YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213428094
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E02-1180
Length:	487 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|213428094.

Description	E-value	Query Range	Subject Range
gi\|20808918 - gi\|20808918\|ref\|NP_624089.1\| Sensory transduction histidine kinase [Thermoanaerobacter tengcongensis... gi\|20808918, gi\|... - gi\|20808918\|ref\|NP_624089.1\| sensory transduction histidine kinase [Thermoanaerobacter tengcongensis...	8.0E-64	[12..482]	[5..469]
PHOQ_SALTY - Virulence sensor histidine kinase PhoQ OS=Salmonella typhimurium GN=phoQ PE=1 SV=2 PHOQ_SALCH - Virulence sensor histidine kinase PhoQ OS=Salmonella choleraesuis GN=phoQ PE=3 SV=1 gi\|194711021, gi... - gi\|194735519\|ref\|YP_002114237.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Sc... gi\|194469479, gi... - gi\|194469479\|ref\|ZP_03075463.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Ken... gi\|194407393, gi... - gi\|194449089\|ref\|YP_002045232.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar He... gi\|194444857, gi... - gi\|194444857\|ref\|YP_002040486.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Ne... PHOQ_SALCH - Virulence sensor histidine kinase phoQ OS=Salmonella choleraesuis GN=phoQ PE=3 SV=1 gi\|199603068, gi... - gi\|200390623\|ref\|ZP_03217234.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Vir... PHOQ_SALPA - Virulence sensor histidine kinase PhoQ OS=Salmonella paratyphi A GN=phoQ PE=3 SV=1 gi\|198245737, gi... - gi\|198245737\|ref\|YP_002215905.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Du... gi\|197362707, gi... - gi\|197362707\|ref\|YP_002142344.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Pa... gi\|197243194, gi... - gi\|197264939\|ref\|ZP_03165013.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Sai... gi\|197288118, gi... - gi\|197288118\|gb\|EDY27505.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Schwarz... gi\|168233112, gi... - gi\|205332663\|gb\|EDZ19427.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Kentuck... gi\|238910950 - gi\|238910950\|ref\|ZP_04654787.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Ten... gi\|205329789, gi... - gi\|205329789\|gb\|EDZ16553.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar 4,[5],1... PHOQ_SALT1 - Virulence sensor histidine kinase PhoQ OS=Salmonella typhimurium (strain 14028s / SGSC 2262) GN=phoQ... gi\|161363899, gi... - gi\|161614535\|ref\|YP_001588500.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Pa... gi\|205341209, gi... - gi\|205341209\|gb\|EDZ27973.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Weltevr... PHOQ_SALTU - Virulence sensor histidine kinase PhoQ OS=Salmonella typhimurium (strain ATCC 68169 / UK-1) GN=phoQ ... PHOQ_SALCH - Virulence sensor histidine kinase PhoQ OS=Salmonella choleraesuis (strain SC-B67) GN=phoQ PE=3 SV=1 gi\|168467192, gi... - gi\|195630462\|gb\|EDX49088.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Newport... PHOQ_SALTS - Virulence sensor histidine kinase PhoQ OS=Salmonella typhimurium (strain SL1344) GN=phoQ PE=1 SV=1 gi\|205347305, gi... - gi\|205347305\|gb\|EDZ33936.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Hadar s... gi\|205336754, gi... - gi\|205336754\|gb\|EDZ23518.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Heidelb... PHOQ_SALTY - Virulence sensor histidine kinase PhoQ OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 70072... PHOQ_SALPA - Virulence sensor histidine kinase PhoQ OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=phoQ... gi\|224584262, gi... - gi\|224584262\|ref\|YP_002638060.1\| sensor protein PhoQ, regulator of virulence determinants [Salmonell... gi\|206709066, gi... - gi\|207857263\|ref\|YP_002243914.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar En... gi\|205272817, gi... - gi\|205353036\|ref\|YP_002226837.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Ga... gi\|204930875, gi... - gi\|204930875\|ref\|ZP_03221748.1\| sensor protein PhoQ [Salmonella enterica subsp. enterica serovar Jav... PHOQ_SALTY - Virulence sensor histidine kinase phoQ OS=Salmonella typhimurium GN=phoQ PE=1 SV=2	3.0E-63	[1..487]	[1..487]
gi\|72574 - gi\|72574\|pir\|\|VZEBPT sensor kinase phoQ (EC 2.7.3.-) - Salmonella typhimurium	7.0E-62	[1..487]	[1..487]
gi\|194437076, gi... - gi\|83587301\|ref\|ZP_00925929.1\| COG0642: Signal transduction histidine kinase [Escherichia coli 101-1...	2.0E-61	[1..487]	[1..486]
gi\|170020478, gi... - gi\|170020478\|ref\|YP_001725432.1\| sensor protein PhoQ [Escherichia coli ATCC 8739], gi\|169755406\|gb\|A... gi\|75511665, gi\|... - gi\|75511665\|ref\|ZP_00734312.1\| COG0642: Signal transduction histidine kinase [Escherichia coli 53638... gi\|75195310, gi\|... - gi\|75195310\|ref\|ZP_00705380.1\| COG0642: Signal transduction histidine kinase [Escherichia coli HS], ... gi\|124529874, gi... - gi\|124529874\|ref\|ZP_01700718.1\| integral membrane sensor signal transduction histidine kinase [Esche...	4.0E-61	[1..487]	[1..486]
gi\|25298440, gi\|... - pir\|\|A99829 sensor protein PhoQ [imported] - Escherichia coli (strain O157:H7, substrain RIMD 050995... gi\|217318512, gi... - gi\|217328085\|ref\|ZP_03444167.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. TW14588]... gi\|15830855, gi\|... - gi\|15830855\|ref\|NP_309628.1\| PhoQ [Escherichia coli O157:H7], gi\|13361065\|dbj\|BAB35024.1\| sensor pro... gi\|208805732, gi... - gi\|208805732\|ref\|ZP_03248069.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4206],... gi\|208732466, gi... - gi\|208815818\|ref\|ZP_03256997.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4045],... gi\|208738181, gi... - gi\|208822696\|ref\|ZP_03263015.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4042],... gi\|209397549, gi... - gi\|209397549\|ref\|YP_002270046.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4115]... gi\|168776058, gi... - gi\|187768516\|gb\|EDU32360.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4196], gi\|... gi\|189000067, gi... - gi\|189000067\|gb\|EDU69053.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4076], gi\|... gi\|168787604, gi... - gi\|189372549\|gb\|EDU90965.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC869], gi\|1... gi\|168800459, gi... - gi\|189377297\|gb\|EDU95713.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC508], gi\|1... gi\|168749732, gi... - gi\|188016022\|gb\|EDU54144.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4113], gi\|... gi\|189356409, gi... - gi\|189356409\|gb\|EDU74828.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4401], gi\|... gi\|189367121, gi... - gi\|189367121\|gb\|EDU85537.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4501], gi\|... gi\|189360163, gi... - gi\|189360163\|gb\|EDU78582.1\| sensor histidine kinase PhoQ [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|15830855, gi\|... - gi\|15830855\|ref\|NP_309628.1\| sensor protein PhoQ [Escherichia coli O157:H7 str. Sakai], gi\|13361065\|... gi\|254591989, gi... - gi\|254792589\|ref\|YP_003077426.1\| sensory histidine kinase in two-component regulatory system with Ph...	4.0E-61	[1..487]	[1..486]
gi\|81241408, gi\|... - gi\|82777260\|ref\|YP_403609.1\| sensor protein PhoQ [Shigella dysenteriae Sd197], gi\|81241408\|gb\|ABB621...	6.0E-61	[1..487]	[1..486]
PHOQ_SHIFL - Virulence sensor protein PhoQ OS=Shigella flexneri GN=phoQ PE=3 SV=1 gi\|110614705, gi... - gi\|110805157\|ref\|YP_688677.1\| sensor protein PhoQ [Shigella flexneri 5 str. 8401], gi\|110614705\|gb\|A... gi\|24051443, gi\|... - gi\|24112548\|ref\|NP_707058.1\| sensor protein PhoQ [Shigella flexneri 2a str. 301], gi\|24051443\|gb\|AAN... gi\|30062676, gi\|... - gi\|30062676\|ref\|NP_836847.1\| sensor protein PhoQ [Shigella flexneri 2a str. 2457T], gi\|30040924\|gb\|A...	9.0E-61	[1..487]	[1..486]
gi\|238863520, gi... - gi\|238900383\|ref\|YP_002926179.1\| sensory histidine kinase in two-compoent regulatory system with Pho... gi\|157155874, gi... - gi\|75190215\|ref\|ZP_00703482.1\| COG0642: Signal transduction histidine kinase [Escherichia coli E2437... gi\|218351395, gi... - gi\|218694663\|ref\|YP_002402330.1\| sensor protein PhoQ [Escherichia coli 55989], gi\|218351395\|emb\|CAU9... gi\|187430524, gi... - gi\|75179249\|ref\|ZP_00699267.1\| COG0642: Signal transduction histidine kinase [Shigella boydii BS512]... gi\|218370334, gi... - gi\|218700348\|ref\|YP_002407977.1\| sensor protein PhoQ [Escherichia coli IAI39], gi\|218370334\|emb\|CAR1... gi\|83569550, gi\|... - gi\|83569550\|ref\|ZP_00921002.1\| COG0642: Signal transduction histidine kinase [Shigella dysenteriae 1... EG10732 - sensory histidine kinase in two-component regulatory system with PhoP / Histidine protein kinase sen... gi\|82544384, gi\|... - gi\|82544384\|ref\|YP_408331.1\| sensor protein PhoQ [Shigella boydii Sb227], gi\|81245795\|gb\|ABB66503.1\|... gi\|74311688, gi\|... - gi\|74311688\|ref\|YP_310107.1\| sensor protein PhoQ [Shigella sonnei Ss046], gi\|73855165\|gb\|AAZ87872.1\|... gi\|75228459, gi\|... - gi\|75228459\|ref\|ZP_00715099.1\| COG0642: Signal transduction histidine kinase [Escherichia coli B7A],... gi\|75214690, gi\|... - gi\|75214690\|ref\|ZP_00713201.1\| COG0642: Signal transduction histidine kinase [Escherichia coli E1100... EG10732 - sensory histidine kinase in two-component regulatory system with PhoP / Histidine protein kinase sen... PHOQ_ECOLI - Sensor protein phoQ (EC 2.7.13.3) - Escherichia coli gi\|170080780, gi... - gi\|170080780\|ref\|YP_001730100.1\| sensory histidine kinase in two-compoent regulatory system with Pho... gi\|209918386, gi... - gi\|209918386\|ref\|YP_002292470.1\| sensor protein PhoQ [Escherichia coli SE11], gi\|209911645\|dbj\|BAG76... gi\|218360475, gi... - gi\|218553707\|ref\|YP_002386620.1\| sensor protein PhoQ [Escherichia coli IAI1], gi\|218360475\|emb\|CAQ98... gi\|89107975, gi\|... - gi\|89107975\|ref\|AP_001755.1\| sensory histidine kinase in two-compoent regulatory system with PhoP [E...	9.0E-61	[1..487]	[1..486]
gi\|75255667, gi\|... - gi\|75255667\|ref\|ZP_00727439.1\| COG0642: Signal transduction histidine kinase [Escherichia coli E22],... gi\|194412416, gi... - gi\|75209209\|ref\|ZP_00709456.1\| COG0642: Signal transduction histidine kinase [Escherichia coli B171]... gi\|195182816 - gi\|195182816\|dbj\|BAG66392.1\| two-component sensor kinase [Escherichia coli O111:H-]	1.0E-60	[1..487]	[1..486]

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Predicted Domain #1

Region A:
Residues: [1-168]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNKFARHFLP LSLRVRFLLA TAGVVLVLSL AYGIVALVGY SVSFDKTTFR LLRGESNLFY  60
   61 TLAKWENNKI SVELPENLDM QSPTMTLIYD ETGKLLWTQR NIPWLIKSIQ PEWLKTNGFH 120
  121 EIETNVDATS TLLSEDHSAQ EKLKEVREDD DDAEMTHSVA VNIYPATT

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	103.356547
Match:	PF08918.1
Description:	No description for PF08918.1 was found.

Shown below is our most confident prediction for this domain.
Click here to view all matches.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.909	N/A	N/A	b.1.2	Fibronectin type III

Predicted Domain #2

Region A:
Residues: [169-257]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RMPQLTIVVV DTIPIELKRS YMVWSWFVYV LAANLLLVIP LLWIAAWWSL RPIEALAREV  60
   61 RELEDHHREM LNPETTRELT SLVRNLNQL

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.06
Match:	2f95B
Description:	M intermediate structure of sensory rhodopsin II/transducer complex in combination with the ground state structure
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [258-487]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LKSERERYNK YRTTLTDLTH SLKTPLAVLQ STLRSLRNEK MSVSKAEPVM LEQISRISQQ  60
   61 IGYYLHRASM RGSGVLLSRE LHPVAPLLDN LISALNKVYQ RKGVNISMDI SPEISFVGEQ 120
  121 NDFVEVMGNV LDNACKYCLE FVEISARQTD DHLHIFVEDD GPGIPHSKRS LVFDRGQRAD 180
  181 TLRPGQGVGL AVAREITEQY AGQIIASDSL LGGARMEVVF GRQHPTQKEE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	22.39794
Match:	1id0A
Description:	Histidine kinase PhoQ domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
protein histidine kinase activity	4.82398483954378	bayes_pls_golite062009
two-component sensor activity	4.79766298875975	bayes_pls_golite062009
phosphotransferase activity, nitrogenous group as acceptor	4.76164614213074	bayes_pls_golite062009
protein kinase activity	3.57531862667106	bayes_pls_golite062009
kinase activity	3.47809160998617	bayes_pls_golite062009
two-component response regulator activity	3.47298917518553	bayes_pls_golite062009
phosphotransferase activity, alcohol group as acceptor	3.36409984155553	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	3.20609336929586	bayes_pls_golite062009
signal transducer activity	2.91676094682887	bayes_pls_golite062009
molecular transducer activity	2.91676094682887	bayes_pls_golite062009
catalytic activity	2.4793446884777	bayes_pls_golite062009
transferase activity	2.46167639226183	bayes_pls_golite062009
binding	0.162154598845105	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: