YRC Public Data Repository - Protein Structure Prediction

Protein:	THS1
Organism:	Saccharomyces cerevisiae
Length:	734 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 THS1.

Description	E-value	Query Range	Subject Range
gi\|4619 - gi\|4619\|emb\|CAA26666.1\| unnamed protein product [Saccharomyces cerevisiae]	0.0	[1..734]	[1..734]
gi\|12845562 - gi\|12845562\|dbj\|BAB26799.1\| unnamed protein product [Mus musculus]	0.0	[2..732]	[6..721]
gi\|197241161, gi... - gi\|197262906\|ref\|ZP_03162980.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... SYT_SALTY - Threonine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=thrS PE=3 ... SYT_SALHS - Threonine--tRNA ligase OS=Salmonella heidelberg (strain SL476) GN=thrS PE=3 SV=1 SYT_SALTY - Threonyl-tRNA synthetase OS=Salmonella typhimurium GN=thrS PE=3 SV=1 gi\|168244449, gi... - gi\|205336802\|gb\|EDZ23566.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar He... gi\|205329759, gi... - gi\|205329759\|gb\|EDZ16523.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar 4,... lcl\|NC_016856.1_... - [gene=thrS] [protein=threonyl-tRNA synthetase] [protein_id=YP_005237194.1] [location=1422178..142410... SYT_SALTY - Threonine--tRNA ligase OS=Salmonella typhimurium GN=thrS PE=3 SV=1	0.0	[76..730]	[3..642]
SYT_ECOK1 - Threonine--tRNA ligase OS=Escherichia coli O1:K1 / APEC GN=thrS PE=3 SV=1 SYT_ECOLI - Threonyl-tRNA synthetase (EC 6.1.1.3) (Threonine--tRNA ligase) (ThrRS) - Escherichia coli SYT_SHISS - Threonine--tRNA ligase OS=Shigella sonnei (strain Ss046) GN=thrS PE=3 SV=1 SYT_SHIFL - Threonine--tRNA ligase OS=Shigella flexneri GN=thrS PE=3 SV=1 gi\|24112885, gi\|... - gi\|24112885\|ref\|NP_707395.1\| threonyl-tRNA synthetase [Shigella flexneri 2a str. 301], gi\|24051829\|g... EG11001 - threonyl-tRNA synthetase / Threonine--tRNA ligase, autogenously regulated; binds Zn(II) SYT_ECOL6 - Threonine--tRNA ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=thrS PE=3 S... gi\|30063014, gi\|... - gi\|30063014\|ref\|NP_837185.1\| threonyl-tRNA synthetase [Shigella flexneri 2a str. 2457T], gi\|30041263... SYT_ECOL6 - Threonine--tRNA ligase OS=Escherichia coli O6 GN=thrS PE=3 SV=1 sp\|B7USA2\|SYT_ECO27 - Threonyl-tRNA synthetase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=thrS PE=3 SV=1 SYT_ECOSM - Threonine--tRNA ligase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=thrS PE=3 SV=1 SYT_ECODH - Threonine--tRNA ligase OS=Escherichia coli (strain K12 / DH10B) GN=thrS PE=3 SV=1 gi\|190908082, gi... - gi\|191171752\|ref\|ZP_03033299.1\| threonyl-tRNA synthetase [Escherichia coli F11], gi\|190908082\|gb\|EDV... gi\|188492265, gi... - gi\|188492265\|ref\|ZP_02999535.1\| threonyl-tRNA synthetase [Escherichia coli 53638], gi\|188487464\|gb\|E... gi\|89108559, gi\|... - gi\|89108559\|ref\|AP_002339.1\| threonyl-tRNA synthetase [Escherichia coli str. K-12 substr. W3110], gi... SYT_ECO7I - Threonine--tRNA ligase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=thrS PE=3 SV=1 gi\|242377442, gi... - gi\|251785169\|ref\|YP_002999473.1\| hypothetical protein B21_01677 [Escherichia coli BL21], gi\|24237744... SYT_ECOUT - Threonine--tRNA ligase OS=Escherichia coli (strain UTI89 / UPEC) GN=thrS PE=3 SV=1 SYT_ECO81 - Threonine--tRNA ligase OS=Escherichia coli O81 (strain ED1a) GN=thrS PE=3 SV=1 gi\|254288567, gi... - gi\|254288567\|ref\|YP_003054315.1\| threonyl-tRNA synthetase [Escherichia coli BL21(DE3)], gi\|253977874... SYT_ECOL5 - Threonine--tRNA ligase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=thrS PE=3 SV=1 gi\|237705668, gi... - gi\|237705668\|ref\|ZP_04536149.1\| threonyl-tRNA synthetase [Escherichia sp. 3_2_53FAA], gi\|226900425\|g... EG11001 - threonyl-tRNA synthetase / Threonine--tRNA ligase, autogenously regulated; binds Zn(II) SYT_SHIF8 - Threonine--tRNA ligase OS=Shigella flexneri serotype 5b (strain 8401) GN=thrS PE=3 SV=1 SYT_ECOLU - Threonine--tRNA ligase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=thrS PE=3 SV=1 SYT_ECOBW - Threonine--tRNA ligase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=thrS PE=3 SV=1 gi\|194422590, gi... - gi\|194438580\|ref\|ZP_03070669.1\| threonyl-tRNA synthetase [Escherichia coli 101-1], gi\|194422590\|gb\|E... gi\|194416606, gi... - gi\|194435142\|ref\|ZP_03067376.1\| threonyl-tRNA synthetase [Shigella dysenteriae 1012], gi\|194416606\|g... SYT_ECO45 - Threonine--tRNA ligase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=thrS PE=3 SV=1 gi\|254161779, gi... - gi\|254161779\|ref\|YP_003044887.1\| threonyl-tRNA synthetase [Escherichia coli B str. REL606], gi\|25397... SYT_ECO27 - Threonine--tRNA ligase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=thrS PE=3 SV=1	0.0	[76..730]	[3..642]
SYT_SALTI - Threonyl-tRNA synthetase OS=Salmonella typhi GN=thrS PE=3 SV=1 gi\|199602680, gi... - gi\|200390235\|ref\|ZP_03216846.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... SYT_SALA4 - Threonine--tRNA ligase OS=Salmonella agona (strain SL483) GN=thrS PE=3 SV=1 SYT_SALSV - Threonine--tRNA ligase OS=Salmonella schwarzengrund (strain CVM19633) GN=thrS PE=3 SV=1 gi\|205341550, gi... - gi\|205341550\|gb\|EDZ28314.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar We... gi\|213852224 - gi\|213852224\|ref\|ZP_03381756.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213426331 - gi\|213426331\|ref\|ZP_03359081.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213423451 - gi\|213423451\|ref\|ZP_03356434.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|204927743, gi... - gi\|204927743\|ref\|ZP_03218944.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|168239001, gi... - gi\|197288252\|gb\|EDY27637.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sc... SYT_SALTI - Threonine--tRNA ligase OS=Salmonella typhi GN=thrS PE=3 SV=1 gi\|167552305, gi... - gi\|205323017\|gb\|EDZ10856.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sa... gi\|29141677, gi\|... - gi\|29141677\|ref\|NP_805019.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar T... gi\|16760562 - gi\|16760562\|ref\|NP_456179.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar T... gi\|238910851 - gi\|238910851\|ref\|ZP_04654688.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova...	0.0	[76..730]	[3..642]
gi\|43066 - gi\|43066\|emb\|CAA23560.1\| unnamed protein product [Escherichia coli]	0.0	[76..730]	[3..642]
gi\|187776029, gi... - gi\|187776029\|ref\|ZP_02799987.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4196], gi\|... gi\|188016225, gi... - gi\|188024843\|ref\|ZP_02774486.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4113], gi\|... gi\|189010441, gi... - gi\|189010441\|ref\|ZP_02807141.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4076], gi\|... gi\|189356196, gi... - gi\|189402338\|ref\|ZP_02781727.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4401], gi\|... gi\|189367509, gi... - gi\|189367509\|gb\|EDU85925.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4501], gi\|1687... gi\|189372060, gi... - gi\|189372060\|gb\|EDU90476.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC869], gi\|16878... gi\|189377572, gi... - gi\|189377572\|gb\|EDU95988.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC508], gi\|16880... gi\|15831680, gi\|... - gi\|15831680\|ref\|NP_310453.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|1336... gi\|254793336, gi... - gi\|254793336\|ref\|YP_003078173.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14359], g... SYT_ECO57 - Threonine--tRNA ligase OS=Escherichia coli O157:H7 GN=thrS PE=3 SV=1 gi\|209768834, gi... - pir\|\|F85780 threonine tRNA synthetase [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|15802131, gi\|... - gi\|15802131\|ref\|NP_288153.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|12515733... gi\|217318337, gi... - gi\|217328990\|ref\|ZP_03445071.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14588], gi... gi\|189360618, gi... - gi\|189403439\|ref\|ZP_02795487.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|208725260, gi... - gi\|208810744\|ref\|ZP_03252620.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4206], gi\|... gi\|208730990, gi... - gi\|208816647\|ref\|ZP_03257767.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4045], gi\|... SYT_ECO5E - Threonine--tRNA ligase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=thrS PE=3 SV=1	0.0	[76..730]	[3..642]
SYTM1_ARATH - Threonine--tRNA ligase, mitochondrial 1 OS=Arabidopsis thaliana GN=THRRS PE=2 SV=3	0.0	[35..722]	[35..707]

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Predicted Domain #1

Region A:
Residues: [1-68]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSASEAGVTE QVKKLSVKDS SNDAVKPNKK ENKKSKQQSL YLDPEPTFIE ERIEMFDRLQ  60
   61 KEYNDKVA

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.709	0.339	threonine-tRNA ligase activity	a.4.1	Homeodomain-like
View	Download	0.461	0.297	threonine-tRNA ligase activity	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.594	0.008	threonine-tRNA ligase activity	a.164.1	C-terminal domain of DFF45/ICAD (DFF-C domain)
View	Download	0.623	0.004	threonine-tRNA ligase activity	a.2.2	Ribosomal protein L29 (L29p)
View	Download	0.490	N/A	N/A	a.159.2	FF domain
View	Download	0.450	N/A	N/A	a.4.1	Homeodomain-like
View	Download	0.413	N/A	N/A	a.4.1	Homeodomain-like
View	Download	0.361	N/A	N/A	a.2.2	Ribosomal protein L29 (L29p)
View	Download	0.344	N/A	N/A	a.3.1	Cytochrome c
View	Download	0.335	N/A	N/A	a.64.1	Saposin
View	Download	0.317	N/A	N/A	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.314	N/A	N/A	d.56.1	GroEL-intermediate domain like
View	Download	0.310	N/A	N/A	a.2.2	Ribosomal protein L29 (L29p)
View	Download	0.295	N/A	N/A	a.159.2	FF domain
View	Download	0.287	N/A	N/A	d.50.1	dsRNA-binding domain-like
View	Download	0.280	N/A	N/A	a.4.9	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View	Download	0.276	N/A	N/A	d.50.1	dsRNA-binding domain-like
View	Download	0.262	N/A	N/A	a.30.1	ROP protein
View	Download	0.256	N/A	N/A	a.3.1	Cytochrome c
View	Download	0.256	N/A	N/A	a.2.3	Chaperone J-domain
View	Download	0.244	N/A	N/A	a.60.11	Hypothetical protein YjbJ
View	Download	0.244	N/A	N/A	a.2.9	C-terminal UvrC-binding domain of UvrB
View	Download	0.243	N/A	N/A	a.36.1	Signal peptide-binding domain
View	Download	0.242	N/A	N/A	a.2.2	Ribosomal protein L29 (L29p)
View	Download	0.241	N/A	N/A	a.4.9	Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View	Download	0.239	N/A	N/A	a.60.11	Hypothetical protein YjbJ
View	Download	0.236	N/A	N/A	a.60.1	SAM/Pointed domain
View	Download	0.231	N/A	N/A	a.60.1	SAM/Pointed domain
View	Download	0.229	N/A	N/A	d.54.1	Enolase N-terminal domain-like
View	Download	0.226	N/A	N/A	a.2.6	Effector domain of the protein kinase pkn/prk1
View	Download	0.219	N/A	N/A	a.4.1	Homeodomain-like
View	Download	0.217	N/A	N/A	a.36.1	Signal peptide-binding domain
View	Download	0.213	N/A	N/A	a.2.2	Ribosomal protein L29 (L29p)
View	Download	0.210	N/A	N/A	a.7.2	Enzyme IIa from lactose specific PTS, IIa-lac
View	Download	0.209	N/A	N/A	a.30.1	ROP protein
View	Download	0.205	N/A	N/A	a.24.13	Domain of the SRP/SRP receptor G-proteins
View	Download	0.201	N/A	N/A	a.56.1	CO dehydrogenase ISP C-domain like

Predicted Domain #2

Region A:
Residues: [69-139]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SMPRVPLKIV LKDGAVKEAT SWETTPMDIA KGISKSLADR LCISKVNGQL WDLDRPFEGE  60
   61 ANEEIKLELL D

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2220.0
Match:	1qf6A_
Description:	Threonyl-tRNA synthetase (ThrRS), C-terminal domain; Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain; Threonyl-tRNA synthetase (ThrRS), second 'additional' domain; Threonyl-tRNA synthetase (ThrRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	7.89468709683036	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.89468709683036	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.88410036819636	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
threonine-tRNA ligase activity	6.47381405106149	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	2.99105702052936	bayes_pls_golite062009
serine-tRNA ligase activity	2.46505535069103	bayes_pls_golite062009
glycine-tRNA ligase activity	2.29229136935761	bayes_pls_golite062009
catalytic activity	1.99372273395202	bayes_pls_golite062009
alanine-tRNA ligase activity	1.82594054955281	bayes_pls_golite062009
lysine-tRNA ligase activity	1.72324031407565	bayes_pls_golite062009
histidine-tRNA ligase activity	1.72215103383322	bayes_pls_golite062009
binding	1.11470390774037	bayes_pls_golite062009
transcription regulator activity	1.0753492604686	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
nucleic acid binding	0.897558352141977	bayes_pls_golite062009
DNA binding	0.854148126675211	bayes_pls_golite062009
transcription repressor activity	0.55217603492525	bayes_pls_golite062009
transcription factor activity	0.283508546234551	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.00572514744734753	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [140-322]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FESDEGKKVF WHSSAHVLGE SCECHLGAHI CLGPPTDDGF FYEMAVRDSM KDISESPERT  60
   61 VSQADFPGLE GVAKNVIKQK QKFERLVMSK EDLLKMFHYS KYKTYLVQTK VPDGGATTVY 120
  121 RCGKLIDLCV GPHIPHTGRI KAFKLLKNSS CYFLGDATND SLQRVYGISF PDKKLMDAHL 180
  181 KFL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2220.0
Match:	1qf6A_
Description:	Threonyl-tRNA synthetase (ThrRS), C-terminal domain; Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain; Threonyl-tRNA synthetase (ThrRS), second 'additional' domain; Threonyl-tRNA synthetase (ThrRS)
Matching Structure (courtesy of the PDB):

Predicted Domain #4

Region A:
Residues: [323-620]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AEASMRDHRK IGKEQELFLF NEMSPGSCFW LPHGTRIYNT LVDLLRTEYR KRGYEEVITP  60
   61 NMYNSKLWET SGHWANYKEN MFTFEVEKET FGLKPMNCPG HCLMFKSRER SYRELPWRVA 120
  121 DFGVIHRNEF SGALSGLTRV RRFQQDDAHI FCTHDQIESE IENIFNFLQY IYGVFGFEFK 180
  181 MELSTRPEKY VGKIETWDAA ESKLESALKK WGGNWEINAG DGAFYGPKID IMISDALRRW 240
  241 HQCATIQLDF QLPNRFELEF KSKDQDSESY ERPVMIHRAI LGSVERMTAI LTEHFAGK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2220.0
Match:	1qf6A_
Description:	Threonyl-tRNA synthetase (ThrRS), C-terminal domain; Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain; Threonyl-tRNA synthetase (ThrRS), second 'additional' domain; Threonyl-tRNA synthetase (ThrRS)
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [621-734]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 WPFWLSPRQV LVVPVGVKYQ GYAEDVRNKL HDAGFYADVD LTGNTLQKKV RNGQMLKYNF  60
   61 IFIVGEQEMN EKSVNIRNRD VMEQQGKNAT VSVEEVLKQL RNLKDEKRGD NVLA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	2220.0
Match:	1qf6A_
Description:	Threonyl-tRNA synthetase (ThrRS), C-terminal domain; Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain; Threonyl-tRNA synthetase (ThrRS), second 'additional' domain; Threonyl-tRNA synthetase (ThrRS)
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: