YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|110807053, gi...
Organism:	Shigella flexneri 5 str. 8401
Length:	323 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|110807053, gi....

Description	E-value	Query Range	Subject Range
gi\|62129446, gi\|... - gi\|62181813\|ref\|YP_218230.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica se... lcl\|NC_016856.1_... - [gene=ispB] [protein=octaprenyl diphosphate synthase] [protein_id=YP_005239484.1] [location=3487069....	343.0	[0..1]	[323..59]
gi\|75197136, gi\|... - gi\|75197136\|ref\|ZP_00707206.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli HS],...	334.0	[0..1]	[323..1]
gi\|26110199, gi\|... - gi\|26249771\|ref\|NP_755811.1\| octaprenyl diphosphate synthase [Escherichia coli CFT073], gi\|26110199\|...	334.0	[0..1]	[323..1]
gi\|117625480, gi... - gi\|117625480\|ref\|YP_858803.1\| octaprenyl diphosphate synthase [Escherichia coli APEC O1], gi\|1155146... gi\|110643427, gi... - gi\|110643427\|ref\|YP_671157.1\| octaprenyl diphosphate synthase [Escherichia coli 536], gi\|110345019\|g... gi\|191174477, gi... - gi\|75236232\|ref\|ZP_00720342.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli F11]... gi\|91074184, gi\|... - gi\|91212610\|ref\|YP_542596.1\| octaprenyl diphosphate synthase [Escherichia coli UTI89], gi\|91074184\|g... gi\|227887908, gi... - gi\|227887908\|ref\|ZP_04005713.1\| possible trans-hexaprenyltranstransferase [Escherichia coli 83972], ... gi\|218367026, gi... - gi\|218560257\|ref\|YP_002393170.1\| octaprenyl diphosphate synthase [Escherichia coli S88], gi\|21836702... gi\|218429041, gi... - gi\|218691477\|ref\|YP_002399689.1\| octaprenyl diphosphate synthase [Escherichia coli ED1a], gi\|2184290...	334.0	[0..1]	[323..1]
gi\|205354206, gi... - gi\|205354206\|ref\|YP_002228007.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enteric... gi\|197364164, gi... - gi\|197364164\|ref\|YP_002143801.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enteric... gi\|213646987 - gi\|213646987\|ref\|ZP_03377040.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica... gi\|213426652 - gi\|213426652\|ref\|ZP_03359402.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica... gi\|213053033 - gi\|213053033\|ref\|ZP_03345911.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica... gi\|207858553, gi... - gi\|207858553\|ref\|YP_002245204.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enteric... gi\|238910099 - gi\|238910099\|ref\|ZP_04653936.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica... gi\|25314317, gi\|... - gi\|25314317\|pir\|\|AH0903 octaprenyl-diphosphate synthase [imported] - Salmonella enterica subsp. ente... gi\|16421862, gi\|... - gi\|16766600\|ref\|NP_462215.1\| octaprenyl diphosphate synthase [Salmonella typhimurium LT2], gi\|164218... gi\|56415234, gi\|... - gi\|56415234\|ref\|YP_152309.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica se... gi\|29143556, gi\|... - gi\|29143556\|ref\|NP_806898.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica se... gi\|16762067 - gi\|16762067\|ref\|NP_457684.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica se... gi\|214000941 - gi\|214000941\|ref\|ZP_03411676.1\| octaprenyl diphosphate synthase [Salmonella enterica subsp. enterica...	334.0	[0..1]	[323..1]
gi\|217327318, gi... - gi\|217327318\|ref\|ZP_03443401.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. TW145... gi\|209396313, gi... - gi\|209396313\|ref\|YP_002272657.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC41... gi\|208738597, gi... - gi\|208818474\|ref\|ZP_03258794.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC404... gi\|189001013, gi... - gi\|189001013\|gb\|EDU69999.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC4076], ... gi\|254795136, gi... - gi\|254795136\|ref\|YP_003079973.1\| octaprenyl diphosphate synthase [Escherichia coli O157:H7 str. TW14... gi\|187766779, gi... - gi\|187766779\|gb\|EDU30623.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC4196], ... gi\|168769043, gi... - gi\|189361792\|gb\|EDU80211.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC4486], ... gi\|189364885, gi... - gi\|189364885\|gb\|EDU83301.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC4501], ... gi\|208813351, gi... - gi\|208813351\|ref\|ZP_03254680.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC404... gi\|195940043 - gi\|195940043\|ref\|ZP_03085425.1\| octaprenyl diphosphate synthase [Escherichia coli O157:H7 str. EC402... gi\|168800901, gi... - gi\|189376838\|gb\|EDU95254.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC508], g... gi\|168786073, gi... - gi\|189374093\|gb\|EDU92509.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC869], g... gi\|189358538, gi... - gi\|189358538\|gb\|EDU76957.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC4401], ... gi\|188014375, gi... - gi\|188014375\|gb\|EDU52497.1\| octaprenyl-diphosphate synthase [Escherichia coli O157:H7 str. EC4113], ... gi\|15833320, gi\|... - gi\|15833320\|ref\|NP_312093.1\| octaprenyl diphosphate synthase [Escherichia coli O157:H7], gi\|13363539... gi\|209758172, gi... - pir\|\|E85982 octaprenyl diphosphate synthase [imported] - Escherichia coli (strain O157:H7, substrain... gi\|15803727, gi\|... - gi\|15803727\|ref\|NP_289761.1\| octaprenyl diphosphate synthase [Escherichia coli O157:H7 EDL933], gi\|1... gi\|15833320, gi\|... - gi\|15833320\|ref\|NP_312093.1\| octaprenyl diphosphate synthase [Escherichia coli O157:H7 str. Sakai], ...	334.0	[0..1]	[323..1]
gi\|75234899, gi\|... - gi\|75234899\|ref\|ZP_00719190.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli E110...	333.0	[0..1]	[323..1]
gi\|82778501, gi\|... - gi\|82778501\|ref\|YP_404850.1\| octaprenyl diphosphate synthase [Shigella dysenteriae Sd197], gi\|812426...	333.0	[0..1]	[323..1]
gi\|75209630 - gi\|75209630\|ref\|ZP_00709842.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli B171...	333.0	[0..1]	[323..5]
gi\|193065379, gi... - gi\|75256563\|ref\|ZP_00728193.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli E22]...	333.0	[0..1]	[323..1]

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Predicted Domain #1

Region A:
Residues: [1-323]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNLEKINELT AQDMAGVNAA ILEQLNSDVQ LINQLGYYIV SGGGKRIRPM IAVLAARAVG  60
   61 YEGNAHVTIA ALIEFIHTAT LLHDDVVDES DMRRGKATAN AAFGNAASVL VGDFIYTRAF 120
  121 QMMTSLGSLK VLEVMSEAVN VIAEGEVLQL MNVNDPDITE ENYMRVIYSK TARLFEAAAQ 180
  181 CSGILAGCTP EEEKGLQDYG RYLGTAFQLI DDLLDYNADG EQLGKNVGDD LNEGKPTLPL 240
  241 LHAMHHGTPE QAQMIRTAIE QGNGRHLLEP VLEAMNACGS LEWTRQRAEE EADKAIAALQ 300
  301 VLPDTPWREA LIGLAHIAVQ RDR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	80.221849
Match:	1wy0A
Description:	Crystal structure of geranylgeranyl pyrophosphate synthetase from Pyrococcus horikoshii Ot3
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