YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29139796, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. Ty2
Length:	535 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|29139796, gi|....

Description	E-value	Query Range	Subject Range
gi\|218372296, gi... - gi\|218702310\|ref\|YP_002409939.1\| dipeptide transporter ; periplasmic-binding component of ABC superf... gi\|117625828, gi... - gi\|117625828\|ref\|YP_859151.1\| dipeptide transporter protein DppA [Escherichia coli APEC O1], gi\|1155... gi\|218367391, gi... - gi\|218560622\|ref\|YP_002393535.1\| dipeptide transporter ; periplasmic-binding component of ABC superf... gi\|218429393, gi... - gi\|218691829\|ref\|YP_002400041.1\| dipeptide transporter ; periplasmic-binding component of ABC superf... gi\|170679624, gi... - gi\|170679624\|ref\|YP_001745830.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [E... gi\|191170334, gi... - gi\|191170334\|ref\|ZP_03031887.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|237703312, gi... - gi\|237703312\|ref\|ZP_04533793.1\| periplasmic dipeptide transporter [Escherichia sp. 3_2_53FAA], gi\|22... gi\|26250183, gi\|... - gi\|26250183\|ref\|NP_756223.1\| periplasmic dipeptide transport protein precursor [Escherichia coli CFT... gi\|110643793, gi... - gi\|110643793\|ref\|YP_671523.1\| periplasmic dipeptide transport protein precursor [Escherichia coli 53... gi\|91213056, gi\|... - gi\|91213056\|ref\|YP_543042.1\| periplasmic dipeptide transport protein precursor [Escherichia coli UTI... gi\|227839288, gi... - gi\|227883708\|ref\|ZP_04001513.1\| dipeptide/oligopeptide/nickel (Ni2+) ABC superfamily ATP binding cas...	0.0	[1..535]	[1..535]
gi\|218556099, gi... - gi\|218556099\|ref\|YP_002389012.1\| dipeptide transporter ; periplasmic-binding component of ABC superf... DPPA_ECOLI - Periplasmic dipeptide transport protein precursor (Dipeptide-binding protein) (DBP) - Escherichia co... gi\|209914267, gi... - gi\|209921008\|ref\|YP_002295092.1\| dipeptide ABC transporter substrate binding component [Escherichia ... gi\|194435630, gi... - gi\|194435630\|ref\|ZP_03067733.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|194428690, gi... - gi\|194428690\|ref\|ZP_03061227.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|218697257, gi... - gi\|218697257\|ref\|YP_002404924.1\| dipeptide transporter ; periplasmic-binding component of ABC superf... gi\|169753154, gi... - gi\|170018226\|ref\|YP_001723180.1\| 4-phytase [Escherichia coli ATCC 8739], gi\|169753154\|gb\|ACA75853.1\|... EG10248 - dipeptide /heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor / Dipeptid... gi\|192932707, gi... - gi\|193061917\|ref\|ZP_03043014.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|238902633, gi... - gi\|238902633\|ref\|YP_002928429.1\| dipeptide transporter [Escherichia coli BW2952], gi\|238860779\|gb\|AC... gi\|157163019, gi... - gi\|157163019\|ref\|YP_001460337.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [E... gi\|191165311, gi... - gi\|191165311\|ref\|ZP_03027154.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|157159059, gi... - gi\|157159059\|ref\|YP_001465018.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [E... gi\|188494631, gi... - gi\|188494631\|ref\|ZP_03001901.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|254290218, gi... - gi\|254290218\|ref\|YP_003055966.1\| dipeptide transporter [Escherichia coli BL21(DE3)], gi\|253979525\|gb... gi\|170083053, gi... - gi\|170083053\|ref\|YP_001732373.1\| peptide ABC transporter periplasmic substrate-binding protein [Esch... gi\|251786789, gi... - gi\|251786789\|ref\|YP_003001093.1\| hypothetical protein B21_03346 [Escherichia coli BL21], gi\|24237906... gi\|253975369, gi... - gi\|254163468\|ref\|YP_003046576.1\| dipeptide transporter [Escherichia coli B str. REL606], gi\|25397536... gi\|226839232, gi... - gi\|254038726\|ref\|ZP_04872782.1\| dipeptide ABC transporter [Escherichia sp. 1_1_43], gi\|226839232\|gb\|... gi\|89110469, gi\|... - gi\|89110469\|ref\|AP_004249.1\| dipeptide transporter [Escherichia coli str. K-12 substr. W3110], gi\|85... EG10248 - dipeptide /heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor / Dipeptid... gi\|124499882, gi... - gi\|124529424\|ref\|ZP_01700428.1\| extracellular solute-binding protein, family 5 [Escherichia coli B],...	0.0	[1..535]	[1..535]
gi\|82779575, gi\|... - gi\|82779575\|ref\|YP_405924.1\| dipeptide transport protein [Shigella dysenteriae Sd197], gi\|81243723\|g... gi\|168765953, gi... - gi\|189364705\|gb\|EDU83124.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|189369929, gi... - gi\|189369929\|gb\|EDU88345.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|168753358, gi... - gi\|189359183\|gb\|EDU77602.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|188018308, gi... - gi\|188018308\|gb\|EDU56430.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|30065176, gi\|... - gi\|30065176\|ref\|NP_839347.1\| dipeptide transport protein [Shigella flexneri 2a str. 2457T], gi\|30043... gi\|13363898, gi\|... - gi\|15833678\|ref\|NP_312451.1\| dipeptide transport protein [Escherichia coli O157:H7], gi\|13363898\|dbj... gi\|209755314, gi... - pir\|\|H91181 dipeptide transport protein ECs4424 [imported] - Escherichia coli (strain O157:H7, subst... gi\|24114813, gi\|... - gi\|24114813\|ref\|NP_709323.1\| dipeptide transport protein [Shigella flexneri 2a str. 301], gi\|2405404... gi\|13363898, gi\|... - gi\|15833678\|ref\|NP_312451.1\| dipeptide transport protein [Escherichia coli O157:H7 str. Sakai], gi\|1... gi\|110807363, gi... - gi\|110807363\|ref\|YP_690883.1\| dipeptide transport protein [Shigella flexneri 5 str. 8401], gi\|110616... gi\|217320543, gi... - gi\|217324322\|ref\|ZP_03440406.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|209396782, gi... - gi\|209396782\|ref\|YP_002273027.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [E... gi\|254795498, gi... - gi\|254795498\|ref\|YP_003080335.1\| dipeptide transporter, periplasmic-binding component of ABC superfa... gi\|189380041, gi... - gi\|189380041\|gb\|EDU98457.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|189374498, gi... - gi\|189374498\|gb\|EDU92914.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|189002410, gi... - gi\|189002410\|gb\|EDU71396.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|168772500, gi... - gi\|187771446\|gb\|EDU35290.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Escher... gi\|208741610, gi... - gi\|208821487\|ref\|ZP_03261807.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|208812644, gi... - gi\|208812644\|ref\|ZP_03253973.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|208805733, gi... - gi\|208805733\|ref\|ZP_03248070.1\| dipeptide ABC transporter, periplasmic dipeptide-binding protein [Es... gi\|195935072 - gi\|195935072\|ref\|ZP_03080454.1\| dipeptide transport protein [Escherichia coli O157:H7 str. EC4024]	0.0	[1..535]	[1..535]
gi\|25296387 - pir\|\|D86028 dipeptide transport protein [imported] - Escherichia coli (strain O157:H7, substrain ED... gi\|12518268, gi\|... - gi\|15804087\|ref\|NP_290125.1\| dipeptide transport protein [Escherichia coli O157:H7 EDL933], gi\|12518...	0.0	[1..535]	[1..535]
gi\|73857680, gi\|... - gi\|74314203\|ref\|YP_312622.1\| dipeptide transport protein [Shigella sonnei Ss046], gi\|73857680\|gb\|AAZ...	0.0	[1..535]	[1..535]
gi\|16766917, gi\|... - gi\|16766917\|ref\|NP_462532.1\| dipeptide transport protein [Salmonella typhimurium LT2], gi\|16422195\|g... lcl\|NC_016856.1_... - [gene=dppA] [protein=dipeptide transport protein] [protein_id=YP_005239858.1] [location=complement(3...	0.0	[1..535]	[1..535]
gi\|56415532, gi\|... - gi\|56415532\|ref\|YP_152607.1\| periplasmic dipeptide transport protein precursor [Salmonella enterica ...	0.0	[1..535]	[1..535]
gi\|62182131, gi\|... - gi\|62182131\|ref\|YP_218548.1\| peptide ABC transporter permease [Salmonella enterica subsp. enterica s...	0.0	[1..535]	[1..535]
gi\|75242664 - gi\|75242664\|ref\|ZP_00726408.1\| COG0747: ABC-type dipeptide transport system, periplasmic component [...	0.0	[10..535]	[1..526]
gi\|75237483 - gi\|75237483\|ref\|ZP_00721516.1\| COG0747: ABC-type dipeptide transport system, periplasmic component [...	0.0	[10..535]	[1..526]

Back

Predicted Domain #1

Region A:
Residues: [1-535]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSISLKKSGM LKLGLSLVAM TVAASVQAKT LVYCSEGSPE GFNPQLFTSG TTYDASSVPI  60
   61 YNRLVEFKTG TTEVIPGLAE KWDISEDGKT YTFHLRKGVK WQSSKDFKPT RELNADDVVF 120
  121 SFDRQKNEQN PYHKVSGGSY EYFEGMGLPD LISEVKKVDD HTVQFVLTRP EAPFLADLAM 180
  181 DFASILSKEY ADNMLKAGTP EKVDLNPVGT GPFQLVQYQK DSRILYKAFD GYWGTKPKID 240
  241 RLVFSITPDA SVRYAKLQKN ECQVMPYPNP ADIARMKEDK NINLMEQAGL NVGYLSYNVQ 300
  301 KKPLDDVKVR QALTYAVNKE AIIKAVYQGA GVAAKNLIPP TMWGYNDDIK DYGYDPEKAK 360
  361 ALLKEAGLEK GFTIDLWAMP VQRPYNPNAR RMAEMIQADW AKIGVQAKIV TYEWGEYLKR 420
  421 AKDGEHQTVM MGWTGDNGDP DNFFATLFSC DAAQQGSNYS KWCYKPFEDL IQPARATDDH 480
  481 NKRIELYKQA QVVMHDQAPA LIIAHSTVYE PVRKEVKGYV VDPLGKHHFE NVSVE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	146.0
Match:	1dppA
Description:	Dipeptide-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ATPase activity, coupled to transmembrane movement of substances	7.32513858490159	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	7.32461921873446	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	7.32461921873446	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	7.30967709770689	bayes_pls_golite062009
primary active transmembrane transporter activity	7.29915074349679	bayes_pls_golite062009
oligopeptide transporter activity	7.2433462247746	bayes_pls_golite062009
active transmembrane transporter activity	7.22701734359888	bayes_pls_golite062009
peptide transporter activity	6.65358482101265	bayes_pls_golite062009
ATPase activity, coupled	6.6184830833742	bayes_pls_golite062009
ATPase activity	6.25872881857398	bayes_pls_golite062009
dipeptide transporter activity	6.15818525311031	bayes_pls_golite062009
nucleoside-triphosphatase activity	5.90322606085411	bayes_pls_golite062009
pyrophosphatase activity	5.82359353784758	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	5.80191380928519	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	5.80159621701122	bayes_pls_golite062009
peptide-transporting ATPase activity	4.88181218330665	bayes_pls_golite062009
oligopeptide-transporting ATPase activity	4.33503585684315	bayes_pls_golite062009
hydrolase activity	4.03317966718526	bayes_pls_golite062009
transporter activity	3.92658561501282	bayes_pls_golite062009
transmembrane transporter activity	3.71430307970333	bayes_pls_golite062009
substrate-specific transporter activity	3.34421502810243	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	2.76254706952599	bayes_pls_golite062009
molybdate transmembrane-transporting ATPase activity	2.58578176144479	bayes_pls_golite062009
molybdate ion transmembrane transporter activity	2.58578176144479	bayes_pls_golite062009
ion transmembrane transporter activity	1.84929214408108	bayes_pls_golite062009
binding	1.54172013140566	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	0.88623763826001	bayes_pls_golite062009
anion transmembrane transporter activity	0.75669016367838	bayes_pls_golite062009
polyamine transmembrane transporter activity	0.74959887541426	bayes_pls_golite062009
iron ion transmembrane transporter activity	0.3752347482824	bayes_pls_golite062009
amine transmembrane transporter activity	0.372828805396439	bayes_pls_golite062009
cation transmembrane transporter activity	0.343508026849565	bayes_pls_golite062009
amine-transporting ATPase activity	0.22884273975653	bayes_pls_golite062009
sulfate transmembrane-transporting ATPase activity	0.0940079640524907	bayes_pls_golite062009
polyamine-transporting ATPase activity	0.0497853931936705	bayes_pls_golite062009
metal ion transmembrane transporter activity	0.0237973852493387	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: