YRC Public Data Repository - Protein Structure Prediction

Protein:	MTR3
Organism:	Saccharomyces cerevisiae
Length:	250 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 MTR3.

Description	E-value	Query Range	Subject Range
gi\|25311841, gi\|... - pir\|\|AE2586 polyribonucleotide nucleotidyltransferase pnpA [imported] - Agrobacterium tumefaciens (s... PNP_AGRFC - Polyribonucleotide nucleotidyltransferase OS=Agrobacterium fabrum (strain C58 / ATCC 33970) GN=pnp P...	1.0E-59	[14..249]	[292..528]
PNP_BRUME - Polyribonucleotide nucleotidyltransferase OS=Brucella melitensis GN=pnp PE=3 SV=1 PNP_BRUME - Polyribonucleotide nucleotidyltransferase OS=Brucella melitensis biotype 1 (strain 16M / ATCC 23456 ... PNP_BRUMB - Polyribonucleotide nucleotidyltransferase OS=Brucella melitensis biotype 2 (strain ATCC 23457) GN=pn...	3.0E-59	[13..249]	[292..529]
PNP_RHILO - Polyribonucleotide nucleotidyltransferase OS=Rhizobium loti (strain MAFF303099) GN=pnp PE=3 SV=1 PNP_RHILO - Polyribonucleotide nucleotidyltransferase OS=Rhizobium loti GN=pnp PE=3 SV=1	2.0E-58	[13..249]	[292..529]
PNP_RHIME - Polyribonucleotide nucleotidyltransferase OS=Rhizobium meliloti GN=pnp PE=3 SV=1 PNP_RHIME - Polyribonucleotide nucleotidyltransferase OS=Rhizobium meliloti (strain 1021) GN=pnp PE=3 SV=1	6.0E-58	[13..249]	[292..529]
PNP_CAUCR - Polyribonucleotide nucleotidyltransferase OS=Caulobacter crescentus GN=pnp PE=3 SV=1 PNP_CAUCR - Polyribonucleotide nucleotidyltransferase OS=Caulobacter crescentus (strain ATCC 19089 / CB15) GN=pn... PNP_CAUCN - Polyribonucleotide nucleotidyltransferase OS=Caulobacter crescentus (strain NA1000 / CB15N) GN=pnp P...	1.0E-57	[16..249]	[295..529]
PNP_FUSNN - Polyribonucleotide nucleotidyltransferase OS=Fusobacterium nucleatum subsp. nucleatum (strain ATCC 2... PNP_FUSNN - Polyribonucleotide nucleotidyltransferase OS=Fusobacterium nucleatum subsp. nucleatum GN=pnp PE=3 SV...	3.0E-57	[15..248]	[305..539]
PNP_CHLMU - Polyribonucleotide nucleotidyltransferase OS=Chlamydia muridarum GN=pnp PE=3 SV=1 PNP_CHLMU - Polyribonucleotide nucleotidyltransferase OS=Chlamydia muridarum (strain MoPn / Nigg) GN=pnp PE=3 SV...	3.0E-57	[14..249]	[294..526]
gi\|11279140 - pir\|\|H81943 probable polyribonucleotide nucleotidyltransferase (EC 2.7.7.8) NMA0969 [imported] - Nei... PNP_NEIMA - Polyribonucleotide nucleotidyltransferase OS=Neisseria meningitidis serogroup A / serotype 4A (strai... PNP_NEIMA - Polyribonucleotide nucleotidyltransferase OS=Neisseria meningitidis serogroup A GN=pnp PE=3 SV=1	4.0E-57	[13..249]	[291..528]
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=...	4.0E-57	[9..249]	[286..527]
gi\|47015662, gi\|... - gi\|47095916\|ref\|ZP_00233519.1\| polyribonucleotide nucleotidyltransferase [Listeria monocytogenes str... PNP_LISMO - Polyribonucleotide nucleotidyltransferase OS=Listeria monocytogenes serovar 1/2a (strain ATCC BAA-67... PNP_LISMO - Polyribonucleotide nucleotidyltransferase OS=Listeria monocytogenes GN=pnp PE=3 SV=1 gi\|153183693, gi... - gi\|254898504\|ref\|ZP_05258428.1\| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes J... gi\|127765716, gi... - gi\|254912005\|ref\|ZP_05262017.1\| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes J... gi\|153174411, gi... - gi\|254827592\|ref\|ZP_05232279.1\| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes F... gi\|224501726 - gi\|224501726\|ref\|ZP_03670033.1\| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes F... gi\|254936332, gi... - gi\|254936332\|ref\|ZP_05268029.1\| polynucleotide phosphorylase/polyadenylase [Listeria monocytogenes F...	1.0E-56	[18..249]	[301..529]

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Predicted Domain #1

Region A:
Residues: [1-44]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNVQDRRRLL GPAAAKPMAF SNTTTHVPEK KSTDLTPKGN ESEQ

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [194-250]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GEANGTVVSF IKNGEEIVGF WKDDGDDEDL LECLDRCKEQ YNRYRDLMIS CLMNQET

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.522879
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
tRNA-specific ribonuclease activity	0.383567539949931	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [45-193]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ELSLHTGFIE NCNGSALVEA RSLGHQTSLI TAVYGPRSIR GSFTSQGTIS IQLKNGLLEK  60
   61 YNTNELKEVS SFLMGIFNSV VNLSRYPKSG IDIFVYLTYD KDLTNNPQDD DSQSKMMSSQ 120
  121 ISSLIPHCIT SITLALADAG IELVDMAGA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.522879
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: