Protein Overview: MRD1

General Information:
Name(s) found:	MRD1 / YPR112C [SGD]
Description(s) found: SHOW ONLY BEST	gi\|914983\|gb\|AAB68082.1\| Ypr112cp [Saccharomyces cerevisiae] [NCBI NR] gi\|74676381\|sp\|Q06106.1\|MRD1_YEAST RecName: Full=Multiple RNA-binding domain-containing protein 1 [NCBI NR] gi\|6325369\|ref\|NP_015437.1\| Essential conserved protein that associates with 35S precursor rRNA and is required for its initial processing at the A(0)-A(2) cleavage sites, shows partial nucleolar localization, contains five consensus RNA-binding domains; [NCBI NR] pir\|\|S59777 hypothetical protein YPR112c - yeast (Saccharomyces cerevisiae) [NCBI NR] Multiple RNA-binding domain-containing protein 1 OS=Saccharomyces cerevisiae GN=MRD1 PE=1 SV=1 [Swiss-Prot] MRD1 Protein that associates with 35S precursor rRNA and is required for its initial processing at the A(0)-A(2) cleavage sites [mips] Essential conserved protein that is part of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains [SGD] >Q06106 (Q06106) Hypothetical protein P8283.19 [4932.FASTACCERV.txt] Chr XVI from 751915-749252, reverse complement [hmr_yeast5_DM3-1_pombe.fasta] Chr XVI from 749253-751916, reverse complement [yeastorf3.fasta] MRD1, Chr XVI from 749253-751916, reverse complement [yeast_orfs2] MRD1 SGDID:S0006316, Chr XVI from 751915-749252, reverse complement, Verified ORF [yeastflysequest.fasta] MRD1 SGDID:S0006316, Chr XVI from 751917-749254, reverse complement, Verified ORF [10112005cervSGD.fasta] Essential conserved protein that associates with 35S precursor rRNA and is required for its initial processing at the A(0)-A(2) cleavage sites, shows partial nucleolar localization, contains five consensus RNA-binding domains [Saccharomyces cerevisiae]gi [nrdb_11152004_Chlamydomonas] (Q06106) Ypr112cp [cerv4932.FASTAC] MRD1 SGDID:S000006316, Chr XVI from 751917-749254, reverse complement, Verified ORF, "Essential conserved protein that associates with 35S precursor rRNA and is required for its initial processing at the A(0)-A(2) cleavage sites, shows partial nucleolar l [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] MRD1 SGDID:S000006316, Chr XVI from 751917-749254, reverse complement, Verified ORF, "Essential conserved protein that is part of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding dom [SGD_S-cerevisiae_na_08-19-2008_con_reversed.fasta] Essential conserved protein that associates with 35S precursor rRNA and is required for its initial processing at the A(0)-A(2) cleavage sites, shows partial nucleolar localization, contains five consensus RNA-binding domains; Mrd1p [Saccharomyces cerevis [nr-271106-contam.fasta] Multiple RNA-binding domain-containing protein 1 [nr-271106-contam.fasta] Ypr112cp [Saccharomyces cerevisiae] [nr-271106-contam.fasta] MRD1 SGDID:S000006316, Chr XVI from 751917-749254, reverse complement, Verified ORF, "Essential conserved protein that is part of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains" [yeast-bovrabprots.fasta] MRD1 SGDID:S000006316, Chr XVI from 751917-749254, reverse complement, Verified ORF, "Essential conserved protein that associates with 35S precursor rRNA and is required for its initial processing at the A(0)-A(2) cleavage sites, shows partial nucleolar localization, contains five consensus RNA-binding domains" [yeast-contam_custom.fasta] [chemostatdb.fasta] Multiple RNA-binding domain-containing protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MRD1 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] MRD1 SGDID:S000006316, Chr XVI from 751919-749256, Genome Release 64-1-1, reverse complement, Verified ORF, "Essential conserved protein that is part of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains" [yeast-030211-contam.fasta] MRD1 SGDID:S000006316, Chr XVI from 751919-749256, Genome Release 64-2-1, reverse complement, Verified ORF, "Essential conserved small ribosomal subunit (40s) synthesis factor; component of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains and binds to the pre-rRNA at two sites within the 18S region" [20141208_orf_trans.fasta] YPR112C SGDID:S000006316, Chr XVI from 751919-749256, Genome Release 64-1-1, reverse complement, Verified ORF, "Essential conserved protein that is part of the 90S preribosome; required for production of 18S rRNA and small ribosomal subunit; contains five consensus RNA-binding domains" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	887 amino acids
Gene Ontology:
Cellular Component:	nuclear outer membrane [IMP] nucleolus [IDA]
Biological Process:	endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [IMP] endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [IMP] small-subunit processome assembly [IMP] endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) [IMP] rRNA processing [IEA]
Molecular Function:	snoRNA binding [IDA] rRNA primary transcript binding [IDA]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSRIIVKGLP VYLTDDNLRE HFTKRLRQKH SHQAVNGSGP DLITDVKILR DRNGESRRFG  60
   61 FIGYRNEEDA FDAVEYFNGS FINTSKIEVS MAKSFADPRV PQPMKEKRRE ALKRFREKEE 120
  121 KLLQEENRKK KKVDENKHSN IDDEIRKNKQ LQEFMETMKP SSQVTSWEKV GIDKSIEDEK 180
  181 LKREEEDSSV QGNSLLAHAL ALKEENNKDE APNLVIENES DDEYSALNRN RDEDQEDAGE 240
  241 EEKMISISNL KDTDIGLVND DANSDEKENE KRRNLAQDEK VSDLDWFKQR RVRIKESEAE 300
  301 TREKSSSYAT EQNESLDTKK EEQPERAVPQ KTDEELAIEK INQTGRLFLR NILYTSKEED 360
  361 FRKLFSPFGE LEEVHVALDT RTGQSKGFAY VLFKDSKNAV NAYVELDKQI FQGRLLHILP 420
  421 GEEKKSHRLD EFDLKNMPLK KQKELKRKAA ASRQTFSWNS LYMNQDAVLG SVAAKLGLEK 480
  481 SQLIDAENSS SAVKQALAEA HVIGDVRKYF ESKGVDLTKF SQLKSTNQRD DKVILVKNFP 540
  541 FGTTREELGE MFLPYGKLER LLMPPAGTIA IVQFRDTTSA RAAFTKLSYK RFKDGIIYLE 600
  601 RGPKDCFTKP AEADDLINNT SAKEEENPVE VKPSSNDLME ANKDVTEGSS NAHDEDVIDG 660
  661 PTVSIFIKNL NFSTTNQNLT DRFKVFTGFV VAQVKTKPDP KHQGKTLSMG FGFVEFRTKE 720
  721 QANAVIAAMD GTVIDGHKIQ LKLSHRQASQ SGNTKTKSNK KSGKIIVKNL PFEATRKDVF 780
  781 ELFNSFGQLK SVRVPKKFDK SARGFAFVEF LLPKEAENAM DQLHGVHLLG RRLVMQYAEE 840
  841 DAVDAEEEIA RMTKKVRKQV ATNEMAALRN GGGRKKLDVD DEENEGF

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		BMS1 DIP2 MRD1 UTP22
View Details	Krogan NJ, et al. (2006)		GDT1 MRD1 NOP12 RRP17
View Details	Gavin AC, et al. (2006)		BMS1 CDC36 CMS1 DIP2 MRD1 NAN1 NOP58 PNO1 PWP2 ROK1 RPS10B RRP9 UTP10 UTP13 UTP15 UTP18 UTP21 UTP22 UTP4 UTP6 UTP7 UTP8 UTP9
View Details	Gavin AC, et al. (2002)		ADE4 ASC1 BFR2 BMS1 BRX1 BUD21 CBF5 CKA1 CKA2 CKB1 CKB2 CMS1 DBP8 DIA4 DIM1 DIP2 DIS3 ECM16 ECM29 EMG1 ENP1 ENP2 ERO1 ESF1 ESF2 FAP7 GCN1 HCA4 HHF1, HHF2 HSL1 HTA2 IMP3 IMP4 KRE33 KRR1 LCP5 LTV1 MPP10 MRD1 MVD1 NAN1 NOB1 NOC2 NOC4 NOP1 NOP14 NOP56 NOP58 NOP6 PNO1 PRE6 PRE9 PRP43 PWP2 RCL1 RML2 ROK1 RPP2B RRP12 RRP7 RRP9 RTG2 SAM1 SCL1 SEC21 SLX9 SOF1 TIF1, TIF2 TSR1 UTP10 UTP11 UTP13 UTP15 UTP18 UTP20 UTP21 UTP22 UTP30 UTP4 UTP6 UTP7 UTP8 UTP9 YOR059C
View Details	Qiu et al. (2008)		BRX1 DIP2 ENP1 HAS1 MRD1 NAN1 NSR1 PWP2 RRP3 RRP5 RRP9 SBP1 SOF1 UTP11 UTP15 UTP4 UTP5 UTP6 UTP7 UTP9

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
View Run	NAF1	No Comments	Hazbun TR, et al. (2003)
View Run	NOP9	No Comments	Hazbun TR, et al. (2003)
View Run	ZDS1	Sample 3 - cpn + atp, from june 2005	McCusker D, et al (2007)
View Run	MLP2	#24 Asynchronous Prep3-TiO2 Phosphopeptide enrichment	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	CDC34	MRD1	1	Unpublished Fields Lab Data
View Screen	TUB3	MRD1	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..113]	PSI-BLAST	7.0	Nucleolin
2	View Details	[114..316]	MSA	1.132995	View MSA. No confident structure predictions are available.
3	View Details	[317..423]	PSI-BLAST	121.232149	Poly(A)-binding protein
4	View Details	[424..528]	PSI-BLAST	121.232149	Poly(A)-binding protein
5	View Details	[529..627]	PSI-BLAST	41.980454	Nucleolin
6	View Details	[628..754]	PSI-BLAST	97.40824	Nuclear ribonucleoprotein A1 (RNP A1, UP1)
7	View Details	[755..887]	PSI-BLAST	97.40824	Nuclear ribonucleoprotein A1 (RNP A1, UP1)

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
RNA binding	6.04120049976231	bayes_pls_golite062009
mRNA binding	4.29904003387927	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
binding	3.44552682116509	bayes_pls_golite062009
	3.36965439092178	bayes_pls_golite062009
single-stranded RNA binding	2.32565125258004	bayes_pls_golite062009
poly-pyrimidine tract binding	1.99190411806363	bayes_pls_golite062009
structural molecule activity	1.29928829870122	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
protein binding	1.02232785292059	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snoRNA binding	0.87536768969411	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.764716918216811	bayes_pls_golite062009
snRNA binding	0.45487108214667	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009

No functions predicted.

Term	Confidence	Notes
RNA binding	6.04120049976231	bayes_pls_golite062009
mRNA binding	4.29904003387927	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
binding	3.44552682116509	bayes_pls_golite062009
	3.36965439092178	bayes_pls_golite062009
single-stranded RNA binding	2.32565125258004	bayes_pls_golite062009
poly-pyrimidine tract binding	1.99190411806363	bayes_pls_golite062009
structural molecule activity	1.29928829870122	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
protein binding	1.02232785292059	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snoRNA binding	0.87536768969411	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.764716918216811	bayes_pls_golite062009
snRNA binding	0.45487108214667	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009

Term	Confidence	Notes
RNA binding	6.04120049976231	bayes_pls_golite062009
mRNA binding	4.29904003387927	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
binding	3.44552682116509	bayes_pls_golite062009
	3.36965439092178	bayes_pls_golite062009
single-stranded RNA binding	2.32565125258004	bayes_pls_golite062009
poly-pyrimidine tract binding	1.99190411806363	bayes_pls_golite062009
structural molecule activity	1.29928829870122	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
protein binding	1.02232785292059	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snoRNA binding	0.87536768969411	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.764716918216811	bayes_pls_golite062009
snRNA binding	0.45487108214667	bayes_pls_golite062009
transcription factor activity	0.234742017105535	bayes_pls_golite062009

Term	Confidence	Notes
RNA binding	6.04120049976231	bayes_pls_golite062009
mRNA binding	4.29904003387927	bayes_pls_golite062009
nucleic acid binding	3.81920018903278	bayes_pls_golite062009
binding	3.44552682116509	bayes_pls_golite062009
	3.36965439092178	bayes_pls_golite062009
single-stranded RNA binding	2.32565125258004	bayes_pls_golite062009
poly-pyrimidine tract binding	1.99190411806363	bayes_pls_golite062009
structural molecule activity	1.29928829870122	bayes_pls_golite062009
transcription regulator activity	1.07788694919471	bayes_pls_golite062009
protein binding	1.02232785292059	bayes_pls_golite062009
DNA binding	0.978604858165557	bayes_pls_golite062009
snoRNA binding	0.87536768969411	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	0.764716918216811	bayes_pls_golite062009
snRNA binding	0.45487108214667	bayes_pls_golite062009
transcription factor activity	0.234742017105535	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