YRC Public Data Repository - Protein Structure Prediction

Protein:	YDCS_ECOLI
Organism:	Escherichia coli
Length:	381 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 YDCS_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|114705308, gi... - gi\|114705308\|ref\|ZP_01438216.1\| putrescine-binding periplasmic protein [Fulvimarina pelagi HTCC2506]...	265.0	[0..1]	[381..1]
gi\|254694281 - gi\|254694281\|ref\|ZP_05156109.1\| hypothetical protein Babob3T_06384 [Brucella abortus bv. 3 str. Tuly... gi\|225641449, gi... - gi\|225853084\|ref\|YP_002733317.1\| hypothetical protein BMEA_A1665 [Brucella melitensis ATCC 23457], g... gi\|148370872, gi... - gi\|148559615\|ref\|YP_001259475.1\| putative spermidine/putrescine ABC transporter, periplasmic spermid... gi\|254710643 - gi\|254710643\|ref\|ZP_05172454.1\| hypothetical protein BpinB_10306 [Brucella pinnipedialis B2/94] gi\|254708270 - gi\|254708270\|ref\|ZP_05170098.1\| hypothetical protein BpinM_15261 [Brucella pinnipedialis M163/99/10] gi\|254702329 - gi\|254702329\|ref\|ZP_05164157.1\| hypothetical protein Bsuib55_15918 [Brucella suis bv. 5 str. 513] gi\|17986694, gi\|... - gi\|17986694\|ref\|NP_539328.1\| putrescine-binding periplasmic protein [Brucella melitensis 16M], gi\|17... gi\|163674583, gi... - gi\|163843860\|ref\|YP_001628264.1\| hypothetical protein BSUIS_A1668 [Brucella suis ATCC 23445], gi\|163... gi\|25358052 - pir\|\|AE3303 putrescine-binding periplasmic protein BMEI0411 [imported] - Brucella melitensis (strain...	258.0	[0..11]	[381..6]
gi\|254697934 - gi\|254697934\|ref\|ZP_05159762.1\| solute-binding family 1 protein [Brucella abortus bv. 2 str. 86/8/59... gi\|254730825 - gi\|254730825\|ref\|ZP_05189403.1\| solute-binding family 1 protein [Brucella abortus bv. 4 str. 292] gi\|82700414 - gi\|82700414\|ref\|YP_414988.1\| solute-binding family 1 protein [Brucella melitensis biovar Abortus 230... gi\|82616515 - gi\|82616515\|emb\|CAJ11584.1\| Bacterial periplasmic spermidine/putrescine-binding protein:Bacterial ex... gi\|62290491, gi\|... - gi\|62290491\|ref\|YP_222284.1\| spermidine/putrescine ABC transporter periplasmic spermidine/putrescine...	258.0	[0..11]	[381..6]
gi\|161619552, gi... - gi\|161619552\|ref\|YP_001593439.1\| hypothetical protein BCAN_A1649 [Brucella canis ATCC 23365], gi\|161... gi\|254704858 - gi\|254704858\|ref\|ZP_05166686.1\| hypothetical protein Bsuib36_13253 [Brucella suis bv. 3 str. 686] gi\|23348468, gi\|... - gi\|23502475\|ref\|NP_698602.1\| spermidine/putrescine ABC transporter, periplasmic spermidine/putrescin...	256.0	[0..11]	[381..6]
gi\|21108736, gi\|... - gi\|21243209\|ref\|NP_642791.1\| periplasmic putrescine-binding protein [Xanthomonas axonopodis pv. citr...	252.0	[0..4]	[380..1]
gi\|77385628, gi\|... - gi\|77461625\|ref\|YP_351132.1\| extracellular solute-binding protein [Pseudomonas fluorescens Pf0-1], g...	252.0	[0..17]	[381..20]
gi\|21231781, gi\|... - gi\|21231781\|ref\|NP_637698.1\| periplasmic putrescine-binding protein; permease protein [Xanthomonas c... gi\|66573425, gi\|... - gi\|66768093\|ref\|YP_242855.1\| periplasmic putrescine-binding protein; permease protein [Xanthomonas c...	250.0	[0..4]	[381..1]
gi\|218769263, gi... - gi\|218889040\|ref\|YP_002437904.1\| polyamine transport protein [Pseudomonas aeruginosa LESB58], gi\|218... gi\|254237467, gi... - gi\|84318520\|ref\|ZP_00966943.1\| COG0687: Spermidine/putrescine-binding periplasmic protein [Pseudomon... gi\|84324380, gi\|... - gi\|84324380\|ref\|ZP_00972438.1\| COG0687: Spermidine/putrescine-binding periplasmic protein [Pseudomon... gi\|107099281 - gi\|107099281\|ref\|ZP_01363199.1\| hypothetical protein PaerPA_01000293 [Pseudomonas aeruginosa PACS2] gi\|11350806 - pir\|\|E83607 polyamine transport protein PA0300 [imported] - Pseudomonas aeruginosa (strain PAO1) SPUD_PSEAB - Putrescine-binding periplasmic protein SpuD OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=spuD PE... SPUD_PSEAE - Putrescine-binding periplasmic protein SpuD OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C...	250.0	[0..1]	[381..1]
gi\|94414865, gi\|... - gi\|94414865\|ref\|ZP_01294719.1\| hypothetical protein PaerP_01003445 [Pseudomonas aeruginosa PA7], gi\|...	250.0	[0..1]	[381..1]
gi\|70730024, gi\|... - gi\|70730024\|ref\|YP_259763.1\| putrescine ABC transporter, periplasmic putrescine-binding protein [Pse...	248.0	[0..1]	[381..1]

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Predicted Domain #1

Region A:
Residues: [1-381]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSKTFARSSL CALSMTIMTA HAAEPPTNLD KPEGRLDIIA WPGYIERGQT DKQYDWVTQF  60
   61 EKETGCAVNV KTAATSDEMV SLMTKGGYDL VTASGDASLR LIMGKRVQPI NTALIPNWKT 120
  121 LDPRVVKGDW FNVGGKVYGT PYQWGPNLLM YNTKTFPTPP DSWQVVFVEQ NLPDGKSNKG 180
  181 RVQAYDGPIY IADAALFVKA TQPQLGISDP YQLTEEQYQA VLKVLRAQHS LIHRYWHDTT 240
  241 VQMSDFKNEG VVASSAWPYQ ANALKAEGQP VATVFPKEGV TGWADTTMLH SEAKHPVCAY 300
  301 KWMNWSLTPK VQGDVAAWFG SLPVVPEGCK ASPLLGEKGC ETNGFNYFDK IAFWKTPIAE 360
  361 GGKFVPYSRW TQDYIAIMGG R

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	60.30103
Match:	1a99A
Description:	Putrescine receptor (PotF)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
polyamine transmembrane transporter activity	3.75333123335738	bayes_pls_golite062009
polyamine-transporting ATPase activity	3.31917192223691	bayes_pls_golite062009
amine transmembrane transporter activity	2.8505643526173	bayes_pls_golite062009
transporter activity	2.37767937786605	bayes_pls_golite062009
transmembrane transporter activity	2.14027396604232	bayes_pls_golite062009
active transmembrane transporter activity	1.98824826924235	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	1.92247368464925	bayes_pls_golite062009
primary active transmembrane transporter activity	1.91778402126342	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	1.91458600392598	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	1.91458600392598	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	1.91424996753266	bayes_pls_golite062009
amino acid transmembrane transporter activity	1.88446253507704	bayes_pls_golite062009
carboxylic acid transmembrane transporter activity	1.68289701302071	bayes_pls_golite062009
organic acid transmembrane transporter activity	1.65555448677681	bayes_pls_golite062009
ATPase activity, coupled	1.59154512845516	bayes_pls_golite062009
substrate-specific transporter activity	1.51716707550629	bayes_pls_golite062009
ATPase activity	1.44327228942016	bayes_pls_golite062009
nucleoside-triphosphatase activity	1.36989838880058	bayes_pls_golite062009
pyrophosphatase activity	1.33033652028872	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	1.31993399326424	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.31926578892427	bayes_pls_golite062009
amine-transporting ATPase activity	1.26059419028501	bayes_pls_golite062009
amino acid-transporting ATPase activity	1.25084210844339	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	0.88733921737959	bayes_pls_golite062009
binding	0.841985743602294	bayes_pls_golite062009
putrescine transmembrane transporter activity	0.532006404866991	bayes_pls_golite062009
hydrolase activity	0.52200036125335	bayes_pls_golite062009
amine binding	0.48583609326514	bayes_pls_golite062009
polyamine binding	0.29196808081737	bayes_pls_golite062009
catalytic activity	0.278324746769832	bayes_pls_golite062009
amino acid binding	0.0252217029836901	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: