YRC Public Data Repository - Protein Structure Prediction

Protein:	MSW1
Organism:	Saccharomyces cerevisiae
Length:	379 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 MSW1.

Description	E-value	Query Range	Subject Range
SYWM_YEAST - Tryptophan--tRNA ligase, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=M... MSW1 - Mitochondrial tryptophanyl-tRNA synthetase	0.0	[1..379]	[1..379]
gi\|447739 - gi\|447739\|prf\|\|1915304A nylB upstream ORF	0.0	[1..379]	[1..379]
SYW_HAEIN - Tryptophanyl-tRNA synthetase OS=Haemophilus influenzae GN=trpS PE=3 SV=1 SYW_HAEIN - Tryptophan--tRNA ligase OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=trp...	4.0E-98	[32..379]	[1..330]
gi\|15978262, gi\|... - gi\|218927368\|ref\|YP_002345243.1\| tryptophanyl-tRNA synthetase [Yersinia pestis CO92], gi\|16120500\|re... gi\|165915897, gi... - gi\|89105794\|ref\|ZP_01178307.1\| COG0180: Tryptophanyl-tRNA synthetase [Yersinia pestis biovar Orienta... gi\|165919990, gi... - gi\|165928041\|ref\|ZP_02223873.1\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Orientalis str.... gi\|161511471 - gi\|161511471\|ref\|NP_991560.2\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Microtus str. 910... gi\|229706430, gi... - gi\|229836362\|ref\|ZP_04456529.1\| tryptophan-tRNA ligase [Yersinia pestis Pestoides A], gi\|229706430\|g... gi\|166205661, gi... - gi\|166213363\|ref\|ZP_02239398.1\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Antiqua str. B4... gi\|229696379, gi... - gi\|229840013\|ref\|ZP_04460172.1\| tryptophan-tRNA ligase [Yersinia pestis biovar Orientalis str. PEXU2... gi\|165990587, gi... - gi\|166010497\|ref\|ZP_02231395.1\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Antiqua str. E1... gi\|229842094, gi... - gi\|229842094\|ref\|ZP_04462249.1\| tryptophan-tRNA ligase [Yersinia pestis biovar Orientalis str. India... Q664M5\|Q664M5_YERPS - Tryptophanyl-tRNA synthetase - Yersinia pseudotuberculosis gi\|108809303, gi... - gi\|108809303\|ref\|YP_653219.1\| tryptophanyl-tRNA synthetase [Yersinia pestis Antiqua], gi\|108781216\|g... gi\|108814068, gi... - gi\|229904605\|ref\|ZP_04519716.1\| tryptophan-tRNA ligase [Yersinia pestis Nepal516], gi\|229678723\|gb\|E... gi\|167418947, gi... - gi\|167418947\|ref\|ZP_02310700.1\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Orientalis str.... gi\|167052166, gi... - gi\|167399662\|ref\|ZP_02305186.1\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Antiqua str. UG... gi\|167468237 - gi\|167468237\|ref\|ZP_02332941.1\| tryptophanyl-tRNA synthetase [Yersinia pestis FV-1] gi\|162352752, gi... - gi\|77634598\|ref\|ZP_00796695.1\| COG0180: Tryptophanyl-tRNA synthetase [Yersinia pestis Angola], gi\|16... gi\|167425697, gi... - gi\|167425697\|ref\|ZP_02317450.1\| tryptophanyl-tRNA synthetase [Yersinia pestis biovar Mediaevalis str... gi\|25292924 - gi\|25292924\|pir\|\|AB0020 tryptophan-tRNA ligase (EC 6.1.1.2) [imported] - Yersinia pestis (strain CO9... gi\|186897233, gi... - gi\|186897233\|ref\|YP_001874345.1\| tryptophanyl-tRNA synthetase [Yersinia pseudotuberculosis PB1/+], g... gi\|149290247, gi... - gi\|150260839\|ref\|ZP_01917567.1\| tryptophanyl-tRNA synthetase [Yersinia pestis CA88-4125], gi\|1492902... gi\|170022492, gi... - gi\|170022492\|ref\|YP_001718997.1\| tryptophanyl-tRNA synthetase [Yersinia pseudotuberculosis YPIII], g... gi\|51591316, gi\|... - gi\|51598034\|ref\|YP_072225.1\| tryptophanyl-tRNA synthetase [Yersinia pseudotuberculosis IP 32953], gi... gi\|145597407, gi... - gi\|145597407\|ref\|YP_001161482.1\| tryptophanyl-tRNA synthetase [Yersinia pestis Pestoides F], gi\|1452... gi\|21960941, gi\|... - gi\|22127810\|ref\|NP_671233.1\| tryptophanyl-tRNA synthetase [Yersinia pestis KIM], gi\|21960941\|gb\|AAM8...	6.0E-98	[22..379]	[3..342]
SYW_PASMU - Tryptophanyl-tRNA synthetase OS=Pasteurella multocida GN=trpS PE=3 SV=1 SYW_PASMU - Tryptophan--tRNA ligase OS=Pasteurella multocida (strain Pm70) GN=trpS PE=3 SV=1	5.0E-97	[32..379]	[1..330]
gi\|62129616, gi\|... - gi\|62181983\|ref\|YP_218400.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serov... gi\|194712434, gi... - gi\|194736932\|ref\|YP_002116424.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|197214009, gi... - gi\|197250306\|ref\|YP_002148402.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|197265141, gi... - gi\|197265141\|ref\|ZP_03165215.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|197938888, gi... - gi\|198244372\|ref\|YP_002217442.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|205344545, gi... - gi\|205344545\|gb\|EDZ31309.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|194443252, gi... - gi\|194443252\|ref\|YP_002042731.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|194450001, gi... - gi\|194450001\|ref\|YP_002047505.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|194470509, gi... - gi\|194470509\|ref\|ZP_03076493.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|197291441, gi... - gi\|197291441\|gb\|EDY30793.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|168241618, gi... - gi\|205339049\|gb\|EDZ25813.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|205350255, gi... - gi\|205350255\|gb\|EDZ36886.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|168465255, gi... - gi\|195632456\|gb\|EDX50940.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|161616517, gi... - gi\|161616517\|ref\|YP_001590482.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|205325695, gi... - gi\|205325695\|gb\|EDZ13534.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|205327596, gi... - gi\|205327596\|gb\|EDZ14360.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|205333050, gi... - gi\|205333050\|gb\|EDZ19814.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213648700 - gi\|213648700\|ref\|ZP_03378753.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|213865258 - gi\|213865258\|ref\|ZP_03387377.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|214000217 - gi\|214000217\|ref\|ZP_03410952.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|213053384 - gi\|213053384\|ref\|ZP_03346262.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|213423406 - gi\|213423406\|ref\|ZP_03356393.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|213426749 - gi\|213426749\|ref\|ZP_03359499.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... SYW_SALTY - Tryptophan--tRNA ligase OS=Salmonella typhimurium GN=trpS PE=3 SV=1 gi\|213610074 - gi\|213610074\|ref\|ZP_03369900.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|200388951, gi... - gi\|200388951\|ref\|ZP_03215563.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|205274676, gi... - gi\|205354895\|ref\|YP_002228696.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... SYW_SALTY - Tryptophanyl-tRNA synthetase OS=Salmonella typhimurium GN=trpS PE=3 SV=1 gi\|207858721, gi... - gi\|207858721\|ref\|YP_002245372.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica s... gi\|213026556 - gi\|213026556\|ref\|ZP_03341003.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... gi\|238913604 - gi\|238913604\|ref\|ZP_04657441.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica se... SYW_SALTI - Tryptophanyl-tRNA synthetase OS=Salmonella typhi GN=trpS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=trpS] [protein=tryptophanyl-tRNA synthetase] [protein_id=YP_005239679.1] [location=complement(... SYW_SALTI - Tryptophan--tRNA ligase OS=Salmonella typhi GN=trpS PE=3 SV=1 gi\|16762806 - gi\|16762806\|ref\|NP_458423.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serov... SYW_SALTY - Tryptophan--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=trpS PE=3... gi\|29144293, gi\|... - gi\|29144293\|ref\|NP_807635.1\| tryptophanyl-tRNA synthetase [Salmonella enterica subsp. enterica serov...	8.0E-96	[32..379]	[1..330]
gi\|41228, gi\|43200 - gi\|43200\|emb\|CAA23670.1\| tryptophanyl-tRNA synthetase [Escherichia coli], gi\|41228\|emb\|CAA79669.1\| u...	8.0E-95	[32..379]	[1..330]
gi\|81242949, gi\|... - gi\|82778801\|ref\|YP_405150.1\| tryptophanyl-tRNA synthetase [Shigella dysenteriae Sd197], gi\|81242949\|... gi\|218550640, gi... - gi\|218550640\|ref\|YP_002384431.1\| tryptophanyl-tRNA synthetase [Escherichia fergusonii ATCC 35469], g... gi\|218367210, gi... - gi\|218560441\|ref\|YP_002393354.1\| tryptophanyl-tRNA synthetase [Escherichia coli S88], gi\|218367210\|e... gi\|218372113, gi... - gi\|218702127\|ref\|YP_002409756.1\| tryptophanyl-tRNA synthetase [Escherichia coli IAI39], gi\|218372113... gi\|191171594, gi... - gi\|75241526\|ref\|ZP_00725371.1\| COG0180: Tryptophanyl-tRNA synthetase [Escherichia coli F11], gi\|1911... SYW_ECO57 - Tryptophan--tRNA ligase OS=Escherichia coli O157:H7 GN=trpS PE=3 SV=1 SYW_ECOL6 - Tryptophan--tRNA ligase OS=Escherichia coli O6 GN=trpS PE=3 SV=1 gi\|254795298, gi... - gi\|254795298\|ref\|YP_003080135.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14359... gi\|254038548, gi... - gi\|254038548\|ref\|ZP_04872604.1\| tryptophanyl-tRNA synthetase [Escherichia sp. 1_1_43], gi\|226839054\|... gi\|226902375, gi... - gi\|237703111\|ref\|ZP_04533592.1\| tryptophanyl-tRNA synthetase [Escherichia sp. 3_2_53FAA], gi\|2269023... gi\|227883514, gi... - gi\|227883514\|ref\|ZP_04001319.1\| tryptophanyl-tRNA synthetase [Escherichia coli 83972], gi\|227839393\|... gi\|168751805, gi... - gi\|188014192\|gb\|EDU52314.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4113], gi\|... gi\|209756700, gi... - pir\|\|H86002 tryptophan tRNA synthetase [imported] - Escherichia coli (strain O157:H7, substrain EDL... gi\|15803887, gi\|... - gi\|15803887\|ref\|NP_289923.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|1251... gi\|91212856, gi\|... - gi\|91212856\|ref\|YP_542842.1\| tryptophanyl-tRNA synthetase [Escherichia coli UTI89], gi\|91074430\|gb\|A... gi\|117625652, gi... - gi\|117625652\|ref\|YP_858975.1\| tryptophanyl-tRNA synthetase [Escherichia coli APEC O1], gi\|115514776\|... SYW_ECOL6 - Tryptophan--tRNA ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=trpS PE=3 ... gi\|15833480, gi\|... - gi\|15833480\|ref\|NP_312253.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|... gi\|194417123, gi... - gi\|194434664\|ref\|ZP_03066919.1\| tryptophanyl-tRNA synthetase [Shigella dysenteriae 1012], gi\|1944171... gi\|195934872 - gi\|195934872\|ref\|ZP_03080254.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4024] gi\|208806107, gi... - gi\|208806107\|ref\|ZP_03248444.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4206],... gi\|208811885, gi... - gi\|208811885\|ref\|ZP_03253214.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4045],... gi\|110345210, gi... - gi\|110643618\|ref\|YP_671348.1\| tryptophanyl-tRNA synthetase [Escherichia coli 536], gi\|110345210\|gb\|A... gi\|208821757, gi... - gi\|208821757\|ref\|ZP_03262077.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4042],... gi\|209397315, gi... - gi\|209397315\|ref\|YP_002272818.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4115]... gi\|215266737, gi... - gi\|215488665\|ref\|YP_002331096.1\| tryptophanyl-tRNA synthetase [Escherichia coli O127:H6 str. E2348/6... gi\|217322551, gi... - gi\|217326330\|ref\|ZP_03442414.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14588]... gi\|189358895, gi... - gi\|189358895\|gb\|EDU77314.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4401], gi\|... gi\|168759405, gi... - gi\|189369835\|gb\|EDU88251.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4501], gi\|... gi\|189364757, gi... - gi\|189364757\|gb\|EDU83176.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|187771660, gi... - gi\|187771660\|gb\|EDU35504.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4196], gi\|... gi\|189002476, gi... - gi\|189002476\|gb\|EDU71462.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4076], gi\|... gi\|168785185, gi... - gi\|189374370\|gb\|EDU92786.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC869], gi\|1... gi\|189380076, gi... - gi\|189380076\|gb\|EDU98492.1\| tryptophanyl-tRNA synthetase [Escherichia coli O157:H7 str. EC508], gi\|1... gi\|170518804, gi... - gi\|170681086\|ref\|YP_001745627.1\| tryptophanyl-tRNA synthetase [Escherichia coli SMS-3-5], gi\|1705188...	1.0E-94	[32..379]	[1..330]
gi\|124500813, gi... - gi\|124528158\|ref\|ZP_01699491.1\| tryptophanyl-tRNA synthetase [Escherichia coli B], gi\|124500813\|gb\|E... EG11030 - tryptophanyl-tRNA synthetase / Tryptophan--tRNA ligase SYW_ECOLI - Tryptophanyl-tRNA synthetase (EC 6.1.1.2) (Tryptophan--tRNA ligase) (TrpRS) - Escherichia coli gi\|169753308, gi... - gi\|170018380\|ref\|YP_001723334.1\| tryptophanyl-tRNA synthetase [Escherichia coli ATCC 8739], gi\|16975... gi\|188494495, gi... - gi\|75516148\|ref\|ZP_00738266.1\| COG0180: Tryptophanyl-tRNA synthetase [Escherichia coli 53638], gi\|18... gi\|89110626, gi\|... - gi\|89110626\|ref\|AP_004406.1\| tryptophanyl-tRNA synthetase [Escherichia coli str. K-12 substr. W3110]... gi\|238863726, gi... - gi\|238902475\|ref\|YP_002928271.1\| tryptophanyl-tRNA synthetase [Escherichia coli BW2952], gi\|23886372... gi\|251786637, gi... - gi\|251786637\|ref\|YP_003000941.1\| hypothetical protein B21_03188 [Escherichia coli BL21], gi\|24237891... gi\|253771789, gi... - gi\|254290062\|ref\|YP_003055810.1\| tryptophanyl-tRNA synthetase [Escherichia coli BL21(DE3)], gi\|25397... gi\|194439511, gi... - gi\|83585105\|ref\|ZP_00923757.1\| COG0180: Tryptophanyl-tRNA synthetase [Escherichia coli 101-1], gi\|19... gi\|253975213, gi... - gi\|254163312\|ref\|YP_003046420.1\| tryptophanyl-tRNA synthetase [Escherichia coli B str. REL606], gi\|2... gi\|157162860, gi... - gi\|75197315\|ref\|ZP_00707385.1\| COG0180: Tryptophanyl-tRNA synthetase [Escherichia coli HS], gi\|15716... gi\|218434071, gi... - gi\|218706974\|ref\|YP_002414493.1\| tryptophanyl-tRNA synthetase [Escherichia coli UMN026], gi\|21843407... gi\|170082901, gi... - gi\|170082901\|ref\|YP_001732221.1\| tryptophanyl-tRNA synthetase [Escherichia coli str. K-12 substr. DH... EG11030 - tryptophanyl-tRNA synthetase / Tryptophan--tRNA ligase	1.0E-94	[32..379]	[1..330]

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Predicted Domain #1

Region A:
Residues: [1-229]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNKQAVLKL ISKRWISTVQ RADFKLNSEA LHSNATVFSM IQPTGCFHLG NYLGATRVWT  60
   61 DLCELKQPGQ ELIFGVADLH AITVPKPDGE MFRKFRHEAV ASILAVGVDP EKASVIYQSA 120
  121 IPQHSELHWL LSTLASMGLL NRMTQWKSKS NIKQSTNGDY LVNDSDVGKV RLGLFSYPVL 180
  181 QAADILLYKS THVPVGDDQS QHLELTRHLA EKFNKMYKKN FFPKPVTML

[Run NCBI BLAST on this sequence.]

Region B:
Residues: [338-379]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RTEFEKYINE PTYLHSVVES GMRKAREKAA KNLADIHKIM GF

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	691.927757
Match:	1lkwA_
Description:	No description for 1lkwA_ was found.

Predicted functions:

Term	Confidence	Notes
ligase activity, forming carbon-oxygen bonds	7.16276509815667	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	7.16276509815667	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.13957775963187	bayes_pls_golite062009
ligase activity	6.11211476973434	bayes_pls_golite062009
tryptophan-tRNA ligase activity	5.34430928486195	bayes_pls_golite062009
glutamate-tRNA ligase activity	2.63681738794687	bayes_pls_golite062009
methionine-tRNA ligase activity	2.56893064485672	bayes_pls_golite062009
catalytic activity	2.37674226834122	bayes_pls_golite062009
tyrosine-tRNA ligase activity	1.88984817882585	bayes_pls_golite062009
arginine-tRNA ligase activity	1.50161401062914	bayes_pls_golite062009
cysteine-tRNA ligase activity	0.844943947059557	bayes_pls_golite062009
binding	0.535704308663141	bayes_pls_golite062009
nucleic acid binding	0.449504767632354	bayes_pls_golite062009
nucleotidyltransferase activity	0.2293846471193	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.126511747475258	bayes_pls_golite062009
glutamine-tRNA ligase activity	0.118292082006187	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [230-337]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AQTKKVLSLS TPEKKMSKSD PNHDSVIFLN DEPKAIQKKI RKALTDSISD RFYYDPVERP  60
   61 GVSNLINIVS GIQRKSIEDV VEDVSRFNNY RDFKDYVSEV IIEELKGP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	691.927757
Match:	1lkwA_
Description:	No description for 1lkwA_ was found.

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: