YRC Public Data Repository - Protein Structure Prediction

Protein:	SPS3_ARATH
Organism:	Arabidopsis thaliana
Length:	422 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 SPS3_ARATH.

Description	E-value	Query Range	Subject Range
gi\|11322965 - gi\|11322965\|emb\|CAC16849.1\| geranyl diphosphate synthase [Arabidopsis thaliana]	346.0	[0..1]	[422..1]
gi\|12055493 - gi\|12055493\|emb\|CAC20852.1\| geranyl diphosphat synthase [Quercus robur]	340.0	[0..1]	[422..1]
gi\|82659078 - gi\|82659078\|gb\|ABB88703.1\| geranyl pyrophosphate synthase [Solanum lycopersicum]	336.0	[0..1]	[422..1]
gi\|27261729 - gi\|27261729\|gb\|AAN86061.1\| geranylgeranyl diphosphate synthase [Citrus unshiu]	318.0	[0..1]	[422..1]
gi\|19887236, gi\|... - gi\|20094211\|ref\|NP_614058.1\| geranylgeranyl pyrophosphate synthase [Methanopyrus kandleri AV19], gi\|...	315.0	[0..82]	[421..3]
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....	312.0	[0..45]	[422..36]
SPS1_ORYSJ - Solanesyl-diphosphate synthase 1, mitochondrial OS=Oryza sativa subsp. japonica GN=SPS1 PE=1 SV=1 gi\|125556476 - gi\|125556476\|gb\|EAZ02082.1\| hypothetical protein OsI_24162 [Oryza sativa Indica Group]	307.0	[0..12]	[422..24]
gi\|75197136, gi\|... - gi\|75197136\|ref\|ZP_00707206.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli HS],...	305.0	[0..81]	[422..3]
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	305.0	[0..81]	[422..3]

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Predicted Domain #1

Region A:
Residues: [1-422]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLFTRSVARI SSKFLRNRSF YGSSQSLASH RFAIIPDQGH SCSDSPHKGY VCRTTYSLKS  60
   61 PVFGGFSHQL YHQSSSLVEE ELDPFSLVAD ELSLLSNKLR EMVLAEVPKL ASAAEYFFKR 120
  121 GVQGKQFRST ILLLMATALN VRVPEALIGE STDIVTSELR VRQRGIAEIT EMIHVASLLH 180
  181 DDVLDDADTR RGVGSLNVVM GNKMSVLAGD FLLSRACGAL AALKNTEVVA LLATAVEHLV 240
  241 TGETMEITSS TEQRYSMDYY MQKTYYKTAS LISNSCKAVA VLTGQTAEVA VLAFEYGRNL 300
  301 GLAFQLIDDI LDFTGTSASL GKGSLSDIRH GVITAPILFA MEEFPQLREV VDQVEKDPRN 360
  361 VDIALEYLGK SKGIQRAREL AMEHANLAAA AIGSLPETDN EDVKRSRRAL IDLTHRVITR 420
  421 NK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	78.39794
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	v0.2	NCBI nr	03/2009
PSI-BLAST	2.2.22	FFAS	ffas03
PDB	10/2008	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits