Protein Overview: PRP42

General Information:
Name(s) found:	PRP42 / YDR235W [SGD]
Description(s) found: SHOW ONLY BEST	gi\|817821\|emb\|CAA89721.1\| unknown [Saccharomyces cerevisiae] [NCBI NR] gi\|74627182\|sp\|Q03776.1\|PRP42_YEAST RecName: Full=U1 small nuclear ribonucleoprotein component PRP42; Short=U1 snRNP protein PRP42; AltName: Full=Pre-mRNA-processing factor 42; AltName: Full=65 kDa snRNP protein [NCBI NR] gi\|6320441\|ref\|NP_010521.1\| U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats; Prp42p [Saccharomyces cerevisiae] [NCBI NR] gi\|2444426\|gb\|AAB81948.1\| U1 snRNP protein [Saccharomyces cerevisiae] [NCBI NR] pir\|\|S54531 hypothetical protein YDR235w - yeast (Saccharomyces cerevisiae) [NCBI NR] U1 small nuclear ribonucleoprotein component PRP42 OS=Saccharomyces cerevisiae GN=PRP42 PE=1 SV=1 [Swiss-Prot] PRP42 U1 snRNP associated protein, required for pre-mRNA splicing [mips] U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats [SGD] PRP42, Chr IV from 933495-935129 [yeast_orfs2] Chr IV from 933495-935129 [yeastorf3.fasta] >Q03776 (Q03776) Hypothetical protein [4932.FASTACCERV.txt] PRP42 SGDID:S0002643, Chr IV from 933496-935130, Verified ORF [yeastflysequest.fasta] PRP42 SGDID:S0002643, Chr IV from 933498-935132, Verified ORF [10112005cervSGD.fasta] Prp42p [Saccharomyces cerevisiae]gi\|817821\|emb\|CAA89721.1\| unknown [Saccharomyces cerevisiae]gi\|1078494\|pir\|\|S54531 hypothetical protein YDR235w - yeast (Saccharomyces cerevisiae)gi\|2444426\|gb\|AAB81948.1\| U1 snRNP protein [Saccharomyces cerevisiae] [nrdb_11152004_Chlamydomonas] (Q03776) Hypothetical protein (U1 snRNP protein) [cerv4932.FASTAC] PRP42 SGDID:S000002643, Chr IV from 933498-935132, Verified ORF, "U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats" [SGD_S-cerevisiae_na_12-16-2005_con_reversed.fasta] PRP42 SGDID:S000002643, Chr IV from 933500-935134, Verified ORF, "U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats" [yeast-contam.fasta] PRP42 SGDID:S000002643, Chr IV from 933501-935135, Verified ORF, "U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats" [SGD_S-cerevisiae_na_08-19-2008_con_reversed.fasta] U1 snRNP protein [Saccharomyces cerevisiae] [nr-271106-contam.fasta] unknown [Saccharomyces cerevisiae] [nr-271106-contam.fasta] U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats; Prp42p [Saccharomyces cerevisiae] [nr-271106-contam.fasta] [chemostatdb.fasta] U1 small nuclear ribonucleoprotein component PRP42 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRP42 PE=1 SV=1 [UniProt_S_cerevisiae_20120516_05-16-2012_reversed.fasta] PRP42 SGDID:S000002643, Chr IV from 933504-935138, Genome Release 64-1-1, Verified ORF, "U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats" [yeast-030211-contam.fasta] PRP42 SGDID:S000002643, Chr IV from 933504-935138, Genome Release 64-2-1, Verified ORF, "U1 snRNP protein involved in splicing; required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats" [20141208_orf_trans.fasta] YDR235W SGDID:S000002643, Chr IV from 933504-935138, Genome Release 64-1-1, Verified ORF, "U1 snRNP protein involved in splicing, required for U1 snRNP biogenesis; contains multiple tetriatricopeptide repeats" [2016-01-SGD_Yeast_Contam_Riffle_20140507-Ska-Hec-110-tubulin.fasta]
Organism:	Saccharomyces cerevisiae
Length:	544 amino acids
Gene Ontology:
Cellular Component:	U1 snRNP [IDA ]
Biological Process:	nuclear mRNA splicing, via spliceosome [IMP]
Molecular Function:	RNA binding [IDA]

Sequence:

Sequence:
[PDR BLAST]
[ProtParam]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDKYTALIHD ENFSTLTLNV SRYPKSLAYW EKLLNYIVKA SAPICKSTEP QLLKLIRCTY  60
   61 SSMLNEFPYL ENYYIDFALL EYKLGNVSMS HKIFQRGLQA FNQRSLLLWT SYLKFCNNVI 120
  121 SHQKQLFKKY ETAEEYVGLH FFSGEFWDLY LEQISSRCTS SKKYWNVLRK ILEIPLHSFS 180
  181 KFYALWLQRI DDIMDLKQLS QLTSKDELLK KLKIDINYSG RKGPYLQDAK KKLKKITKEM 240
  241 YMVVQYQVLE IYSIFESKIY INYYTSPETL VSSDEIETWI KYLDYTITLQ TDSLTHLNFQ 300
  301 RALLPLAHYD LVWIKYSKWL INSKNDLLGA KNVLLMGLKF SLKKTEIIKL LYSVICKLNE 360
  361 YVLLRNLLEK IESSYSDNVE NVDDFEIFWD YLQFKTFCQN SLYSSRYSDS QSNGLLNKEL 420
  421 FDKVWKRLSC KEKKSGQEIL LNNLVQFYSK DTVEFVEKNI FQKIIEFGWE YYLQNGMFWN 480
  481 CYCRLIYFDT SRSYLDKRQY IVRKIWPQID KKFAQSVLPS LTEFCESYFP EEMDTLEEMF 540
  541 TEEP

Protein Complex Data

	PUBLICATION	TOPOLOGY	COCOMPLEXED PROTEINS
View Details	Riffle et al. (2010) (Unpublished Data)		CBC2 LUC7 MUD1 NAM8 PRP39 PRP4 PRP40 PRP42 RSE1 SMB1 SMD1 SMD2 SMD3 SNP1 SNU114 SNU56 SNU71 STO1 YHC1
View Details	Krogan NJ, et al. (2006)		AAR2 BRR1 BRR2 CSE1 LUC7 MUD1 NAM8 PRP2 PRP3 PRP31 PRP39 PRP40 PRP42 PRP6 PRP8 RRG7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNU114 SNU56 SNU66 SNU71 TAD2 YDL085C-A YHC1 YJU2 YNL092W
View Details	Gavin AC, et al. (2006)		LUC7 MUD1 NAM8 PRP39 PRP40 PRP42 SNP1 SNU56 SNU71 YHC1
View Details	Gavin AC, et al. (2002)		AAR2 AIR2 BRR1 BUD31 BUR2 CBC2 CDC33 CEF1 CLF1 CSN12 CUS1 CWC2 CWC22 CWC23 DHH1 DIB1 ECM2 GCN2 HRT1 HSH155 HSH49 HTA1 IMG1 KAP95 LEA1 LIN1 LSM1 LSM2 LSM4 LSM5 LSM6 LSM7 LUC7 MRP7 MRPL28 MRPL3 MRPL35 MRPL38 MRPL4 MRPL8 MRPS5 MSH4 MSL1 MUD1 NAB3 NAB6 NAM8 NPL3 NRD1 NUP60 PAT1 PRP11 PRP18 PRP19 PRP21 PRP24 PRP28 PRP3 PRP31 PRP38 PRP39 PRP4 PRP40 PRP42 PRP43 PRP46 PRP6 PRP8 PRP9 RSE1 RVB2 SCP160 SEN1 SGV1 SLU7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNT309 SNU114 SNU23 SNU56 SNU66 SNU71 SPP381 SPP382 SRB2 SRO9 SRP1 STO1 SYF1 THO2 TIF4631 TIF4632 TOS4 UTP21 YEF3 YML6 YRA2
View Details	Qiu et al. (2008)		AAR2 BRR1 BRR2 CBC2 CDC40 CEF1 CLF1 CUS1 CUS2 CWC15 CWC2 CWC22 CWC23 CWC25 DIB1 HSH155 IST3 ISY1 LEA1 LSM3 LSM4 LSM5 LSM7 LSM8 LUC7 MAK5 MSL1 MUD1 MUD2 NAM8 NTC20 PRP16 PRP18 PRP19 PRP2 PRP22 PRP24 PRP28 PRP3 PRP31 PRP38 PRP39 PRP4 PRP40 PRP42 PRP43 PRP5 PRP6 PRP8 PRP9 RSE1 SLU7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNT309 SNU114 SNU23 SNU56 SNU66 SNU71 SPP2 SPP381 SPP382 STO1 SUB2 SYF2 YHC1

Mass Spectrometry Data

The following runs contain data for this protein:

	BAIT	COMMENTS	PUBLICATION
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	PRP42	NFI1	2	Unpublished Fields Lab Data
View Screen	PRP42	MNS1	2	Unpublished Fields Lab Data
View Screen	PRP42	PEX19	2	Unpublished Fields Lab Data
View Screen	PRP42	APP1	2	Unpublished Fields Lab Data
View Screen	PRP42	FOB1	2	Unpublished Fields Lab Data
View Screen	PRP42	MRPL27	1	Unpublished Fields Lab Data
View Screen	PRP42	RAD6	1	Unpublished Fields Lab Data
View Screen	PRP42	APS2	1	Unpublished Fields Lab Data
View Screen	PRP42	YMR155W	1	Unpublished Fields Lab Data
View Screen	PRP42	TOM6	1	Unpublished Fields Lab Data
View Screen	PRP42	YCG1	1	Unpublished Fields Lab Data
View Screen	PRP42	LIP2	1	Unpublished Fields Lab Data
View Screen	PRP42	NFS1	1	Unpublished Fields Lab Data
View Screen	PRP42	YGR042W	1	Unpublished Fields Lab Data
View Screen	PRP42	RPA12	1	Unpublished Fields Lab Data
View Screen	PRP42	AIM36	1	Unpublished Fields Lab Data
View Screen	PRP42	ANP1	1	Unpublished Fields Lab Data
View Screen	PRP42	GSF2	1	Unpublished Fields Lab Data
View Screen	PRP42	SRO9	1	Unpublished Fields Lab Data
View Screen	PRP42	ESP1	1	Unpublished Fields Lab Data
View Screen	PRP42	GRR1	1	Unpublished Fields Lab Data
View Screen	PRP42	DNF3	1	Unpublished Fields Lab Data
View Screen	PRP42	RPB10	1	Unpublished Fields Lab Data
View Screen	PRP42	YEL074W	1	Unpublished Fields Lab Data
View Screen	PRP42	YNL108C	1	Unpublished Fields Lab Data
View Screen	PRP42	YCR087W	1	Unpublished Fields Lab Data
View Screen	PRP42	AMA1	1	Unpublished Fields Lab Data
View Screen	PRP42	RGM1	1	Unpublished Fields Lab Data
View Screen	PRP42	PLP2	1	Unpublished Fields Lab Data
View Screen	PRP42	GIP2	1	Unpublished Fields Lab Data
View Screen	PRP42	CTR9	1	Unpublished Fields Lab Data
View Screen	PRP42	YCR099C	1	Unpublished Fields Lab Data
View Screen	PRP42	PFK1	1	Unpublished Fields Lab Data
View Screen	PRP42	HOM6	1	Unpublished Fields Lab Data
View Screen	PRP42	TMA23	1	Unpublished Fields Lab Data
View Screen	PRP42	MET12	1	Unpublished Fields Lab Data
View Screen	PRP42	FCY2	1	Unpublished Fields Lab Data
View Screen	PRP42	WHI2	1	Unpublished Fields Lab Data
View Screen	PRP42	GND2	1	Unpublished Fields Lab Data
View Screen	PRP42	SHE2	1	Unpublished Fields Lab Data
View Screen	PRP42	FCP1	1	Unpublished Fields Lab Data
View Screen	PRP42	ATG21	1	Unpublished Fields Lab Data
View Screen	PRP42	PCL6	1	Unpublished Fields Lab Data
View Screen	PRP42	IPL1	1	Unpublished Fields Lab Data
View Screen	PRP42	BDF2	1	Unpublished Fields Lab Data
View Screen	PRP42	PXR1	1	Unpublished Fields Lab Data
View Screen	PRP42	SRP102	1	Unpublished Fields Lab Data
View Screen	PRP42	SIS1	1	Unpublished Fields Lab Data
View Screen	PRP42	HSP32	1	Unpublished Fields Lab Data
View Screen	PRP42	SER3	1	Unpublished Fields Lab Data
View Screen	PRP42	NRP1	1	Unpublished Fields Lab Data
View Screen	PRP42	YHL037C	1	Unpublished Fields Lab Data
View Screen	PRP42	SPC34	1	Unpublished Fields Lab Data
View Screen	PRP42	EAF3	1	Unpublished Fields Lab Data
View Screen	PRP42	SLX8	1	Unpublished Fields Lab Data
View Screen	PRP42	SLT2	1	Unpublished Fields Lab Data
View Screen	PRP42	TPO1	1	Unpublished Fields Lab Data
View Screen	PRP42	RPS3	1	Unpublished Fields Lab Data
View Screen	PRP42	RTG3	1	Unpublished Fields Lab Data
View Screen	PRP42	IKI1	1	Unpublished Fields Lab Data
View Screen	PRP42	HMO1	1	Unpublished Fields Lab Data
View Screen	PRP42	PAN5	1	Unpublished Fields Lab Data
View Screen	PRP42	RIC1	1	Unpublished Fields Lab Data
View Screen	PRP42	POL2	1	Unpublished Fields Lab Data
View Screen	PRP42	ERV15	1	Unpublished Fields Lab Data
View Screen	PRP42	YJL064W	1	Unpublished Fields Lab Data
View Screen	PRP42	FUN30	1	Unpublished Fields Lab Data
View Screen	PRP42	LYS4	1	Unpublished Fields Lab Data
View Screen	PRP42	SBE22	1	Unpublished Fields Lab Data
View Screen	PRP42	HOG1	1	Unpublished Fields Lab Data
View Screen	PRP42	BSC5	1	Unpublished Fields Lab Data
View Screen	PRP42	POL4	1	Unpublished Fields Lab Data
View Screen	PRP42	YJL067W	1	Unpublished Fields Lab Data
View Screen	PRP42	SWH1	1	Unpublished Fields Lab Data
View Screen	PRP42	YDR306C	1	Unpublished Fields Lab Data
View Screen	PRP42	IKI1	1	Unpublished Fields Lab Data
View Screen	PRP42	SPP382	1	Unpublished Fields Lab Data
View Screen	PRP42	NOP12	1	Unpublished Fields Lab Data
View Screen	PRP42	UGX2	1	Unpublished Fields Lab Data
View Screen	PRP42	YJL135W	1	Unpublished Fields Lab Data
View Screen	PRP42	YBL083C	1	Unpublished Fields Lab Data
View Screen	PRP42	BCP1	1	Unpublished Fields Lab Data
View Screen	PRP42	AXL2	1	Unpublished Fields Lab Data
View Screen	PRP42	HMG2	1	Unpublished Fields Lab Data
View Screen	PRP42	RTG1	1	Unpublished Fields Lab Data
View Screen	PRP42	NUS1	1	Unpublished Fields Lab Data
View Screen	PRP42	IRC9	1	Unpublished Fields Lab Data
View Screen	PRP42	RTG3	1	Unpublished Fields Lab Data
View Screen	PRP42	KRE2	1	Unpublished Fields Lab Data
View Screen	PRP42	MHP1	1	Unpublished Fields Lab Data
View Screen	PRP42	SPT5	1	Unpublished Fields Lab Data
View Screen	PRP42	NBA1	1	Unpublished Fields Lab Data
View Screen	PRP42	GGC1	1	Unpublished Fields Lab Data
View Screen	PRP42	GRR1	1	Unpublished Fields Lab Data
View Screen	PRP42	HSP26	1	Unpublished Fields Lab Data
View Screen	PRP42	YDR539W	1	Unpublished Fields Lab Data
View Screen	PRP42	BIT61	1	Unpublished Fields Lab Data
View Screen	PRP42	RPS1B	1	Unpublished Fields Lab Data
View Screen	PRP42	MDY2	1	Unpublished Fields Lab Data
View Screen	PRP42	YDR131C	1	Unpublished Fields Lab Data
View Screen	PRP42	YEH1	1	Unpublished Fields Lab Data
View Screen	PRP42	MRPL36	1	Unpublished Fields Lab Data
View Screen	PRP42	PTP3	1	Unpublished Fields Lab Data
View Screen	PRP42	BCK1	1	Unpublished Fields Lab Data
View Screen	PRP42	TDA9	1	Unpublished Fields Lab Data
View Screen	PRP42	CKB2	1	Unpublished Fields Lab Data
View Screen	PRP42	GCD6	1	Unpublished Fields Lab Data
View Screen	PRP42	DIP2	1	Unpublished Fields Lab Data

Microscopy / Localization Data

New Feature: Upload Your Own Microscopy Data

	PROTEIN(S)	PUBLICATION
View Data	PRP42	Huh WK, et al. (2003)

Protein Structure Data

[What does the above image mean?]
[View Top Sequence Alignments] [Show Ginzu Version Information]

Domains predicted:

#		Region(s)	Method	Confidence	Match Description
1	View Details	[1..193]	PSI-BLAST	16.045757	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
2	View Details	[194..290]	PSI-BLAST	16.045757	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
3	View Details	[291..409]	PSI-BLAST	16.045757	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
4	View Details	[410..544]	deduced	N/A	No confident structure predictions are available.

Functions predicted (by domain):

Gene Ontology predictions

Term	Confidence	Notes
RNA binding	2.76684454218635	bayes_pls_golite062009
binding	2.12690485191789	bayes_pls_golite062009
transcription regulator activity	1.26149030245805	bayes_pls_golite062009
DNA binding	0.9531600253493	bayes_pls_golite062009
protein binding	0.931467806305272	bayes_pls_golite062009
nucleic acid binding	0.93037889019021	bayes_pls_golite062009
transcription factor activity	0.374364600772076	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