YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|229688498, gi...
Organism:	Yersinia pestis biovar Orientalis str. India 195
Length:	424 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 gi|229688498, gi....

Description	E-value	Query Range	Subject Range
SYY_SALCH - Tyrosine--tRNA ligase OS=Salmonella choleraesuis (strain SC-B67) GN=tyrS PE=3 SV=1 SYY_SALPA - Tyrosine--tRNA ligase OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=tyrS PE=3 SV=1 lcl\|NC_016856.1_... - [gene=tyrS] [protein=tyrosyl-tRNA synthetase] [protein_id=YP_005237319.1] [location=1533463..1534737... SYY_SALTY - Tyrosine--tRNA ligase OS=Salmonella typhimurium GN=tyrS PE=3 SV=1 SYY_SALCH - Tyrosine--tRNA ligase OS=Salmonella choleraesuis GN=tyrS PE=3 SV=1 SYY_SALCH - Tyrosyl-tRNA synthetase OS=Salmonella choleraesuis GN=tyrS PE=3 SV=1 SYY_SALPA - Tyrosine--tRNA ligase OS=Salmonella paratyphi A GN=tyrS PE=3 SV=1 SYY_SALTY - Tyrosyl-tRNA synthetase OS=Salmonella typhimurium GN=tyrS PE=3 SV=1 SYY_SALTI - Tyrosyl-tRNA synthetase OS=Salmonella typhi GN=tyrS PE=3 SV=1 SYY_SALSV - Tyrosine--tRNA ligase OS=Salmonella schwarzengrund (strain CVM19633) GN=tyrS PE=3 SV=1 SYY_SALA4 - Tyrosine--tRNA ligase OS=Salmonella agona (strain SL483) GN=tyrS PE=3 SV=1 gi\|197239883, gi... - gi\|197261628\|ref\|ZP_03161702.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... SYY_SALPK - Tyrosine--tRNA ligase OS=Salmonella paratyphi A (strain AKU_12601) GN=tyrS PE=3 SV=1 gi\|168819199, gi... - gi\|205343665\|gb\|EDZ30429.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Wel... SYY_SALNS - Tyrosine--tRNA ligase OS=Salmonella newport (strain SL254) GN=tyrS PE=3 SV=1 SYY_SALHS - Tyrosine--tRNA ligase OS=Salmonella heidelberg (strain SL476) GN=tyrS PE=3 SV=1 gi\|194469349, gi... - gi\|194469349\|ref\|ZP_03075333.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... gi\|238913150 - gi\|238913150\|ref\|ZP_04656987.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... gi\|167994279, gi... - gi\|205327841\|gb\|EDZ14605.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar 4,[... gi\|168229823, gi... - gi\|205335458\|gb\|EDZ22222.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ken... gi\|168235521, gi... - gi\|197291166\|gb\|EDY30519.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sch... SYY_SALPB - Tyrosine--tRNA ligase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=tyrS PE=3 SV=1 gi\|168463140, gi... - gi\|195634532\|gb\|EDX52884.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar New... SYY_SALPB - Tyrosyl-tRNA synthetase OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=tyrS PE=3 SV=1 gi\|205323596, gi... - gi\|205323596\|gb\|EDZ11435.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sai... SYY_SALTY - Tyrosine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=tyrS PE=3 S... gi\|214000281 - gi\|214000281\|ref\|ZP_03411016.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... gi\|29141776, gi\|... - gi\|29141776\|ref\|NP_805118.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ty... SYY_SALTI - Tyrosine--tRNA ligase OS=Salmonella typhi GN=tyrS PE=3 SV=1 gi\|213425988 - gi\|213425988\|ref\|ZP_03358738.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... gi\|213622227 - gi\|213622227\|ref\|ZP_03375010.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... gi\|16760464 - gi\|16760464\|ref\|NP_456081.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ty... gi\|213649176 - gi\|213649176\|ref\|ZP_03379229.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... gi\|213857492 - gi\|213857492\|ref\|ZP_03384463.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... SYY_SALDC - Tyrosine--tRNA ligase OS=Salmonella dublin (strain CT_02021853) GN=tyrS PE=3 SV=1 gi\|204927912, gi... - gi\|204927912\|ref\|ZP_03219113.1\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar... SYY_SALG2 - Tyrosine--tRNA ligase OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=tyrS PE=3 SV=1 gi\|205358968, gi... - gi\|205358968\|ref\|ZP_02665896.2\| tyrosyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar...	0.0	[1..423]	[1..423]
SYY_ECOBW - Tyrosine--tRNA ligase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=tyrS PE=3 SV=1 gi\|254793254, gi... - gi\|254793254\|ref\|YP_003078091.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14359], gi... gi\|217318164, gi... - gi\|217328817\|ref\|ZP_03444898.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14588], gi\|... SYY_ECO7I - Tyrosine--tRNA ligase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=tyrS PE=3 SV=1 SYY_ECOLU - Tyrosine--tRNA ligase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=tyrS PE=3 SV=1 EG11043 - tyrosyl-tRNA synthetase / Tyrosine--tRNA ligase gi\|89108479, gi\|... - gi\|89108479\|ref\|AP_002259.1\| tyrosyl-tRNA synthetase [Escherichia coli str. K-12 substr. W3110], gi\|... SYY_ECOHS - Tyrosine--tRNA ligase OS=Escherichia coli O9:H4 (strain HS) GN=tyrS PE=3 SV=1 SYY_ECO24 - Tyrosine--tRNA ligase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=tyrS PE=3 SV=1 SYY_SHISS - Tyrosine--tRNA ligase OS=Shigella sonnei (strain Ss046) GN=tyrS PE=3 SV=3 SYY_ECO57 - Tyrosine--tRNA ligase OS=Escherichia coli O157:H7 GN=tyrS PE=3 SV=2 EG11043 - tyrosyl-tRNA synthetase / Tyrosine--tRNA ligase SYY_ECOLI - Tyrosyl-tRNA synthetase (EC 6.1.1.1) (Tyrosine--tRNA ligase) (TyrRS) - Escherichia coli SYY_ECOLC - Tyrosine--tRNA ligase OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=tyrS PE=3 SV=1 gi\|15831600, gi\|... - gi\|15831600\|ref\|NP_310373.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|13361... gi\|124529206, gi... - gi\|124529206\|ref\|ZP_01700281.1\| tyrosyl-tRNA synthetase [Escherichia coli B], gi\|124499980\|gb\|EAY474... gi\|208816760, gi... - gi\|208816760\|ref\|ZP_03257880.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4045], gi\|2... gi\|208821747, gi... - gi\|208821747\|ref\|ZP_03262067.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4042], gi\|2... SYY_ECO5E - Tyrosine--tRNA ligase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=tyrS PE=3 SV=1 SYY_ECOSE - Tyrosine--tRNA ligase OS=Escherichia coli (strain SE11) GN=tyrS PE=3 SV=1 gi\|188495334, gi... - gi\|188495334\|ref\|ZP_03002604.1\| tyrosyl-tRNA synthetase [Escherichia coli 53638], gi\|188490533\|gb\|ED... gi\|191173441, gi... - gi\|191173441\|ref\|ZP_03034969.1\| tyrosyl-tRNA synthetase [Escherichia coli F11], gi\|190906283\|gb\|EDV6... gi\|192956440, gi... - gi\|193070259\|ref\|ZP_03051203.1\| tyrosyl-tRNA synthetase [Escherichia coli E110019], gi\|192956440\|gb\|... gi\|208810466, gi... - gi\|208810466\|ref\|ZP_03252342.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4206], gi\|2... gi\|189370947, gi... - gi\|189370947\|gb\|EDU89363.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. EC869], gi\|168789... SYY_ECODH - Tyrosine--tRNA ligase OS=Escherichia coli (strain K12 / DH10B) GN=tyrS PE=3 SV=1 SYY_ECOSM - Tyrosine--tRNA ligase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=tyrS PE=3 SV=1 SYY_SHIB3 - Tyrosine--tRNA ligase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=tyrS PE=3 SV=1 gi\|168775869, gi... - gi\|187768721\|gb\|EDU32565.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4196], gi\|16877... gi\|188999202, gi... - gi\|188999202\|gb\|EDU68188.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4076], gi\|16878...	0.0	[1..423]	[1..423]
SYY_ECOL6 - Tyrosine--tRNA ligase OS=Escherichia coli O6 GN=tyrS PE=3 SV=3 SYY_ECOL6 - Tyrosine--tRNA ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=tyrS PE=3 SV... SYY_ECO27 - Tyrosine--tRNA ligase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=tyrS PE=3 SV=1 SYY_ECO45 - Tyrosine--tRNA ligase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=tyrS PE=3 SV=1 SYY_ECO81 - Tyrosine--tRNA ligase OS=Escherichia coli O81 (strain ED1a) GN=tyrS PE=3 SV=1 sp\|B7URX8\|SYY_ECO27 - Tyrosyl-tRNA synthetase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=tyrS PE=3 SV=1 SYY_ECO55 - Tyrosine--tRNA ligase OS=Escherichia coli (strain 55989 / EAEC) GN=tyrS PE=3 SV=1	0.0	[1..423]	[1..423]
SYY_YERPS - Tyrosine--tRNA ligase OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=tyrS PE=3 SV=1 SYY_YERPS - Tyrosine--tRNA ligase OS=Yersinia pseudotuberculosis GN=tyrS PE=3 SV=1 SYY_YERPB - Tyrosine--tRNA ligase OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=tyrS PE=3 SV=1 SYY_YERPY - Tyrosine--tRNA ligase OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=tyrS PE=3 SV=1 SYY_YERP3 - Tyrosine--tRNA ligase OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=tyrS PE=3 SV...	0.0	[1..424]	[1..424]
gi\|30063152, gi\|... - gi\|30063152\|ref\|NP_837323.1\| tyrosyl-tRNA synthetase [Shigella flexneri 2a str. 2457T], gi\|30041401\|... gi\|194417461, gi... - gi\|194434313\|ref\|ZP_03066578.1\| tyrosyl-tRNA synthetase [Shigella dysenteriae 1012], gi\|194417461\|gb...	0.0	[1..423]	[1..423]
gi\|75234950 - gi\|75234950\|ref\|ZP_00719229.1\| COG0162: Tyrosyl-tRNA synthetase [Escherichia coli E110019] gi\|75195717 - gi\|75195717\|ref\|ZP_00705787.1\| COG0162: Tyrosyl-tRNA synthetase [Escherichia coli HS] gi\|75190677 - gi\|75190677\|ref\|ZP_00703944.1\| COG0162: Tyrosyl-tRNA synthetase [Escherichia coli E24377A] gi\|75178466 - gi\|75178466\|ref\|ZP_00698512.1\| COG0162: Tyrosyl-tRNA synthetase [Shigella boydii BS512] gi\|25292889, gi\|... - gi\|25292889\|pir\|\|F85770 tyrosine tRNA synthetase [imported] - Escherichia coli (strain O157:H7, sub... gi\|75512930 - gi\|75512930\|ref\|ZP_00735411.1\| COG0162: Tyrosyl-tRNA synthetase [Escherichia coli 53638] gi\|15802051, gi\|... - gi\|15802051\|ref\|NP_288073.1\| tyrosyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|12515629\|... gi\|75238802 - gi\|75238802\|ref\|ZP_00722786.1\| COG0162: Tyrosyl-tRNA synthetase [Escherichia coli F11]	0.0	[1..423]	[5..427]
gi\|238787158, gi... - gi\|77975318\|ref\|ZP_00830854.1\| COG0162: Tyrosyl-tRNA synthetase [Yersinia frederiksenii ATCC 33641],...	0.0	[1..424]	[5..428]
SYY_SHIDS - Tyrosine--tRNA ligase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=tyrS PE=3 SV=3	0.0	[1..423]	[1..423]
gi\|117673420, gi... - gi\|77629354\|ref\|ZP_00791940.1\| COG0162: Tyrosyl-tRNA synthetase [Yersinia pseudotuberculosis IP 3175...	0.0	[1..424]	[5..428]
gi\|75212974 - gi\|75212974\|ref\|ZP_00712972.1\| COG0162: Tyrosyl-tRNA synthetase [Escherichia coli B171]	0.0	[1..423]	[5..427]

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Predicted Domain #1

Region A:
Residues: [1-327]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTSSNLIKQL QERGLVAQVT DEDALAERLA QGPISLYCGF DPTADSLHLG HLVPLLCLKR  60
   61 FQLAGHRPVA LVGGATGMIG DPSFKASERK LNTEDTVNEW VEKIRHQVSP FLDFDCGENS 120
  121 AIAANNYDWF GGMNVLTFLR DIGKHFSVNQ MINKEAVKQR LNRDDSGISF TEFSYNLLQA 180
  181 YDFACLNKNH GVALQIGGSD QWGNITSGID LTRRLHQQQV YGLTVPLITK ADGTKFGKTE 240
  241 GGAVWLDPKK TSPYKFYQFW INTADADVYR FLKFFTFMSL EEINALEEED KNSGKAPRAQ 300
  301 YVLAENVTGM VHGPEGLAAA KRITDSL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	96.0
Match:	1x8xA
Description:	Tyrosyl t-RNA Synthetase from E.coli Complexed with Tyrosine
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [328-424]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FSGDLHDMTE ADFAQLAQDG MPTVELNRDA DLQQALVNAE LVPSRGQART MIGSNAVAIN  60
   61 GEKQADPEYV FTDADRLFGR YTLLRRGKKH YCLISWL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	21.69897
Match:	1jh3A
Description:	Tyrosyl-trna synthetase (TyrRS), C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	4.38130670432475	bayes_pls_golite062009
structural molecule activity	4.02543122782129	bayes_pls_golite062009
binding	1.19763920760651	bayes_pls_golite062009
nucleic acid binding	0.926923419656671	bayes_pls_golite062009
protein binding	0.255198885489521	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: