YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24375152, gi\|...
Organism:	Shewanella oneidensis MR-1
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

[What does the above image mean?]

[Show Ginzu Version Information]

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|24375152, 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....	327.0	[0..1]	[322..59]
gi\|119775962, gi... - gi\|68545618\|ref\|ZP_00585168.1\| Trans-hexaprenyltranstransferase [Shewanella amazonensis SB2B], gi\|68...	323.0	[0..1]	[323..11]
gi\|160874188, gi... - gi\|160874188\|ref\|YP_001553504.1\| polyprenyl synthetase [Shewanella baltica OS195], gi\|160859710\|gb\|A... gi\|152999569, gi... - gi\|152999569\|ref\|YP_001365250.1\| polyprenyl synthetase [Shewanella baltica OS185], gi\|151364187\|gb\|A... gi\|125996415, gi... - gi\|68541757\|ref\|ZP_00581497.1\| Trans-hexaprenyltranstransferase [Shewanella baltica OS155], gi\|68520...	322.0	[0..1]	[323..9]
gi\|187730997, gi... - gi\|75176121\|ref\|ZP_00696289.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Shigella boydii BS512...	321.0	[0..1]	[323..1]
gi\|70732635, gi\|... - gi\|70732635\|ref\|YP_262398.1\| octylprenyl diphosphate synthase [Pseudomonas fluorescens Pf-5], gi\|683...	321.0	[0..1]	[323..1]
gi\|75197136, gi\|... - gi\|75197136\|ref\|ZP_00707206.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli HS],...	320.0	[0..1]	[322..1]
gi\|82778501, gi\|... - gi\|82778501\|ref\|YP_404850.1\| octaprenyl diphosphate synthase [Shigella dysenteriae Sd197], gi\|812426...	319.0	[0..1]	[322..1]
gi\|26110199, gi\|... - gi\|26249771\|ref\|NP_755811.1\| octaprenyl diphosphate synthase [Escherichia coli CFT073], gi\|26110199\|...	319.0	[0..1]	[322..1]
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	319.0	[0..1]	[322..1]
gi\|75209630 - gi\|75209630\|ref\|ZP_00709842.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli B171...	319.0	[0..1]	[322..5]

Back

Predicted Domain #1

Region A:
Residues: [1-323]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDLNAIRQLA DTDMQAVNQL IYKQLESDVA LINQLGFYII NGGGKRLRPL LSVLAARAVD  60
   61 YQGEAHLKLA AIIEFIHTAS LLHDDVVDES TLRRGRETAN ALFGNSASVL VGDFLYTRSF 120
  121 QMMTELDSMR VLRVLADTTN VLAEGEVLQL MNCNDPDTTE ESYMRVIYCK TAKLFEAATL 180
  181 LAAVLAGASP EQETALGDYG KYLGTAFQLT DDLLDYTADS DELGKNIGDD LAEGKPTLPL 240
  241 IYAIAHGTEE EKQLIRQAIE QGDGTHAIEK IVAALHHCGA LNYTQQKAIE ESNKAIAALS 300
  301 VLPDSDFKTA LISLAKISVD RNH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	82.045757
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