YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|215266003, gi...
Organism:	Escherichia coli O127:H6 str. E2348/69
Length:	857 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|215266003, gi....

Description	E-value	Query Range	Subject Range
gi\|238798951, gi... - gi\|77960423\|ref\|ZP_00824294.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin...	667.0	[0..1]	[857..1]
gi\|238713243, gi... - gi\|77956726\|ref\|ZP_00820808.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin...	665.0	[0..1]	[857..1]
gi\|238791396, gi... - gi\|77976237\|ref\|ZP_00831746.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin...	664.0	[0..1]	[857..1]
gi\|21957649, gi\|... - gi\|22124822\|ref\|NP_668245.1\| protein disaggregation chaperone [Yersinia pestis KIM], gi\|21957649\|gb\|... gi\|45435364, gi\|... - gi\|45440507\|ref\|NP_992046.1\| protein disaggregation chaperone [Yersinia pestis biovar Microtus str. ...	664.0	[0..1]	[857..8]
CLPB_YERPE - Chaperone protein ClpB OS=Yersinia pestis GN=clpB PE=3 SV=2 gi\|16123432, gi\|... - gi\|218930300\|ref\|YP_002348175.1\| protein disaggregation chaperone [Yersinia pestis CO92], gi\|1612343...	663.0	[0..1]	[857..1]
gi\|166960584, gi... - gi\|167421665\|ref\|ZP_02313418.1\| chaperone ClpB [Yersinia pestis biovar Orientalis str. MG05-1020], g... gi\|167423529, gi... - gi\|167423529\|ref\|ZP_02315282.1\| chaperone ClpB [Yersinia pestis biovar Mediaevalis str. K1973002], g... gi\|166205898, gi... - gi\|166213111\|ref\|ZP_02239146.1\| chaperone ClpB [Yersinia pestis biovar Antiqua str. B42003004], gi\|1... gi\|167051867, gi... - gi\|167399363\|ref\|ZP_02304887.1\| chaperone ClpB [Yersinia pestis biovar Antiqua str. UG05-0454], gi\|1... gi\|186697242, gi... - gi\|186894216\|ref\|YP_001871328.1\| protein disaggregation chaperone [Yersinia pseudotuberculosis PB1/+... gi\|89103058 - gi\|89103058\|ref\|ZP_01175654.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin... gi\|108780670, gi... - gi\|108808757\|ref\|YP_652673.1\| protein disaggregation chaperone [Yersinia pestis Antiqua], gi\|1087806... Q66E45\|Q66E45_YERPS - ATP-dependent protease, Hsp 100, part of novel multi-chaperone system with DnaK, DnaJ, and GrpE - Ye... gi\|167470275 - gi\|167470275\|ref\|ZP_02334979.1\| protein disaggregation chaperone [Yersinia pestis FV-1] gi\|77633070, gi\|... - gi\|77633070\|ref\|ZP_00795224.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin... gi\|108774634, gi... - gi\|229901202\|ref\|ZP_04516325.1\| Clp ATPase [Yersinia pestis Nepal516], gi\|229681927\|gb\|EEO78020.1\| C... gi\|170025564, gi... - gi\|170025564\|ref\|YP_001722069.1\| protein disaggregation chaperone [Yersinia pseudotuberculosis YPIII... gi\|165921516, gi... - gi\|165926588\|ref\|ZP_02222420.1\| chaperone ClpB [Yersinia pestis biovar Orientalis str. F1991016], gi... gi\|165990884, gi... - gi\|166009977\|ref\|ZP_02230875.1\| chaperone ClpB [Yersinia pestis biovar Antiqua str. E1979001], gi\|16... gi\|229695257, gi... - gi\|229838891\|ref\|ZP_04459050.1\| Clp ATPase [Yersinia pestis biovar Orientalis str. PEXU2], gi\|229695... gi\|229687860, gi... - gi\|229899458\|ref\|ZP_04514601.1\| Clp ATPase [Yersinia pestis biovar Orientalis str. India 195], gi\|22... gi\|229896559, gi... - gi\|229896559\|ref\|ZP_04511726.1\| Clp ATPase [Yersinia pestis Pestoides A], gi\|229700337\|gb\|EEO88369.1... gi\|153997675, gi... - gi\|153997675\|ref\|ZP_02022775.1\| Clp ATPase [Yersinia pestis CA88-4125], gi\|149289312\|gb\|EDM39392.1\| ... gi\|145600170, gi... - gi\|145600170\|ref\|YP_001164246.1\| protein disaggregation chaperone [Yersinia pestis Pestoides F], gi\|... gi\|77631820, gi\|... - gi\|77631820\|ref\|ZP_00794406.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin... gi\|51595198, gi\|... - gi\|51595198\|ref\|YP_069389.1\| protein disaggregation chaperone [Yersinia pseudotuberculosis IP 32953]...	663.0	[0..1]	[857..1]
gi\|238790743, gi... - gi\|77972196\|ref\|ZP_00827770.1\| COG0542: ATPases with chaperone activity, ATP-binding subunit [Yersin...	662.0	[0..1]	[857..1]
gi\|117624816, gi... - gi\|117624816\|ref\|YP_853729.1\| protein disaggregation chaperone [Escherichia coli APEC O1], gi\|115513... gi\|237706819, gi... - gi\|237706819\|ref\|ZP_04537300.1\| heat shock protein [Escherichia sp. 3_2_53FAA], gi\|226899859\|gb\|EEH8... gi\|91211926, gi\|... - gi\|91211926\|ref\|YP_541912.1\| protein disaggregation chaperone [Escherichia coli UTI89], gi\|91073500\|...	660.0	[0..1]	[857..5]
gi\|15803116, gi\|... - gi\|15803116\|ref\|NP_289147.1\| protein disaggregation chaperone [Escherichia coli O157:H7 EDL933], gi\|... gi\|227834799, gi... - gi\|227888159\|ref\|ZP_04005964.1\| endopeptidase Clp [Escherichia coli 83972], gi\|227834799\|gb\|EEJ45265... gi\|226839293, gi... - gi\|254037669\|ref\|ZP_04871727.1\| heat shock protein [Escherichia sp. 1_1_43], gi\|226839293\|gb\|EEH7131... gi\|26109361, gi\|... - gi\|26248955\|ref\|NP_754995.1\| protein disaggregation chaperone [Escherichia coli CFT073], gi\|26109361... gi\|209762704, gi... - gi\|25289895\|pir\|\|E85905 heat shock protein [imported] - Escherichia coli (strain O157:H7, substrain ...	660.0	[0..1]	[857..5]
CLPB_SALTY - Chaperone protein ClpB OS=Salmonella typhimurium GN=clpB PE=3 SV=1 CLPB_SALTY - Chaperone protein clpB OS=Salmonella typhimurium GN=clpB PE=3 SV=1 CLPB_SALTI - Chaperone protein clpB OS=Salmonella typhi GN=clpB PE=3 SV=1 gi\|213850142 - gi\|213850142\|ref\|ZP_03381040.1\| protein disaggregation chaperone [Salmonella enterica subsp. enteric... gi\|213999720 - gi\|213999720\|ref\|ZP_03410455.1\| protein disaggregation chaperone [Salmonella enterica subsp. enteric... gi\|194448814, gi... - gi\|194448814\|ref\|YP_002046666.1\| protein disaggregation chaperone [Salmonella enterica subsp. enteri... gi\|197244024, gi... - gi\|197265769\|ref\|ZP_03165843.1\| ATP-dependent chaperone protein ClpB [Salmonella enterica subsp. ent... gi\|213051813 - gi\|213051813\|ref\|ZP_03344691.1\| protein disaggregation chaperone [Salmonella enterica subsp. enteric... lcl\|NC_016856.1_... - [gene=clpB] [protein=protein disaggregation chaperone] [protein_id=YP_005238782.1] [location=complem... gi\|213649749 - gi\|213649749\|ref\|ZP_03379802.1\| protein disaggregation chaperone [Salmonella enterica subsp. enteric... gi\|29142985, gi\|... - gi\|29142985\|ref\|NP_806327.1\| protein disaggregation chaperone [Salmonella enterica subsp. enterica s... gi\|16761514 - gi\|16761514\|ref\|NP_457131.1\| protein disaggregation chaperone [Salmonella enterica subsp. enterica s... CLPB_SALTI - Chaperone protein ClpB OS=Salmonella typhi GN=clpB PE=3 SV=1 gi\|205329269, gi... - gi\|205329269\|gb\|EDZ16033.1\| chaperone protein clpB [Salmonella enterica subsp. enterica serovar 4,[5... CLPB_SALTY - Chaperone protein ClpB OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=clpB PE=3 ... gi\|168244680, gi... - gi\|205336469\|gb\|EDZ23233.1\| chaperone protein clpB [Salmonella enterica subsp. enterica serovar Heid...	660.0	[0..1]	[857..1]

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Predicted Domain #1

Region A:
Residues: [1-857]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRLDRLTNKF QLALADAQSL ALGHDNQFIE PLHLMSALLN QEGGSVSPLL TSAGINAGQL  60
   61 RTDINQALNR LPQVEGTGGD VQPSQDLVRV LNLCDKLAQK RGDNFISSEL FVLAALESRG 120
  121 TLADILKAAG ATTANITQAI EQMRGGESVN DQGAEDQRQA LKKYTIDLTE RAEQGKLDPV 180
  181 IGRDEEIRRT IQVLQRRTKN NPVLIGEPGV GKTAIVEGLA QRIINGEVPE GLKGRRVLAL 240
  241 DMGALVAGAK YRGEFEERLK GVLNDLAKQE GNVILFIDEL HTMVGAGKAD GAMDAGNMLK 300
  301 PALARGELHC VGATTLDEYR QYIEKDAALE RRFQKVFVAE PSVEDTIAIL RGLKERYELH 360
  361 HHVQITDPAI VAAATLSHRY IADRQLPDKA IDLIDEAASS IRMQIDSKPE ELDRLDRRII 420
  421 QLKLEQQALM KESDEASKKR LDMLNEELSD KERQYSELEE EWKAEKASLS GTQTIKAELE 480
  481 QAKIAIEQAR RVGDLARMSE LQYGKIPELE KQLEAATQLE GKTMRLLRNK VTDAEIAEVL 540
  541 ARWTGIPVSR MMESEREKLL RMEQELHHRV IGQNEAVDAV SNAIRRSRAG LADPNRPIGS 600
  601 FLFLGPTGVG KTELCKALAN FMFDSDEAMV RIDMSEFMEK HSVSRLVGAP PGYVGYEEGG 660
  661 YLTEAVRRRP YSVILLDEVE KAHPDVFNIL LQVLDDGRLT DGQGRTVDFR NTVVIMTSNL 720
  721 GSDLIQERFG ELDYAHMKEL VLGVVSHNFR PEFINRIDEV VVFHPLGEQH IASIAQIQLK 780
  781 RLYKRLEERG YEIHISDEAL KLLSENGYDP VYGARPLKRA IQQQIENPLA QQILSGELVP 840
  841 GKVIRLEVNE DRIVAVQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	171.0
Match:	1qvrA
Description:	Crystal Structure Analysis of ClpB
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transporter activity	3.54081962055485	bayes_pls_golite062009
hydrogen ion transporting ATP synthase activity, rotational mechanism	3.36181317078971	bayes_pls_golite062009
transmembrane transporter activity	3.29578916194335	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.95079405147356	bayes_pls_golite062009
pyrophosphatase activity	2.87427509025394	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.85499564954033	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.85178667290149	bayes_pls_golite062009
binding	2.64537357529343	bayes_pls_golite062009
hydrolase activity	2.55157966585974	bayes_pls_golite062009
ATPase activity	2.39535714892224	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	2.32451967319952	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	2.20669061476179	bayes_pls_golite062009
ATPase activity, coupled	2.18396165590908	bayes_pls_golite062009
nucleic acid binding	2.11222585187695	bayes_pls_golite062009
DNA binding	1.7904783386531	bayes_pls_golite062009
protein transporter activity	1.71214667007262	bayes_pls_golite062009
transcription regulator activity	1.68903321260301	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	1.67543589693508	bayes_pls_golite062009
substrate-specific transporter activity	1.29730375126024	bayes_pls_golite062009
protein binding	1.22129154759482	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
purine nucleotide binding	0.929901285538132	bayes_pls_golite062009
nucleotide binding	0.922442819194247	bayes_pls_golite062009
purine ribonucleotide binding	0.920987930180051	bayes_pls_golite062009
ribonucleotide binding	0.920926158369519	bayes_pls_golite062009
motor activity	0.87979065815418	bayes_pls_golite062009
structural constituent of ribosome	0.860102064846772	bayes_pls_golite062009
structure-specific DNA binding	0.762584163889896	bayes_pls_golite062009
DNA-dependent ATPase activity	0.75383985982414	bayes_pls_golite062009
guanyl nucleotide binding	0.640772201693186	bayes_pls_golite062009
transcription activator activity	0.638755032892208	bayes_pls_golite062009
guanyl ribonucleotide binding	0.63468044350616	bayes_pls_golite062009
GTP binding	0.621689261700018	bayes_pls_golite062009
transcription factor activity	0.603758349693077	bayes_pls_golite062009
double-stranded DNA binding	0.49000746592281	bayes_pls_golite062009
protein transmembrane transporter activity	0.46552249844591	bayes_pls_golite062009
GTPase activity	0.437665353870877	bayes_pls_golite062009
active transmembrane transporter activity	0.434775387083003	bayes_pls_golite062009
ATP binding	0.41092997612902	bayes_pls_golite062009
adenyl ribonucleotide binding	0.385813421701492	bayes_pls_golite062009
adenyl nucleotide binding	0.377870145186619	bayes_pls_golite062009
ion transmembrane transporter activity	0.355466224802969	bayes_pls_golite062009
helicase activity	0.33971254173831	bayes_pls_golite062009
sequence-specific DNA binding	0.334630071828653	bayes_pls_golite062009
primary active transmembrane transporter activity	0.294474570607914	bayes_pls_golite062009
translation regulator activity	0.29096092258568	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	0.282352478532746	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.274994961137851	bayes_pls_golite062009
DNA strand annealing activity	0.270268254152179	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	0.220608508617331	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	0.219533217661421	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	0.219157471322311	bayes_pls_golite062009
signal recognition particle binding	0.20866768220789	bayes_pls_golite062009
microtubule motor activity	0.11674780318211	bayes_pls_golite062009
structural molecule activity	0.11239762372728	bayes_pls_golite062009
cation transmembrane transporter activity	0.0254369227200564	bayes_pls_golite062009
ATP-dependent helicase activity	0.0136700590511267	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.0136700590511267	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: