YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16421862, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
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|16421862, 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....	1.0E-89	[1..323]	[59..381]
gi\|75197136, gi\|... - gi\|75197136\|ref\|ZP_00707206.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli HS],...	3.0E-87	[1..323]	[1..323]
gi\|75228148 - gi\|75228148\|ref\|ZP_00714813.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli B7A] gi\|75511910, gi\|... - gi\|75511910\|ref\|ZP_00734522.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli 5363... gi\|194439175, gi... - gi\|83585435\|ref\|ZP_00924081.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli 101-... gi\|157155105, gi... - gi\|75187993\|ref\|ZP_00701260.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli E243... gi\|89109950, gi\|... - gi\|89109950\|ref\|AP_003730.1\| octaprenyl diphosphate synthase [Escherichia coli str. K-12 substr. W31... gi\|74313724, gi\|... - gi\|74313724\|ref\|YP_312143.1\| octaprenyl diphosphate synthase [Shigella sonnei Ss046], gi\|73857201\|gb... gi\|81246986, gi\|... - gi\|82545575\|ref\|YP_409522.1\| octaprenyl diphosphate synthase [Shigella boydii Sb227], gi\|81246986\|gb... gi\|110807053, gi... - gi\|110807053\|ref\|YP_690573.1\| octaprenyl diphosphate synthase [Shigella flexneri 5 str. 8401], gi\|11... gi\|238902289, gi... - gi\|238902289\|ref\|YP_002928085.1\| octaprenyl diphosphate synthase [Escherichia coli BW2952], gi\|23886... gi\|242378730, gi... - gi\|251786457\|ref\|YP_003000761.1\| hypothetical protein B21_03003 [Escherichia coli BL21], gi\|24237873... gi\|253323023, gi... - gi\|254289879\|ref\|YP_003055627.1\| octaprenyl diphosphate synthase [Escherichia coli BL21(DE3)], gi\|25... gi\|254163129, gi... - gi\|254163129\|ref\|YP_003046237.1\| octaprenyl diphosphate synthase [Escherichia coli B str. REL606], g... ISPB_ECOLI - Octaprenyl-diphosphate synthase (EC 2.5.1.-) (Octaprenyl pyrophosphate synthetase) (OPP synthetase) ... gi\|170765991, gi... - gi\|170765991\|ref\|ZP_02900802.1\| octaprenyl-diphosphate synthase [Escherichia albertii TW07627], gi\|1... ISPB_SHIFL - Octaprenyl-diphosphate synthase OS=Shigella flexneri GN=ispB PE=3 SV=1 gi\|169890557, gi... - gi\|170082722\|ref\|YP_001732042.1\| octaprenyl diphosphate synthase [Escherichia coli str. K-12 substr.... gi\|209920662, gi... - gi\|209920662\|ref\|YP_002294746.1\| octaprenyl diphosphate synthase [Escherichia coli SE11], gi\|2099139... gi\|194417271, gi... - gi\|194434492\|ref\|ZP_03066752.1\| octaprenyl-diphosphate synthase [Shigella dysenteriae 1012], gi\|1944... EG10017 - octaprenyl diphosphate synthase / Octaprenyl diphosphate synthase, isoprenoid biosynthesis gi\|218353624, gi... - gi\|218696892\|ref\|YP_002404559.1\| octaprenyl diphosphate synthase [Escherichia coli 55989], gi\|218353... gi\|218555757, gi... - gi\|218555757\|ref\|YP_002388670.1\| octaprenyl diphosphate synthase [Escherichia coli IAI1], gi\|2183625... gi\|24114476, gi\|... - gi\|24114476\|ref\|NP_708986.1\| octaprenyl diphosphate synthase [Shigella flexneri 2a str. 301], gi\|240... gi\|218706807, gi... - gi\|218706807\|ref\|YP_002414326.1\| octaprenyl diphosphate synthase [Escherichia coli UMN026], gi\|21843... gi\|30042784, gi\|... - gi\|30064525\|ref\|NP_838696.1\| octaprenyl diphosphate synthase [Shigella flexneri 2a str. 2457T], gi\|3... gi\|218701956, gi... - gi\|218701956\|ref\|YP_002409585.1\| octaprenyl diphosphate synthase [Escherichia coli IAI39], gi\|218371... gi\|169753491, gi... - gi\|170018563\|ref\|YP_001723517.1\| octaprenyl diphosphate synthase [Escherichia coli ATCC 8739], gi\|16... EG10017 - octaprenyl diphosphate synthase / Octaprenyl diphosphate synthase, isoprenoid biosynthesis	4.0E-87	[1..323]	[1..323]
gi\|26110199, gi\|... - gi\|26249771\|ref\|NP_755811.1\| octaprenyl diphosphate synthase [Escherichia coli CFT073], gi\|26110199\|...	4.0E-87	[1..323]	[1..323]
gi\|75209630 - gi\|75209630\|ref\|ZP_00709842.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli B171...	5.0E-87	[1..323]	[5..327]
gi\|193065379, gi... - gi\|75256563\|ref\|ZP_00728193.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli E22]...	6.0E-87	[1..323]	[1..323]
gi\|82778501, gi\|... - gi\|82778501\|ref\|YP_404850.1\| octaprenyl diphosphate synthase [Shigella dysenteriae Sd197], gi\|812426...	6.0E-87	[1..323]	[1..323]
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...	7.0E-87	[1..323]	[1..323]
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], ...	7.0E-87	[1..323]	[1..323]
gi\|75234899, gi\|... - gi\|75234899\|ref\|ZP_00719190.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli E110...	8.0E-87	[1..323]	[1..323]

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Predicted Domain #1

Region A:
Residues: [1-323]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNLEKINELT AQDMAGVNAT ILEQLNSDVQ LINQLGYYII SGGGKRIRPM IAVLAARAVG  60
   61 YQGNAHVTIA ALIEFIHTAT LLHDDVVDES DMRRGKATAN AAFGNAASVL VGDFIYTRAF 120
  121 QMMTSLGSLK VLEVMSEAVN VIAEGEVLQL MNVNDPDITE ENYMRVIYSK TARLFEAAAQ 180
  181 CSGILAGCTP EQEKGLQDYG RYLGTAFQLI DDLLDYSADG EHLGKNVGDD LNEGKPTLPL 240
  241 LHAMRHGTPE QSAMIRTAIE QGNGRHLLEP VLEAMTTCGS LEWTRQRAEE EADKAISALQ 300
  301 ILPDTPWREA LIGLAHIAVQ RDR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	79.69897
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