YRC Public Data Repository - Protein Structure Prediction

Protein:	PUS5
Organism:	Saccharomyces cerevisiae
Length:	254 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 PUS5.

Description	E-value	Query Range	Subject Range
gi\|32468746, gi\|... - gi\|50812225\|ref\|NP_389429.2\| hypothetical protein BSU15460 [Bacillus subtilis subsp. subtilis str. 1... YLYB_BACSU - Uncharacterized RNA pseudouridine synthase ylyB OS=Bacillus subtilis GN=ylyB PE=3 SV=2	1.0E-61	[1..253]	[74..297]
gi\|16414458, gi\|... - pir\|\|AC1677 conserved hypothetical protein homolog lin1957 [imported] - Listeria innocua (strain Cli... gi\|16801023 - gi\|16801023\|ref\|NP_471291.1\| hypothetical protein lin1957 [Listeria innocua Clip11262]	8.0E-60	[1..235]	[73..302]
gi\|168206096, gi... - gi\|170662443\|gb\|EDT15126.1\| pseudouridine synthase, RluA family [Clostridium perfringens E str. JGS1... gi\|168210787, gi... - gi\|170711120\|gb\|EDT23302.1\| pseudouridine synthase, RluA family [Clostridium perfringens B str. ATCC... gi\|18145514, gi\|... - gi\|18310832\|ref\|NP_562766.1\| hypothetical protein CPE1850 [Clostridium perfringens str. 13], gi\|1814... gi\|110676009, gi... - gi\|110801362\|ref\|YP_696533.1\| RluA family pseudouridine synthase [Clostridium perfringens ATCC 13124...	1.0E-59	[2..234]	[77..306]
gi\|224500073 - gi\|224500073\|ref\|ZP_03668422.1\| hypothetical protein LmonF1_10499 [Listeria monocytogenes Finland 19... gi\|224501356 - gi\|224501356\|ref\|ZP_03669663.1\| hypothetical protein LmonFR_02345 [Listeria monocytogenes FSL R2-561... gi\|254936728 - gi\|254936728\|ref\|ZP_05268425.1\| hypothetical protein LmonF6_06361 [Listeria monocytogenes F6900] gi\|153183332, gi... - gi\|254899460\|ref\|ZP_05259384.1\| hypothetical protein LmonJ_06589 [Listeria monocytogenes J0161], gi\|... gi\|255027649 - gi\|255027649\|ref\|ZP_05299635.1\| hypothetical protein LmonocytFSL_17157 [Listeria monocytogenes FSL J... gi\|254831556, gi... - gi\|254831556\|ref\|ZP_05236211.1\| hypothetical protein Lmon1_09383 [Listeria monocytogenes 10403S], gi... gi\|16803883 - gi\|16803883\|ref\|NP_465368.1\| hypothetical protein lmo1843 [Listeria monocytogenes EGD-e] gi\|153191347, gi... - gi\|254912401\|ref\|ZP_05262413.1\| hypothetical protein LmonJ2_06371 [Listeria monocytogenes J2818], gi... gi\|254829161, gi... - gi\|254829161\|ref\|ZP_05233848.1\| hypothetical protein LmonocytogeFSL_11931 [Listeria monocytogenes FS... gi\|16411297, gi\|... - pir\|\|AC1305 conserved hypothetical proteins homolog lmo1843 [imported] - Listeria monocytogenes (str... gi\|47013931, gi\|... - gi\|47097693\|ref\|ZP_00235203.1\| ribosomal large subunit pseudouridine synthase, RluD subfamily [Liste...	4.0E-59	[1..235]	[73..302]
gi\|15615105, gi\|... - gi\|15615105\|ref\|NP_243408.1\| hypothetical protein BH2542 [Bacillus halodurans C-125], gi\|10175162\|db... gi\|25322336 - pir\|\|F83967 hypothetical protein BH2542 [imported] - Bacillus halodurans (strain C-125)	1.0E-58	[3..254]	[77..300]
gi\|25322325 - pir\|\|F86749 pseudouridine synthase [imported] - Lactococcus lactis subsp. lactis (strain IL1403) gi\|12723945, gi\|... - gi\|15672980\|ref\|NP_267154.1\| ribosomal large subunit pseudouridine synthase D [Lactococcus lactis su...	3.0E-58	[2..232]	[72..298]
gi\|57651766, gi\|... - gi\|57651766\|ref\|YP_186072.1\| ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus... gi\|15924187, gi\|... - gi\|15924187\|ref\|NP_371721.1\| ribosomal large subunit psudouridine synthase D [Staphylococcus aureus ... gi\|15926780, gi\|... - gi\|15926780\|ref\|NP_374313.1\| hypothetical protein SA1040 [Staphylococcus aureus subsp. aureus N315],... gi\|25322395 - pir\|\|H89891 conserved hypothetical protein SA1040 [imported] - Staphylococcus aureus (strain N315) gi\|156721653, gi... - gi\|156979518\|ref\|YP_001441777.1\| hypothetical protein SAHV_1187 [Staphylococcus aureus subsp. aureus... gi\|88194903, gi\|... - gi\|88194903\|ref\|YP_499703.1\| hypothetical protein SAOUHSC_01163 [Staphylococcus aureus subsp. aureus... gi\|150374120, gi... - gi\|151221320\|ref\|YP_001332142.1\| pseudouridylate synthase [Staphylococcus aureus subsp. aureus str. ... gi\|255005984 - gi\|255005984\|ref\|ZP_05144585.2\| hypothetical protein SauraM_05925 [Staphylococcus aureus subsp. aure... gi\|253733565, gi... - gi\|253733565\|ref\|ZP_04867730.1\| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus T... gi\|253724413, gi... - gi\|253731814\|ref\|ZP_04865979.1\| pseudouridylate synthase RluD [Staphylococcus aureus subsp. aureus U... gi\|253315555 - gi\|253315555\|ref\|ZP_04838768.1\| hypothetical protein SauraC_05302 [Staphylococcus aureus subsp. aure... gi\|221138215 - gi\|221138215\|ref\|ZP_03563017.1\| hypothetical protein SauraJK_06143 [Staphylococcus aureus subsp. aur... gi\|221141987 - gi\|221141987\|ref\|ZP_03566480.1\| hypothetical protein SauraJ_10200 [Staphylococcus aureus subsp. aure... gi\|269202811\|ref... - ribosomal large subunit pseudouridine synthase D [Staphylococcus aureus subsp. aureus ED98] gi\|150393746, gi... - gi\|90584068\|ref\|ZP_01239813.1\| Pseudouridine synthase, RluD [Staphylococcus aureus subsp. aureus JH1... gi\|147740757, gi... - gi\|90586412\|ref\|ZP_01242110.1\| Pseudouridine synthase, RluD [Staphylococcus aureus subsp. aureus JH9...	6.0E-57	[1..229]	[75..298]
RLUD_NEIMB - Ribosomal large subunit pseudouridine synthase D OS=Neisseria meningitidis serogroup B GN=rluD PE=3 ... gi\|11279837 - pir\|\|A81168 ribosomal large chain pseudouridine synthase D NMB0704 [imported] - Neisseria meningitid... RLUD_NEIMB - Ribosomal large subunit pseudouridine synthase D OS=Neisseria meningitidis serogroup B (strain MC58)...	8.0E-57	[3..234]	[101..335]
RLUD_NEIMA - Ribosomal large subunit pseudouridine synthase D OS=Neisseria meningitidis serogroup A GN=rluD PE=3 ... gi\|11279836 - pir\|\|D81937 probable ribosomal large subunit pseudouridine synthase D NMA0908 [imported] - Neisseria... RLUD_NEIMA - Ribosomal large subunit pseudouridine synthase D OS=Neisseria meningitidis serogroup A / serotype 4A...	9.0E-57	[3..234]	[101..335]
gi\|225853117, gi... - gi\|225853117\|ref\|YP_002733350.1\| pseudouridine synthase, RluA family protein [Brucella melitensis AT... gi\|25322423 - pir\|\|AC3299 pseudouridylate synthase (EC 4.2.1.70) [imported] - Brucella melitensis (strain 16M) gi\|17986660, gi\|... - gi\|17986660\|ref\|NP_539294.1\| ribosomal large subunit pseudouridine synthase D [Brucella melitensis 1...	2.0E-56	[3..253]	[89..340]

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Predicted Domain #1

Region A:
Residues: [1-254]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSLKKQIPII FENTHYFIVN KPPGIPSQPP DCRTWGRTHP NLDPTPLLER FKAIYYSHRE  60
   61 VELCRTVHRL DHCVTGGMLI AKTKDGSVKF SRFLQKGGNN GYKLQRKYVA IVESSGRFNK 120
  121 PNNYEIKYGP KYNFLISHGG REITKFKEVD ENCIVLQLVT GKKHQIRNHV SQILNQPILN 180
  181 DKRHGSTVNF PELFNDQIAL HSACIITKIG LQTKTHLIPM EHNNTGQLWS RKYVNEEGEF 240
  241 TLPIKEVLLE NWDQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	16.221849
Match:	1kskA_
Description:	Ribosomal small subunit pseudouridine 516 synthase RsuA; Pseudouridine synthase RsuA N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
pseudouridine synthase activity	5.19957135839682	bayes_pls_golite062009
intramolecular transferase activity	3.78688422405974	bayes_pls_golite062009
isomerase activity	2.91720316078381	bayes_pls_golite062009
catalytic activity	2.02180970970004	bayes_pls_golite062009
transcription regulator activity	0.61345420467196	bayes_pls_golite062009
DNA binding	0.359897611264802	bayes_pls_golite062009
nucleic acid binding	0.326696802363771	bayes_pls_golite062009
binding	0.301411339531862	bayes_pls_golite062009
RNA binding	0.195784910723548	bayes_pls_golite062009

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: