YRC Public Data Repository - Protein Structure Prediction

Protein:	SWS2
Organism:	Saccharomyces cerevisiae
Length:	143 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 SWS2.

Description	E-value	Query Range	Subject Range
gi\|190409070 - gi\|190409070\|gb\|EDV12335.1\| hypothetical protein SCRG_03217 [Saccharomyces cerevisiae RM11-1a] gi\|151944453 - gi\|151944453\|gb\|EDN62731.1\| conserved protein [Saccharomyces cerevisiae YJM789] SWS2_YEAST - 37S ribosomal protein SWS2, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) G... SWS2 - Putative mitochondrial ribosomal protein of the small subunit, has similarity to E. coli S13 ribosom...	7.0E-41	[1..143]	[1..143]
RS13_PSEAE - 30S ribosomal protein S13 OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 1... gi\|194548090, gi... - gi\|84318950\|ref\|ZP_00967362.1\| COG0099: Ribosomal protein S13 [Pseudomonas aeruginosa C3719], gi\|254... gi\|107103757 - gi\|107103757\|ref\|ZP_01367675.1\| hypothetical protein PaerPA_01004828 [Pseudomonas aeruginosa PACS2] RS13_PSEA8 - 30S ribosomal protein S13 OS=Pseudomonas aeruginosa (strain LESB58) GN=rpsM PE=3 SV=1 RS13_PSEAE - 30S ribosomal protein S13 OS=Pseudomonas aeruginosa GN=rpsM PE=3 SV=1 RS13_PSEAB - 30S ribosomal protein S13 OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=rpsM PE=3 SV=1	5.0E-38	[2..120]	[1..118]
gi\|25294726 - gi\|25294726\|pir\|\|E97591 structure homolog of thermus thermophilus 30S ribosomal chain M [imported] -... gi\|15157045, gi\|... - gi\|15889220\|ref\|NP_354901.1\| 30S ribosomal protein S13 [Agrobacterium tumefaciens str. C58], gi\|1515...	7.0E-38	[2..123]	[34..155]
RS13_PASMU - 30S ribosomal protein S13 OS=Pasteurella multocida (strain Pm70) GN=rpsM PE=3 SV=1 RS13_PASMU - 30S ribosomal protein S13 OS=Pasteurella multocida GN=rpsM PE=3 SV=1	2.0E-37	[2..120]	[1..118]
SPCC1795.07 - mitochondrial ribosomal protein subunit S37 SWS2_SCHPO - 37S ribosomal protein subunit sws2, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24...	4.0E-37	[2..138]	[1..134]
gi\|194449228, gi... - gi\|194449228\|ref\|YP_002047442.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica sero... gi\|194445617, gi... - gi\|194445617\|ref\|YP_002042669.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar... gi\|168468024, gi... - gi\|195628910\|gb\|EDX48320.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar Newp... gi\|168264700, gi... - gi\|205346873\|gb\|EDZ33504.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar Hada... RS13_SALTY - 30S ribosomal protein S13 OS=Salmonella typhimurium GN=rpsM PE=3 SV=3 gi\|157086078, gi... - gi\|157148873\|ref\|YP_001456192.1\| 30S ribosomal protein S13 [Citrobacter koseri ATCC BAA-895], gi\|157... RS13_SALTY - 30S ribosomal protein S13 OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rpsM PE... RS13_SALPA - 30S ribosomal protein S13 OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=rpsM PE=3 SV=1 RS13_SALTY - 30S ribosomal protein S13 OS=Salmonella typhimurium GN=rpsM PE=3 SV=3 RS13_SALPA - 30S ribosomal protein S13 OS=Salmonella paratyphi A GN=rpsM PE=3 SV=1 lcl\|NC_016856.1_... - [gene=rpsM] [protein=30S ribosomal protein S13] [protein_id=YP_005239608.1] [location=complement(359... gi\|206710463, gi... - gi\|207858660\|ref\|YP_002245311.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica sero... gi\|197265972, gi... - gi\|197265972\|ref\|ZP_03166046.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar ... gi\|197251517, gi... - gi\|197251517\|ref\|YP_002148338.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar... gi\|194713893, gi... - gi\|194738391\|ref\|YP_002116361.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar... gi\|194471891, gi... - gi\|194471891\|ref\|ZP_03077875.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar ... gi\|205354954, gi... - gi\|205354954\|ref\|YP_002228755.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica sero... gi\|238913867 - gi\|238913867\|ref\|ZP_04657704.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serov... gi\|199603847, gi... - gi\|200386749\|ref\|ZP_03213361.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar ... gi\|198245668, gi... - gi\|198245668\|ref\|YP_002217381.1\| ribosomal protein S13p [Salmonella enterica subsp. enterica serovar... gi\|197095744, gi... - gi\|197364267\|ref\|YP_002143904.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica sero...	1.0E-36	[2..120]	[1..118]
gi\|16762865 - gi\|16762865\|ref\|NP_458482.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serovar ... gi\|213425773 - gi\|213425773\|ref\|ZP_03358523.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serov... gi\|213052886 - gi\|213052886\|ref\|ZP_03345764.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serov... gi\|213999762 - gi\|213999762\|ref\|ZP_03410497.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serov... gi\|213856917 - gi\|213856917\|ref\|ZP_03384157.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serov... gi\|213580695 - gi\|213580695\|ref\|ZP_03362521.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serov... RS13_SALTI - 30S ribosomal protein S13 OS=Salmonella typhi GN=rpsM PE=3 SV=3 gi\|29139990, gi\|... - gi\|29144352\|ref\|NP_807694.1\| 30S ribosomal protein S13 [Salmonella enterica subsp. enterica serovar ... RS13_SALTI - 30S ribosomal protein S13 OS=Salmonella typhi GN=rpsM PE=3 SV=3	2.0E-36	[2..120]	[1..118]
RS13_YERPB - 30S ribosomal protein S13 OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=rpsM PE=3 SV=... RS13_YERPE - 30S ribosomal protein S13 OS=Yersinia pestis GN=rpsM PE=3 SV=1 gi\|229706355, gi... - gi\|229836287\|ref\|ZP_04456454.1\| 30S ribosomal subunit protein S13 [Yersinia pestis Pestoides A], gi\|... RS13_YERPS - 30S ribosomal protein S13 OS=Yersinia pseudotuberculosis GN=rpsM PE=3 SV=1 gi\|150260721, gi... - gi\|150260721\|ref\|ZP_01917449.1\| 30S ribosomal protein S13 [Yersinia pestis CA88-4125], gi\|149290129\|... gi\|229696455, gi... - gi\|229840089\|ref\|ZP_04460248.1\| 30S ribosomal subunit protein S13 [Yersinia pestis biovar Orientalis... RS13_YERPP - 30S ribosomal protein S13 OS=Yersinia pestis (strain Pestoides F) GN=rpsM PE=3 SV=1 gi\|229690481, gi... - gi\|229842171\|ref\|ZP_04462326.1\| 30S ribosomal subunit protein S13 [Yersinia pestis biovar Orientalis... gi\|165920151, gi... - gi\|165927875\|ref\|ZP_02223707.1\| ribosomal protein S13 [Yersinia pestis biovar Orientalis str. F19910... gi\|165940335, gi... - gi\|89101779\|ref\|ZP_01174475.1\| COG0099: Ribosomal protein S13 [Yersinia pestis biovar Orientalis str... gi\|166205539, gi... - gi\|166213241\|ref\|ZP_02239276.1\| ribosomal protein S13 [Yersinia pestis biovar Antiqua str. B42003004... RS13_YERPA - 30S ribosomal protein S13 OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=rpsM PE=3 SV=1 gi\|166010483, gi... - gi\|166010483\|ref\|ZP_02231381.1\| ribosomal protein S13 [Yersinia pestis biovar Antiqua str. E1979001]... gi\|167418694, gi... - gi\|167418694\|ref\|ZP_02310447.1\| ribosomal protein S13 [Yersinia pestis biovar Orientalis str. MG05-1... gi\|167398509, gi... - gi\|167398509\|ref\|ZP_02304033.1\| ribosomal protein S13 [Yersinia pestis biovar Antiqua str. UG05-0454... RS13_YERPY - 30S ribosomal protein S13 OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=rpsM PE=3 SV... gi\|167425710, gi... - gi\|167425710\|ref\|ZP_02317463.1\| ribosomal protein S13 [Yersinia pestis biovar Mediaevalis str. K1973... RS13_YERPN - 30S ribosomal protein S13 OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=rpsM PE=3 SV=1 gi\|45440089, gi\|... - gi\|45440089\|ref\|NP_991628.1\| 30S ribosomal protein S13 [Yersinia pestis biovar Microtus str. 91001],... gi\|22127882, gi\|... - gi\|22127882\|ref\|NP_671305.1\| 30S ribosomal protein S13 [Yersinia pestis KIM], gi\|21961018\|gb\|AAM8755... gi\|218927437, gi... - gi\|218927437\|ref\|YP_002345312.1\| 30S ribosomal protein S13 [Yersinia pestis CO92], gi\|16120569\|ref\|N... RS13_YERPS - 30S ribosomal protein S13 OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=rpsM PE=3 SV... RS13_YERPG - 30S ribosomal protein S13 OS=Yersinia pestis bv. Antiqua (strain Angola) GN=rpsM PE=3 SV=1 RS13_YERP3 - 30S ribosomal protein S13 OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=rpsM PE=...	2.0E-36	[2..120]	[1..118]
gi\|194440008, gi... - gi\|83584656\|ref\|ZP_00923323.1\| COG0099: Ribosomal protein S13 [Escherichia coli 101-1], gi\|194440008... gi\|75197233, gi\|... - gi\|75197233\|ref\|ZP_00707303.1\| COG0099: Ribosomal protein S13 [Escherichia coli HS], gi\|157162772\|re... gi\|75208448, gi\|... - gi\|75208448\|ref\|ZP_00708777.1\| COG0099: Ribosomal protein S13 [Escherichia coli B171], gi\|194430277\|... gi\|187427601, gi... - gi\|75176302\|ref\|ZP_00696454.1\| COG0099: Ribosomal protein S13 [Shigella boydii BS512], gi\|187730609\|... gi\|157078812, gi... - gi\|75188089\|ref\|ZP_00701356.1\| COG0099: Ribosomal protein S13 [Escherichia coli E24377A], gi\|1571567... RS13_ECOLI - 30S ribosomal protein S13 - Escherichia coli RS13_SHIFL - 30S ribosomal protein S13 OS=Shigella flexneri GN=rpsM PE=3 SV=2 RS13_ECOL6 - 30S ribosomal protein S13 OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=rpsM PE=... gi\|24053772, gi\|... - gi\|24114576\|ref\|NP_709086.1\| 30S ribosomal protein S13 [Shigella flexneri 2a str. 301], gi\|24053772\|... gi\|254795235, gi... - gi\|254795235\|ref\|YP_003080072.1\| 30S ribosomal subunit protein S13 [Escherichia coli O157:H7 str. TW... gi\|253975127, gi... - gi\|254163226\|ref\|YP_003046334.1\| 30S ribosomal protein S13 [Escherichia coli B str. REL606], gi\|2539... gi\|254038459, gi... - gi\|254038459\|ref\|ZP_04872515.1\| 30S ribosomal subunit protein S13 [Escherichia sp. 1_1_43], gi\|22683... gi\|253979283, gi... - gi\|254289976\|ref\|YP_003055724.1\| 30S ribosomal protein S13 [Escherichia coli BL21(DE3)], gi\|25397928... gi\|15833417, gi\|... - gi\|15833417\|ref\|NP_312190.1\| 30S ribosomal protein S13 [Escherichia coli O157:H7 str. Sakai], gi\|133... RS13_ECOL5 - 30S ribosomal protein S13 OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=rpsM PE=3 SV=1 RS13_SHIF8 - 30S ribosomal protein S13 OS=Shigella flexneri serotype 5b (strain 8401) GN=rpsM PE=3 SV=1 RS13_ECOUT - 30S ribosomal protein S13 OS=Escherichia coli (strain UTI89 / UPEC) GN=rpsM PE=3 SV=1 RS13_ECO57 - 30S ribosomal protein S13 OS=Escherichia coli O157:H7 GN=rpsM PE=3 SV=2 gi\|30043663, gi\|... - gi\|30065401\|ref\|NP_839572.1\| 30S ribosomal protein S13 [Shigella flexneri 2a str. 2457T], gi\|3004366... gi\|15803825, gi\|... - gi\|15803825\|ref\|NP_289859.1\| 30S ribosomal protein S13 [Escherichia coli O157:H7 EDL933], gi\|1251792... EG10912 - 30S ribosomal subunit protein S13 / 30S ribosomal subunit protein S13 gi\|208729465, gi... - gi\|208809664\|ref\|ZP_03252001.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4206], gi\|20... gi\|208814033, gi... - gi\|208814033\|ref\|ZP_03255362.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4045], gi\|20... gi\|208738787, gi... - gi\|208818664\|ref\|ZP_03258984.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4042], gi\|20... gi\|209398653, gi... - gi\|209398653\|ref\|YP_002272754.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4115], gi\|2... gi\|209920764, gi... - gi\|209920764\|ref\|YP_002294848.1\| 30S ribosomal protein S13 [Escherichia coli SE11], gi\|209914023\|dbj... gi\|215266670, gi... - gi\|215488598\|ref\|YP_002331029.1\| 30S ribosomal protein S13 [Escherichia coli O127:H6 str. E2348/69],... RS13_ECOK1 - 30S ribosomal protein S13 OS=Escherichia coli O1:K1 / APEC GN=rpsM PE=3 SV=1 gi\|217321913, gi... - gi\|217325692\|ref\|ZP_03441776.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. TW14588], gi\|2... gi\|124498100, gi... - gi\|124532210\|ref\|ZP_01702148.1\| ribosomal protein S13 [Escherichia coli B], gi\|124498100\|gb\|EAY45627... gi\|218550574, gi... - gi\|218550574\|ref\|YP_002384365.1\| 30S ribosomal protein S13 [Escherichia fergusonii ATCC 35469], gi\|2... gi\|188998874, gi... - gi\|188998874\|gb\|EDU67860.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4076], gi\|168783... gi\|189373930, gi... - gi\|189373930\|gb\|EDU92346.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC869], gi\|1687861... gi\|168802727, gi... - gi\|189375354\|gb\|EDU93770.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC508], gi\|1688027... gi\|169753394, gi... - gi\|170018466\|ref\|YP_001723420.1\| 30S ribosomal protein S13 [Escherichia coli ATCC 8739], gi\|16975339... gi\|169890653, gi... - gi\|170082818\|ref\|YP_001732138.1\| 30S ribosomal subunit protein S13 [Escherichia coli str. K-12 subst... gi\|170520967, gi... - gi\|170683249\|ref\|YP_001745560.1\| ribosomal protein S13p [Escherichia coli SMS-3-5], gi\|170520967\|gb\|... gi\|194416669, gi... - gi\|194435062\|ref\|ZP_03067300.1\| ribosomal protein S13p [Shigella dysenteriae 1012], gi\|194416669\|gb\|... gi\|195939846 - gi\|195939846\|ref\|ZP_03085228.1\| 30S ribosomal protein S13 [Escherichia coli O157:H7 str. EC4024] EG10912 - 30S ribosomal subunit protein S13 / 30S ribosomal subunit protein S13 gi\|218555856, gi... - gi\|218555856\|ref\|YP_002388769.1\| 30S ribosomal protein S13 [Escherichia coli IAI1], gi\|218362624\|emb... gi\|218560360, gi... - gi\|218560360\|ref\|YP_002393273.1\| 30S ribosomal protein S13 [Escherichia coli S88], gi\|218367129\|emb\|... gi\|218691585, gi... - gi\|218691585\|ref\|YP_002399797.1\| 30S ribosomal protein S13 [Escherichia coli ED1a], gi\|218429149\|emb... gi\|218353723, gi... - gi\|218696991\|ref\|YP_002404658.1\| 30S ribosomal protein S13 [Escherichia coli 55989], gi\|218353723\|em... gi\|218702061, gi... - gi\|218702061\|ref\|YP_002409690.1\| 30S ribosomal protein S13 [Escherichia coli IAI39], gi\|218372047\|em... gi\|218706906, gi... - gi\|218706906\|ref\|YP_002414425.1\| 30S ribosomal protein S13 [Escherichia coli UMN026], gi\|218434003\|e... gi\|242378825, gi... - gi\|251786552\|ref\|YP_003000856.1\| hypothetical protein B21_03100 [Escherichia coli BL21], gi\|24237882... gi\|238859787, gi... - gi\|238902389\|ref\|YP_002928185.1\| 30S ribosomal subunit protein S13 [Escherichia coli BW2952], gi\|238... gi\|237703028, gi... - gi\|237703028\|ref\|ZP_04533509.1\| ribosomal protein S13p [Escherichia sp. 3_2_53FAA], gi\|226902292\|gb\|... RS13_SHIBS - 30S ribosomal protein S13 OS=Shigella boydii serotype 4 (strain Sb227) GN=rpsM PE=3 SV=1 gi\|85676743, gi\|... - gi\|89110712\|ref\|AP_004492.1\| 30S ribosomal subunit protein S13 [Escherichia coli str. K-12 substr. W... gi\|168752252, gi... - gi\|188013862\|gb\|EDU51984.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4113], gi\|168752... gi\|189354683, gi... - gi\|189354683\|gb\|EDU73102.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4401], gi\|168758... gi\|168764981, gi... - gi\|189365118\|gb\|EDU83534.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4501], gi\|168764... gi\|189361860, gi... - gi\|189361860\|gb\|EDU80279.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4486], gi\|168769... gi\|168777843, gi... - gi\|187767000\|gb\|EDU30844.1\| ribosomal protein S13p [Escherichia coli O157:H7 str. EC4196], gi\|168777... gi\|191174461, gi... - gi\|75236331\|ref\|ZP_00720438.1\| COG0099: Ribosomal protein S13 [Escherichia coli F11], gi\|191174461\|r... gi\|75255404, gi\|... - gi\|75255404\|ref\|ZP_00727216.1\| COG0099: Ribosomal protein S13 [Escherichia coli E22], gi\|193066496\|r... gi\|192955140, gi... - gi\|75214897\|ref\|ZP_00713376.1\| COG0099: Ribosomal protein S13 [Escherichia coli E110019], gi\|1930715... gi\|191169310, gi... - gi\|75227382\|ref\|ZP_00714158.1\| COG0099: Ribosomal protein S13 [Escherichia coli B7A], gi\|191169310\|r... RS13_ECOL6 - 30S ribosomal protein S13 OS=Escherichia coli O6 GN=rpsM PE=3 SV=2 RS13_SHIDS - 30S ribosomal protein S13 OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=rpsM PE=3 SV=1 gi\|75511177, gi\|... - gi\|75511177\|ref\|ZP_00733889.1\| COG0099: Ribosomal protein S13 [Escherichia coli 53638], gi\|188496196... RS13_SHISS - 30S ribosomal protein S13 OS=Shigella sonnei (strain Ss046) GN=rpsM PE=3 SV=1	2.0E-36	[2..120]	[1..118]

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Predicted Domain #1

Region A:
Residues: [1-74]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MVVHILGKGF KGKEVIKIAL ASKFYGIGKT TAEKICSKLG FYPWMRMHQL SEPQIMSIAS  60
   61 ELSTMTIEGD ARAI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	142.68867
Match:	1fjgM_
Description:	Ribosomal protein S13
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	9.75987008608357	bayes_pls_golite062009
structural molecule activity	9.18430883932738	bayes_pls_golite062009
catalytic activity	0.161830442565647	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [75-143]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VKDNIALKRK IGSYSGMRHT LHLPVRGQHT RNNAKTARKL NKIDRRGIHT FSQAKVQHNP  60
   61 SLWSCIFGK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	142.68867
Match:	1fjgM_
Description:	Ribosomal protein S13
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: