YRC Public Data Repository - Protein Structure Prediction

Protein:	SPS1_ARATH
Organism:	Arabidopsis thaliana
Length:	406 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 SPS1_ARATH.

Description	E-value	Query Range	Subject Range
gi\|110739325 - gi\|110739325\|dbj\|BAF01575.1\| polyprenyl diphosphate synthase [Arabidopsis thaliana]	382.0	[0..1]	[406..1]
gi\|90200410 - gi\|90200410\|gb\|ABD92707.1\| solanesyl diphosphate synthase [Hevea brasiliensis]	340.0	[0..1]	[406..2]
gi\|114324644 - gi\|114324644\|gb\|ABI63627.1\| solanesyl diphosphate synthase [Lycopersicon esculentum]	340.0	[0..1]	[405..2]
gi\|119775962, gi... - gi\|68545618\|ref\|ZP_00585168.1\| Trans-hexaprenyltranstransferase [Shewanella amazonensis SB2B], gi\|68...	326.0	[0..72]	[406..1]
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....	323.0	[0..82]	[404..59]
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..74]	[404..1]
SPS2_ORYSJ - Solanesyl-diphosphate synthase 2, chloroplastic OS=Oryza sativa subsp. japonica GN=SPS2 PE=1 SV=2	321.0	[0..1]	[406..2]
gi\|75197136, gi\|... - gi\|75197136\|ref\|ZP_00707206.1\| COG0142: Geranylgeranyl pyrophosphate synthase [Escherichia coli HS],...	320.0	[0..82]	[404..1]

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Predicted Domain #1

Region A:
Residues: [1-81]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MMTSCRNIDL GTMMMACGCG RRQFPSLAKT VCKFTSSNRS YGGLVGSCKA VPTKSKEISL  60
   61 LNGIGQSQTV SFDLKQESKQ P

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.883	a.48.3	Conserved domain common to transcription factors TFIIS, elongin A, CRSP70

Predicted Domain #2

Region A:
Residues: [82-406]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ISLVTLFELV AVDLQTLNDN LLSIVGAENP VLISAAEQIF GAGGKRMRPG LVFLVSHATA  60
   61 ELAGLKELTT EHRRLAEIIE MIHTASLIHD DVLDESDMRR GKETVHELFG TRVAVLAGDF 120
  121 MFAQASWYLA NLENLEVIKL ISQVIKDFAS GEIKQASSLF DCDTKLDEYL LKSFYKTASL 180
  181 VAASTKGAAI FSRVEPDVTE QMYEFGKNLG LSFQIVDDIL DFTQSTEQLG KPAGSDLAKG 240
  241 NLTAPVIFAL EREPRLREII ESEFCEAGSL EEAIEAVTKG GGIKRAQELA REKADDAIKN 300
  301 LQCLPRSGFR SALEDMVLYN LERID

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	81.69897
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