YRC Public Data Repository - Protein Structure Prediction

Protein:	RRP45
Organism:	Saccharomyces cerevisiae
Length:	305 amino acids
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

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for RRP45.

Description	E-value	Query Range	Subject Range
gi\|12847890 - gi\|12847890\|dbj\|BAB27749.1\| unnamed protein product [Mus musculus]	3.0E-64	[3..300]	[2..286]
RRP42_PYRFU - Exosome complex component Rrp42 OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc... ECX2_PYRFU - Probable exosome complex exonuclease 2 OS=Pyrococcus furiosus GN=PF1567 PE=3 SV=1	5.0E-63	[1..285]	[1..271]
SPCC757.08 - exosome subunit Rrp45 RRP45_SCHPO - Exosome complex component rrp45 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rrp45 PE=3...	7.0E-63	[1..303]	[1..290]
CER7L_ARATH - Exosome complex component RRP45A OS=Arabidopsis thaliana GN=RRP45A PE=2 SV=1	1.0E-62	[7..293]	[11..287]
ECX2_SULTO - Probable exosome complex exonuclease 2 OS=Sulfolobus tokodaii GN=ST0442 PE=3 SV=1 RRP42_SULTO - Exosome complex component Rrp42 OS=Sulfolobus tokodaii (strain DSM 16993 / JCM 10545 / NBRC 100140 /...	2.0E-60	[2..284]	[6..274]
ECX2_PYRHO - Probable exosome complex exonuclease 2 OS=Pyrococcus horikoshii GN=PH1548 PE=3 SV=1 RRP42_PYRHO - Exosome complex component Rrp42 OS=Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 ...	2.0E-60	[1..288]	[1..274]
Rrp45-PA, FBpp03... - The gene Rrp45 is referred to in FlyBase by the symbol Dmel\Rrp45 (CG9606, FBgn0030789). It is a pro... gi\|220949552, gi... - gi\|220958432\|gb\|ACL91759.1\| Rrp45-PA [synthetic construct], gi\|220949552\|gb\|ACL87319.1\| Rrp45-PA [sy...	1.0E-58	[8..292]	[13..284]
PNP_RALSO - Polyribonucleotide nucleotidyltransferase OS=Ralstonia solanacearum GN=pnp PE=3 SV=1 PNP_RALSO - Polyribonucleotide nucleotidyltransferase OS=Ralstonia solanacearum (strain GMI1000) GN=pnp PE=3 SV=...	2.0E-58	[4..297]	[294..555]

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Predicted Domain #1

Region A:
Residues: [1-34]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAKDIEISAS ESKFILEALR QNYRLDGRSF DQFR

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [195-274]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 CVTFSFFNPQ DTEENIKGET NSEISIIDAT LKEELLRDGV LTVTLNKNRE VVQVSKAGGL  60
   61 PMDALTLMKC CHEAYSIIEK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.522879
Match:	1e3pA_
Description:	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3; S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
exoribonuclease activity	7.55877202113513	bayes_pls_golite062009
ribonuclease activity	7.54644729272203	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	7.5310318714913	bayes_pls_golite062009
3'-5'-exoribonuclease activity	6.46930372693262	bayes_pls_golite062009
3'-5' exonuclease activity	4.29895100594643	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	3.83939403332553	bayes_pls_golite062009
exonuclease activity	3.40686901061667	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	2.86434572018929	bayes_pls_golite062009
RNA binding	2.05527376734941	bayes_pls_golite062009
structural constituent of ribosome	1.90115575554186	bayes_pls_golite062009
structural molecule activity	1.69321127364043	bayes_pls_golite062009
hydrolase activity	1.55476709794855	bayes_pls_golite062009
transcription regulator activity	1.20748032530392	bayes_pls_golite062009
mRNA binding	1.17402119891853	bayes_pls_golite062009
nucleic acid binding	1.05662964529454	bayes_pls_golite062009
binding	0.907487229190259	bayes_pls_golite062009
catalytic activity	0.878454819018611	bayes_pls_golite062009
DNA binding	0.828609700556836	bayes_pls_golite062009
nuclease activity	0.69721312877891	bayes_pls_golite062009
carbohydrate kinase activity	0.51810239718467	bayes_pls_golite062009
tRNA-specific ribonuclease activity	0.383567539949931	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.0287026367466632	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [35-194]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DVEITFGKEF GDVSVKMGNT KVHCRISCQI AQPYEDRPFE GLFVISTEIS PMAGSQFENG  60
   61 NITGEDEVLC SRIIEKSVRR SGALDVEGLC IVAGSKCWAV RADVHFLDCD GGFIDASCIA 120
  121 VMAGLMHFKK PDITVHGEQI IVHPVNEREP VPLGILHIPI

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [275-305]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ITDQILQLLK EDSEKRNKYA AMLTSENARE I

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	50.522879
Match:	1e3pA_
Description:	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3; S1 RNA-binding domain of polyribonucleotide phosphorylase, PNPase; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 1 and 4; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 6; Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domains 2 and 5
Matching Structure (courtesy of the PDB):

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

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: