YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|39998460, gi\|...
Organism:	Geobacter sulfurreducens PCA
Length:	256 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|39998460, gi|....

Description	E-value	Query Range	Subject Range
gi\|54309442, gi\|... - gi\|54309442\|ref\|YP_130462.1\| putative hydroxypyruvate isomerase [Photobacterium profundum SS9], gi\|4...	201.0	[0..4]	[256..8]
gi\|90413675, gi\|... - gi\|90413675\|ref\|ZP_01221664.1\| putative hydroxypyruvate isomerase [Photobacterium profundum 3TCK], g...	198.0	[0..4]	[256..3]
gi\|84386818, gi\|... - gi\|84386818\|ref\|ZP_00989843.1\| putative hydroxypyruvate isomerase [Vibrio splendidus 12B01], gi\|8437...	195.0	[0..4]	[255..3]
gi\|115258188, gi... - gi\|116253540\|ref\|YP_769378.1\| putative hydroxypyruvate isomerase [Rhizobium leguminosarum bv. viciae...	193.0	[0..4]	[254..3]
gi\|205324165, gi... - gi\|205324165\|gb\|EDZ12004.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar S... gi\|205330943, gi... - gi\|205330943\|gb\|EDZ17707.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar 4... lcl\|NC_016856.1_... - [gene=gip] [protein=hydroxypyruvate isomerase] [protein_id=YP_005236221.1] [location=579955..580731] gi\|62126761, gi\|... - gi\|62179128\|ref\|YP_215545.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar ... gi\|224582356, gi... - gi\|224582356\|ref\|YP_002636154.1\| glyoxylate-induced protein [Salmonella enterica subsp. enterica ser... gi\|199602432, gi... - gi\|200389987\|ref\|ZP_03216598.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|206707800, gi... - gi\|207855997\|ref\|YP_002242648.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica sero... gi\|197239937, gi... - gi\|197261682\|ref\|ZP_03161756.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|197939421, gi... - gi\|198244905\|ref\|YP_002214474.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica sero... gi\|205344018, gi... - gi\|205344018\|gb\|EDZ30782.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar W... gi\|194442406, gi... - gi\|194442406\|ref\|YP_002039763.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica sero... gi\|16419028, gi\|... - gi\|16763898\|ref\|NP_459513.1\| hydroxypyruvate isomerase [Salmonella typhimurium LT2], gi\|16419028\|gb\|... gi\|168261039, gi... - gi\|205349746\|gb\|EDZ36377.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar H... gi\|195631637, gi... - gi\|195631637\|gb\|EDX50157.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar N... gi\|238911352 - gi\|238911352\|ref\|ZP_04655189.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov...	190.0	[0..3]	[255..2]
gi\|213614459 - gi\|213614459\|ref\|ZP_03371285.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|213648339 - gi\|213648339\|ref\|ZP_03378392.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|213854913 - gi\|213854913\|ref\|ZP_03383153.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|213999567 - gi\|213999567\|ref\|ZP_03410302.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|213160826 - gi\|213160826\|ref\|ZP_03346536.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|213427934 - gi\|213427934\|ref\|ZP_03360684.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|213581139 - gi\|213581139\|ref\|ZP_03362965.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serov... gi\|16501787, gi\|... - gi\|25324376\|pir\|\|AI0566 hydroxypyruvate isomerase (EC 5.3.1.22) [imported] - Salmonella enterica sub... gi\|29138365, gi\|... - gi\|29142733\|ref\|NP_806075.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar ... gi\|16759495 - gi\|16759495\|ref\|NP_455112.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar ...	190.0	[0..3]	[255..2]
gi\|148546809, gi... - gi\|82739329\|ref\|ZP_00902135.1\| hydroxypyruvate isomerase [Pseudomonas putida F1], gi\|82713577\|gb\|EAP... tr\|I7CAN9\|I7CAN9... - Hydroxypyruvate isomerase OS=Pseudomonas putida (strain DOT-T1E) GN=hyi PE=3 SV=1	189.0	[0..4]	[253..3]
gi\|74311092, gi\|... - gi\|74311092\|ref\|YP_309511.1\| hydroxypyruvate isomerase [Shigella sonnei Ss046], gi\|73854569\|gb\|AAZ87...	188.0	[0..3]	[254..2]
gi\|197094725, gi... - gi\|197363248\|ref\|YP_002142885.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica sero... gi\|194451282, gi... - gi\|194451282\|ref\|YP_002044551.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica sero... gi\|168240353, gi... - gi\|205340230\|gb\|EDZ26994.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar H... gi\|56414328, gi\|... - gi\|56414328\|ref\|YP_151403.1\| hydroxypyruvate isomerase [Salmonella enterica subsp. enterica serovar ...	188.0	[0..3]	[255..2]
gi\|13360027, gi\|... - gi\|15829823\|ref\|NP_308596.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7], gi\|13360027\|dbj\|B... gi\|188017685, gi... - gi\|188017685\|gb\|EDU55807.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4113], gi\|168... gi\|25324368, gi\|... - pir\|\|D85550 glyoxylate-induced protein [imported] - Escherichia coli (strain O157:H7, substrain EDL... gi\|12513400, gi\|... - gi\|15800244\|ref\|NP_286256.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 EDL933], gi\|1251340... gi\|187769759, gi... - gi\|187769759\|gb\|EDU33603.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4196], gi\|168... gi\|168768471, gi... - gi\|189362372\|gb\|EDU80791.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4486], gi\|168... gi\|189369099, gi... - gi\|189369099\|gb\|EDU87515.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4501], gi\|168... gi\|168754622, gi... - gi\|189358083\|gb\|EDU76502.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4401], gi\|168... gi\|217320964, gi... - gi\|217324743\|ref\|ZP_03440827.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. TW14588], g... gi\|13360027, gi\|... - gi\|15829823\|ref\|NP_308596.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. Sakai], gi\|133... gi\|195936078 - gi\|195936078\|ref\|ZP_03081460.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4024] gi\|189379322, gi... - gi\|189379322\|gb\|EDU97738.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC508], gi\|1687... gi\|189373710, gi... - gi\|189373710\|gb\|EDU92126.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC869], gi\|1687... gi\|189002855, gi... - gi\|189002855\|gb\|EDU71841.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4076], gi\|168... gi\|209158447, gi... - gi\|209397047\|ref\|YP_002269163.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4115], g... gi\|254791698, gi... - gi\|254791698\|ref\|YP_003076535.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. TW14359], ... gi\|208822984, gi... - gi\|208822984\|ref\|ZP_03263302.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4042], gi... gi\|208732808, gi... - gi\|208816160\|ref\|ZP_03257339.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4045], gi... gi\|208806711, gi... - gi\|208806711\|ref\|ZP_03249048.1\| hydroxypyruvate isomerase [Escherichia coli O157:H7 str. EC4206], gi...	187.0	[0..3]	[255..2]

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Predicted Domain #1

Region A:
Residues: [1-256]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDRIHAHVP YPMLADNLTA VAARGINPEV HFSGEALDSL VPEKLIAVAD TLNATGLRST  60
   61 IHAPFVDLNP GSAERLIREA TRHRLNQVID AAAILRPDVI VFHPGYDRWR YGENQDIWLA 120
  121 HSIETWRRVL ERTEPIGCTV AVENIFEEEP STLRALLEEI DHPRFCHCFD VGHWNLFHTV 180
  181 GMEEWFDAMG RFVAEAHIHD NFGTRDDHLP LGEGAIDFDL FFSLMARHAP QAVWTIEAHC 240
  241 PAALDRALVA IERYRK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.30103
Match:	1k77A
Description:	Hypothetical protein YgbM (EC1530)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.66019571685402	bayes_pls_golite062009
deoxyribonuclease activity	0.97458966528485	bayes_pls_golite062009
DNA-(apurinic or apyrimidinic site) lyase activity	0.36517654808269	bayes_pls_golite062009
endodeoxyribonuclease activity	0.19550406288989	bayes_pls_golite062009

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

Predicted functions: