YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213649988
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. J185
Length:	438 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|213649988.

Description	E-value	Query Range	Subject Range
UGPB_SALPA - sn-glycerol-3-phosphate-binding periplasmic protein ugpB OS=Salmonella paratyphi A GN=ugpB PE=3 SV=1 gi\|197364387, gi... - gi\|197364387\|ref\|YP_002144024.1\| glycerol-3-phosphate transporter periplasmic binding protein [Salmo... UGPB_SALPA - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Salmonella paratyphi A (strain ATCC 9150...	2.0E-79	[1..438]	[1..438]
UGPB_SALCH - sn-glycerol-3-phosphate-binding periplasmic protein ugpB OS=Salmonella choleraesuis GN=ugpB PE=3 SV=... UGPB_SALCH - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Salmonella choleraesuis (strain SC-B67) ... UGPB_SALCH - sn-glycerol-3-phosphate-binding periplasmic protein ugpB OS=Salmonella choleraesuis GN=ugpB PE=3 SV=...	5.0E-79	[1..438]	[1..438]
UGPB_PECAS - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Pectobacterium atrosepticum (strain SCRI... UGPB_ERWCT - sn-glycerol-3-phosphate-binding periplasmic protein ugpB OS=Erwinia carotovora subsp. atroseptica GN...	2.0E-76	[5..437]	[12..444]
UGPB_SHIDS - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Shigella dysenteriae serotype 1 (strain ...	3.0E-75	[19..438]	[19..438]
UGPB_SHIF8 - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Shigella flexneri serotype 5b (strain 84...	1.0E-74	[19..438]	[19..438]
gi\|168747058, gi... - gi\|188018430\|gb\|EDU56552.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|189369641, gi... - gi\|189369641\|gb\|EDU88057.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... EG11047 - sn-glycerol-3-phosphate ABC transporter periplasmic binding protein / sn-Glycerol-3-phosphate ABC tr... gi\|189359057, gi... - gi\|189359057\|gb\|EDU77476.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|187771803, gi... - gi\|187771803\|gb\|EDU35647.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|168765811, gi... - gi\|189364407\|gb\|EDU82826.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|189374238, gi... - gi\|189374238\|gb\|EDU92654.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|238861364, gi... - gi\|238902544\|ref\|YP_002928340.1\| glycerol-3-phosphate transporter subunit [Escherichia coli BW2952],... gi\|168779547, gi... - gi\|189002493\|gb\|EDU71479.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|251786701, gi... - gi\|251786701\|ref\|YP_003001005.1\| hypothetical protein B21_03255 [Escherichia coli BL21], gi\|24237897... gi\|254290127, gi... - gi\|254290127\|ref\|YP_003055875.1\| glycerol-3-phosphate transporter subunit [Escherichia coli BL21(DE3... gi\|226839126, gi... - gi\|254038620\|ref\|ZP_04872676.1\| glycerol-3-phosphate-binding periplasmic protein [Escherichia sp. 1_... gi\|254163377, gi... - gi\|254163377\|ref\|YP_003046485.1\| glycerol-3-phosphate transporter subunit [Escherichia coli B str. R... gi\|254594769, gi... - gi\|254795369\|ref\|YP_003080206.1\| glycerol-3-phosphate transporter subunit, periplasmic-binding compo... UGPB_ECO57 - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Escherichia coli O157:H7 GN=ugpB PE=3 SV... EG11047 - sn-glycerol-3-phosphate ABC transporter periplasmic binding protein / sn-Glycerol-3-phosphate ABC tr... gi\|218358255, gi... - gi\|218550714\|ref\|YP_002384505.1\| glycerol-3-phosphate transporter periplasmic binding protein [Esche... gi\|217326429, gi... - gi\|217326429\|ref\|ZP_03442513.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escheric... gi\|218362770, gi... - gi\|218556002\|ref\|YP_002388915.1\| glycerol-3-phosphate transporter periplasmic binding protein [Esche... gi\|170018315, gi... - gi\|170018315\|ref\|YP_001723269.1\| glycerol-3-phosphate transporter periplasmic binding protein [Esche... gi\|168797234, gi... - gi\|189380088\|gb\|EDU98504.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escherichia ... gi\|195934944 - gi\|195934944\|ref\|ZP_03080326.1\| glycerol-3-phosphate transporter periplasmic binding protein [Escher... gi\|170082967, gi... - gi\|170082967\|ref\|YP_001732287.1\| glycerol-3-phosphate ABC transporter periplasmis substrate-binding ... gi\|208814065, gi... - gi\|208814065\|ref\|ZP_03255394.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escheric... gi\|13363773, gi\|... - gi\|15833553\|ref\|NP_312326.1\| glycerol-3-phosphate transporter periplasmic binding protein [Escherich... gi\|208728424, gi... - gi\|208808623\|ref\|ZP_03250960.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escheric... gi\|209400161, gi... - gi\|209400161\|ref\|YP_002272891.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escheri... gi\|208818416, gi... - gi\|208818416\|ref\|ZP_03258736.1\| glycerol-3-phosphate-binding periplasmic protein precursor [Escheric... gi\|124500469, gi... - gi\|124528628\|ref\|ZP_01699906.1\| extracellular solute-binding protein, family 1 [Escherichia coli B],... gi\|15803962, gi\|... - gi\|15803962\|ref\|NP_289998.1\| glycerol-3-phosphate transporter periplasmic binding protein [Escherich... UGPB_ECOLI - Glycerol-3-phosphate-binding periplasmic protein precursor - Escherichia coli gi\|194435660, gi... - gi\|83588685\|ref\|ZP_00927309.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch... gi\|75197379, gi\|... - gi\|75197379\|ref\|ZP_00707449.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch... gi\|188494892, gi... - gi\|75516082\|ref\|ZP_00738200.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch... gi\|89110559, gi\|... - gi\|89110559\|ref\|AP_004339.1\| glycerol-3-phosphate transporter subunit [Escherichia coli str. K-12 su...	1.0E-74	[19..438]	[19..438]
gi\|209914169, gi... - gi\|209920910\|ref\|YP_002294994.1\| glycerol-3-phosphate transporter periplasmic binding protein [Esche... gi\|218697136, gi... - gi\|218697136\|ref\|YP_002404803.1\| glycerol-3-phosphate transporter periplasmic binding protein [Esche... gi\|192932529, gi... - gi\|75260260\|ref\|ZP_00731528.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch... gi\|75237051, gi\|... - gi\|75237051\|ref\|ZP_00721107.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch... gi\|194415010, gi... - gi\|75211818\|ref\|ZP_00711882.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch...	2.0E-74	[19..438]	[19..438]
gi\|157079082, gi... - gi\|75188223\|ref\|ZP_00701490.1\| COG1653: ABC-type sugar transport system, periplasmic component [Esch...	2.0E-74	[19..438]	[19..438]
gi\|187427994, gi... - gi\|75179898\|ref\|ZP_00699885.1\| COG1653: ABC-type sugar transport system, periplasmic component [Shig...	2.0E-74	[19..438]	[19..438]
UGPB_SHIFL - sn-glycerol-3-phosphate-binding periplasmic protein UgpB OS=Shigella flexneri GN=ugpB PE=3 SV=1 gi\|24114713, gi\|... - gi\|24114713\|ref\|NP_709223.1\| glycerol-3-phosphate transporter periplasmic binding protein [Shigella ... gi\|30043532, gi\|... - gi\|30065270\|ref\|NP_839441.1\| glycerol-3-phosphate transporter periplasmic binding protein [Shigella ...	2.0E-74	[19..438]	[19..438]

Back

Predicted Domain #1

Region A:
Residues: [1-438]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MISLRHTALG LALSLAFTGQ ALAVTTIPFW HSMEGELGKE VDSLAQRFNQ ANPDYKIVPV  60
   61 YKGNYEQNLS AGIAAFRTGN APAILQVYEV GTATMMASKA IKPVYEVFKD AGINFDESQF 120
  121 VPTVAGYYTD AKSGHLLSQP FNSSTPVLYY NKDAFKKAGL DPEQPPKTWQ ELADYTAKLR 180
  181 AAGMKCGYAS GWQGWIQLEN FSAWNGLPFA SKNNGFDGTD AVLEFNKPEQ VKHIALLEEM 240
  241 NKKGDFSYVG RKDESTEKFY NGDCAMTTAS SGSLANIRQY AKFNYGVGMM PYDADIKGAP 300
  301 QNAIIGGASL WVMQGKDKET YTGVAKFLDF LAKPENAAEW HQKTGYLPIT TAAYELTREQ 360
  361 GYYDKNPGAD IATRQMLNKP PLPFTKGLRL GNMPQIRTIV DEELESVWTG KKTPQQALDT 420
  421 AVDRGNQLLR RFEKASKS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	58.522879
Match:	1eu8A
Description:	D-maltodextrin-binding protein, MBP
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ATPase activity, coupled to transmembrane movement of substances	5.10369591387353	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	5.10318083615538	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	5.10318083615538	bayes_pls_golite062009
active transmembrane transporter activity	5.08926597039825	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	5.08835444171664	bayes_pls_golite062009
primary active transmembrane transporter activity	5.0778580713249	bayes_pls_golite062009
ATPase activity, coupled	4.39934929410381	bayes_pls_golite062009
transporter activity	4.36277471796561	bayes_pls_golite062009
transmembrane transporter activity	4.05122336499684	bayes_pls_golite062009
ATPase activity	4.04125376161476	bayes_pls_golite062009
substrate-specific transporter activity	3.47889550245964	bayes_pls_golite062009
anion transmembrane-transporting ATPase activity	3.25040168593981	bayes_pls_golite062009
inorganic anion transmembrane transporter activity	3.16446457499691	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	2.87472545473244	bayes_pls_golite062009
anion transmembrane transporter activity	2.77148301796671	bayes_pls_golite062009
peptide transporter activity	2.75577307623285	bayes_pls_golite062009
molybdate transmembrane-transporting ATPase activity	2.58578176144479	bayes_pls_golite062009
molybdate ion transmembrane transporter activity	2.58578176144479	bayes_pls_golite062009
hydrolase activity	2.41680852416007	bayes_pls_golite062009
oligopeptide transporter activity	1.91036692266394	bayes_pls_golite062009
ion transmembrane transporter activity	1.70693655091183	bayes_pls_golite062009
nucleoside-triphosphatase activity	1.70643051049474	bayes_pls_golite062009
pyrophosphatase activity	1.65646853917778	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	1.63520066802961	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.6341518946909	bayes_pls_golite062009
binding	1.54172013140566	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	0.99134553005852	bayes_pls_golite062009
glycerol transmembrane transporter activity	0.867327133429615	bayes_pls_golite062009
glycerol-3-phosphate transmembrane transporter activity	0.752837934477466	bayes_pls_golite062009
amine transmembrane transporter activity	0.75087224820423	bayes_pls_golite062009
polyamine transmembrane transporter activity	0.74959887541426	bayes_pls_golite062009
alcohol transmembrane transporter activity	0.44969408183181	bayes_pls_golite062009
polyol transmembrane transporter activity	0.44969408183181	bayes_pls_golite062009
organic acid transmembrane transporter activity	0.27904792438438	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	0.23979057207055	bayes_pls_golite062009
amine binding	0.23472639987051	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	0.230402103022499	bayes_pls_golite062009
cation transmembrane transporter activity	0.119916745111395	bayes_pls_golite062009
sulfate transmembrane-transporting ATPase activity	0.0940079640524907	bayes_pls_golite062009
polyamine-transporting ATPase activity	0.0497853931936705	bayes_pls_golite062009
transition metal ion transmembrane transporter activity	0.00844917716785965	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: