YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|226838816, gi...
Organism:	Escherichia sp. 1_1_43
Length:	702 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|226838816, gi....

Description	E-value	Query Range	Subject Range
gi\|81243289, gi\|... - gi\|82779141\|ref\|YP_405490.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ...	763.0	[0..1]	[702..1]
gi\|91213168, gi\|... - gi\|91213168\|ref\|YP_543154.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|190909368, gi... - gi\|75242571\|ref\|ZP_00726315.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [E... gi\|226902708, gi... - gi\|237703444\|ref\|ZP_04533925.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Escherichi... gi\|218367491, gi... - gi\|218560722\|ref\|YP_002393635.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|110643891, gi... - gi\|110643891\|ref\|YP_671621.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate... gi\|26110727, gi\|... - gi\|26250297\|ref\|NP_756337.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ...	762.0	[0..1]	[702..1]
gi\|75208678, gi\|... - gi\|75208678\|ref\|ZP_00708975.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [E...	759.0	[0..1]	[702..1]
gi\|73671332 - gi\|73671332\|gb\|AAZ80077.1\| SpoT [Escherichia coli] gi\|73671332\|gb\|A... - SpoT [Escherichia coli]	757.0	[0..1]	[702..1]
gi\|20516195, gi\|... - gi\|20807650\|ref\|NP_622821.1\| guanosine polyphosphate pyrophosphohydrolase/synthetase [Thermoanaeroba... gi\|20807650 - gi\|20807650\|ref\|NP_622821.1\| Guanosine polyphosphate pyrophosphohydrolase/synthetase [Thermoanaeroba...	757.0	[0..3]	[700..1]
gi\|25289086 - pir\|\|AG0005 guanosine-3',5'-bis(diphosphate) 3'-diphosphatase (EC 3.1.7.2) [imported] - Yersinia pes... gi\|45434759, gi\|... - gi\|45439904\|ref\|NP_991443.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|22124023, gi\|... - gi\|22124023\|ref\|NP_667446.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|15978153, gi\|... - gi\|218927259\|ref\|YP_002345134.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|51594393, gi\|... - gi\|51594393\|ref\|YP_068584.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... Q66GE7\|Q66GE7_YERPS - Guanosine-3',5'-bisbis(Diphosphate) 3'-pyrophosphydrolase - Yersinia pseudotuberculosis gi\|229690279, gi... - gi\|229841969\|ref\|ZP_04462124.1\| guanosine-3',5'-bisbis(diphosphate) 3'-pyrophosphydrolase [Yersinia ... gi\|229839887, gi... - gi\|229839887\|ref\|ZP_04460046.1\| guanosine-3',5'-bisbis(diphosphate) 3'-pyrophosphydrolase [Yersinia ... gi\|229836149, gi... - gi\|229836149\|ref\|ZP_04456317.1\| guanosine-3',5'-bisbis(diphosphate) 3'-pyrophosphydrolase [Yersinia ... gi\|165922010, gi... - gi\|165926150\|ref\|ZP_02221982.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|165989604, gi... - gi\|166011458\|ref\|ZP_02232356.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|166205143, gi... - gi\|166213741\|ref\|ZP_02239776.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|167048468, gi... - gi\|167402093\|ref\|ZP_02307570.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|166962709, gi... - gi\|167418715\|ref\|ZP_02310468.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|167426657, gi... - gi\|167426657\|ref\|ZP_02318410.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|162419160, gi... - gi\|77634083\|ref\|ZP_00796192.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [Y... gi\|117671878, gi... - gi\|77630893\|ref\|ZP_00793479.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [Y... gi\|167468214 - gi\|167468214\|ref\|ZP_02332918.1\| guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase [Yersinia p... gi\|169752919, gi... - gi\|170026385\|ref\|YP_001722890.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|186893380, gi... - gi\|186893380\|ref\|YP_001870492.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|89102582, gi\|... - gi\|89102582\|ref\|ZP_01175205.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [Y... gi\|108781408, gi... - gi\|108809495\|ref\|YP_653411.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate... gi\|229678620, gi... - gi\|229904502\|ref\|ZP_04519613.1\| guanosine-3',5'-bisbis(diphosphate) 3'-pyrophosphydrolase [Yersinia ... gi\|150260898, gi... - gi\|150260898\|ref\|ZP_01917626.1\| guanosine-3',5'-bisbis(diphosphate) 3'-pyrophosphydrolase [Yersinia ... gi\|145601107, gi... - gi\|145601107\|ref\|YP_001165183.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph...	756.0	[0..1]	[702..1]
gi\|238715125, gi... - gi\|77958430\|ref\|ZP_00822463.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [Y...	756.0	[0..1]	[702..1]
gi\|238718510, gi... - gi\|77962008\|ref\|ZP_00825835.1\| COG0317: Guanosine polyphosphate pyrophosphohydrolases/synthetases [Y...	754.0	[0..1]	[702..1]
gi\|207858979, gi... - gi\|207858979\|ref\|YP_002245630.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|238910217 - gi\|238910217\|ref\|ZP_04654054.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophospha... gi\|200388608, gi... - gi\|200388608\|ref\|ZP_03215220.1\| RelA/SpoT family protein [Salmonella enterica subsp. enterica serova... gi\|205354656, gi... - gi\|205354656\|ref\|YP_002228457.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|197364559, gi... - gi\|197364559\|ref\|YP_002144196.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|16422311, gi\|... - gi\|16767027\|ref\|NP_462642.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|197937024, gi... - gi\|198242508\|ref\|YP_002217702.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar ... gi\|194711882, gi... - gi\|194736380\|ref\|YP_002116685.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar ... lcl\|NC_016856.1_... - [gene=spoT] [protein=bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrop... gi\|56415632, gi\|... - gi\|56415632\|ref\|YP_152707.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|197215292, gi... - gi\|197251589\|ref\|YP_002148673.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar ... gi\|194449048, gi... - gi\|194449048\|ref\|YP_002047773.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|194471826, gi... - gi\|194471826\|ref\|ZP_03077810.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar K... gi\|168818426, gi... - gi\|205344372\|gb\|EDZ31136.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar Welte... gi\|194445787, gi... - gi\|194445787\|ref\|YP_002042991.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar ... gi\|205350323, gi... - gi\|205350323\|gb\|EDZ36954.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar Hadar... gi\|195632329, gi... - gi\|195632329\|gb\|EDX50813.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar Newpo... gi\|168235357, gi... - gi\|197291311\|gb\|EDY30663.1\| RelA/SpoT family protein [Salmonella enterica subsp. enterica serovar Sc... gi\|168241922, gi... - gi\|205338906\|gb\|EDZ25670.1\| RelA/SpoT family protein [Salmonella enterica subsp. enterica serovar He... gi\|205325687, gi... - gi\|205325687\|gb\|EDZ13526.1\| GTP pyrophosphokinase [Salmonella enterica subsp. enterica serovar Saint... gi\|168233267, gi... - gi\|205332543\|gb\|EDZ19307.1\| RelA/SpoT family protein [Salmonella enterica subsp. enterica serovar Ke... gi\|160867068, gi... - gi\|161505721\|ref\|YP_001572833.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|161616824, gi... - gi\|161616824\|ref\|YP_001590789.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosph... gi\|62129869, gi\|... - gi\|62182236\|ref\|YP_218653.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ...	754.0	[0..1]	[702..1]
gi\|25289087, gi\|... - gi\|25289087\|pir\|\|AG0969 guanosine-3',5'-bis(diphosphate) 3'-diphosphatase (EC 3.1.7.2) - Salmonella ... gi\|29139693, gi\|... - gi\|29144057\|ref\|NP_807399.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|213647938 - gi\|213647938\|ref\|ZP_03377991.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophospha... gi\|16762568 - gi\|16762568\|ref\|NP_458185.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate ... gi\|213425218 - gi\|213425218\|ref\|ZP_03357968.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophospha... gi\|213052647 - gi\|213052647\|ref\|ZP_03345525.1\| bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophospha...	754.0	[0..1]	[702..1]

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Predicted Domain #1

Region A:
Residues: [1-370]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MYLFESLNQL IQTYLPEDQI KRLRQAYLVA RDAHEGQTRS SGEPYITHPV AVACILAEMK  60
   61 LDYETLMAAL LHDVIEDTPA TYQDMEQLFG KSVAELVEGV SKLDKLKFRD KKEAQAENFR 120
  121 KMIMAMVQDI RVILIKLADR THNMRTLGSL RPDKRRRIAR ETLEIYSPLA HRLGIHHIKT 180
  181 ELEELGFEAL YPNRYRVIKE VVKAARGNRK EMIQKILSEI EGRLQEAGIP CRVSGREKHL 240
  241 YSIYCKMVLK EQRFHSIMDI YAFRVIVNDS DTCYRVLGQM HSLYKPRPGR VKDYIAIPKA 300
  301 NGYQSLHTSM IGPHGVPVEV QIRTEDMDQM AEMGVAAHWA YKEHGETSTT AQIRAQRWMQ 360
  361 SLLELQQSAG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	113.0
Match:	1vj7A
Description:	Crystal structure of the bifunctional catalytic fragment of RelSeq, the RelA/SpoT homolog from Streptococcus equisimilis.
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
GTP diphosphokinase activity	1.5953523101767	bayes_pls_golite062009
cyclic-nucleotide phosphodiesterase activity	1.53556412385088	bayes_pls_golite062009
3',5'-cyclic-nucleotide phosphodiesterase activity	1.52960140313397	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	1.17940277430091	bayes_pls_golite062009
guanosine-3',5'-bis(diphosphate) 3'-diphosphatase activity	1.1479499593037	bayes_pls_golite062009
diphosphoric monoester hydrolase activity	1.1479499593037	bayes_pls_golite062009
catalytic activity	1.122769147009	bayes_pls_golite062009
nucleotidyltransferase activity	0.92178707322923	bayes_pls_golite062009
hydrolase activity	0.89382287998944	bayes_pls_golite062009
phosphoric diester hydrolase activity	0.874654356902841	bayes_pls_golite062009
transferase activity	0.63270331673446	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.262138492248739	bayes_pls_golite062009
phosphoric ester hydrolase activity	0.196287846714023	bayes_pls_golite062009
3',5'-cyclic-AMP phosphodiesterase activity	0.0897894719596	bayes_pls_golite062009
3',5'-cyclic-GMP phosphodiesterase activity	0.0229959143092802	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [371-608]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSFEFIESVK SDLFPDEIYV FTPEGRIVEL PAGATPVDFA YAVHTDIGHA CVGARVDRQP  60
   61 YPLSQPLTSG QTVEIITAPG ARPNAAWLNF VVSSKARAKI RQLLKNLKRD DSVSLGRRLL 120
  121 NHALGGSRKL NEIPQENIQR ELDRMKLATL DDLLAEIGLG NAMSVVVAKN LQHGDASIPP 180
  181 ATQSHGHLPI KGADGVLITF AKCCRPIPGD PIIAHVSPGK GLVIHHESCR NIRGYQKE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	28.0
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 #3

Region A:
Residues: [609-702]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PEKFMAVEWD KETAQEFITE IKVEMFNHQG ALANLTAAIN TTTSNIQSLN TEEKDGRVYS  60
   61 AFIRLTARDR VHLANIMRKI RVMPDVIKVT RNRN

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	8.39794
Match:	2fgcA
Description:	Crystal structure of Acetolactate synthase- small subunit from Thermotoga maritima
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transferase activity, transferring aldehyde or ketonic groups	1.58611270031811	bayes_pls_golite062009
catalytic activity	1.01569611874813	bayes_pls_golite062009
binding	0.162590183060409	bayes_pls_golite062009
transferase activity	0.07375530569672	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:

Predicted functions: