129154759482	bayes_pls_golite062009
DNA binding	1.11699929651302	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
transcription regulator activity	0.989226939888218	bayes_pls_golite062009
purine nucleotide binding	0.929901285538132	bayes_pls_golite062009
nucleotide binding	0.922442819194247	bayes_pls_golite062009
purine ribonucleotide binding	0.920987930180051	bayes_pls_golite062009
ribonucleotide binding	0.920926158369519	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.906554174337376	bayes_pls_golite062009
ribonuclease activity	0.712344060953362	bayes_pls_golite062009
helicase activity	0.6191010101321	bayes_pls_golite062009
ligase activity	0.491120745447751	bayes_pls_golite062009
	0.442119153778711	bayes_pls_golite062009
active transmembrane transporter activity	0.434775387083003	bayes_pls_golite062009
ATP binding	0.41092997612902	bayes_pls_golite062009
adenyl ribonucleotide binding	0.385813421701492	bayes_pls_golite062009
adenyl nucleotide binding	0.377870145186619	bayes_pls_golite062009
ion transmembrane transporter activity	0.355466224802969	bayes_pls_golite062009
microtubule motor activity	0.32730260506261	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.29664013896754	bayes_pls_golite062009
ATP-dependent helicase activity	0.29664013896754	bayes_pls_golite062009
primary active transmembrane transporter activity	0.294474570607914	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	0.282352478532746	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	0.220608508617331	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	0.219533217661421	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	0.219157471322311	bayes_pls_golite062009
GTPase activity	0.105546189348878	bayes_pls_golite062009
microfilament motor activity	0.10236059675512	bayes_pls_golite062009
transcription factor activity	0.0434163635422169	bayes_pls_golite062009
protein transporter activity	0.0397092337273124	bayes_pls_golite062009
guanyl nucleotide binding	0.0289841199143713	bayes_pls_golite062009
RNA binding	0.0261282189186349	bayes_pls_golite062009
cation transmembrane transporter activity	0.0254369227200564	bayes_pls_golite062009
guanyl ribonucleotide binding	0.0187537754688351	bayes_pls_golite062009
GTP binding	0.0171298013679982	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