YRC Public Data Repository - Protein Structure Prediction

Protein:	CLPX_ECOLI
Organism:	Escherichia coli
Length:	424 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 CLPX_ECOLI.

Description	E-value	Query Range	Subject Range
CLPX_SHIBS - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Shigella boydii serotype 4 (strain Sb227) GN=...	416.0	[0..1]	[424..1]
gi\|388977 - gi\|388977\|emb\|CAA80816.1\| ATP-binding protein [Escherichia coli]	416.0	[0..1]	[424..1]
CLPX_SODGM - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Sodalis glossinidius (strain morsitans) GN=cl...	413.0	[0..1]	[424..1]
CLPX_ERWCT - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Erwinia carotovora subsp. atroseptica GN=clpX... CLPX_PECAS - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Pectobacterium atrosepticum (strain SCRI 1043...	412.0	[0..1]	[424..1]
CLPX_SALTI - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella typhi GN=clpX PE=3 SV=1 gi\|29138431, gi\|... - gi\|29142799\|ref\|NP_806141.1\| ATP-dependent protease ATP-binding subunit [Salmonella enterica subsp. ... gi\|214001924 - gi\|214001924\|ref\|ZP_03412659.1\| ATP-dependent protease ATP-binding subunit [Salmonella enterica subs... gi\|16759429 - gi\|16759429\|ref\|NP_455046.1\| ATP-dependent protease ATP-binding subunit [Salmonella enterica subsp. ... gi\|213160793 - gi\|213160793\|ref\|ZP_03346503.1\| ATP-dependent protease ATP-binding subunit [Salmonella enterica subs... gi\|213646004 - gi\|213646004\|ref\|ZP_03376057.1\| ATP-dependent protease ATP-binding subunit [Salmonella enterica subs... CLPX_SALTI - ATP-dependent Clp protease ATP-binding subunit clpX OS=Salmonella typhi GN=clpX PE=3 SV=1 gi\|213425857 - gi\|213425857\|ref\|ZP_03358607.1\| ATP-dependent protease ATP-binding subunit [Salmonella enterica subs...	410.0	[0..1]	[424..1]
gi\|205333989, gi... - gi\|205333989\|gb\|EDZ20753.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella enteric... gi\|197289504, gi... - gi\|197289504\|gb\|EDY28867.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella enteric... gi\|168261114, gi... - gi\|205349962\|gb\|EDZ36593.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella enteric... gi\|168465543, gi... - gi\|195631578\|gb\|EDX50098.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella enteric... CLPX_SALPB - ATP-dependent Clp protease ATP-binding subunit clpX OS=Salmonella paratyphi B (strain ATCC BAA-1250 ... CLPX_SALPA - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella paratyphi A GN=clpX PE=3 SV=1 CLPX_SALCH - ATP-dependent Clp protease ATP-binding subunit clpX OS=Salmonella choleraesuis GN=clpX PE=3 SV=1 gi\|205330906, gi... - gi\|205330906\|gb\|EDZ17670.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella enteric... CLPX_SALPB - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella paratyphi B (strain ATCC BAA-1250 ... CLPX_SALTY - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella typhimurium (strain LT2 / SGSC1412... CLPX_SALDC - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella dublin (strain CT_02021853) GN=clp... CLPX_SALCH - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella choleraesuis GN=clpX PE=3 SV=1 gi\|199602471, gi... - gi\|200390026\|ref\|ZP_03216637.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella ent... CLPX_SALG2 - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella gallinarum (strain 287/91 / NCTC 1... CLPX_SALPC - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella paratyphi C (strain RKS4594) GN=cl... CLPX_SALTY - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella typhimurium GN=clpX PE=3 SV=1 CLPX_SALSV - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella schwarzengrund (strain CVM19633) G... CLPX_SALA4 - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella agona (strain SL483) GN=clpX PE=3 ... CLPX_SALPA - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella paratyphi A (strain ATCC 9150 / SA... gi\|197263118, gi... - gi\|197263118\|ref\|ZP_03163192.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella ent... CLPX_SALCH - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella choleraesuis (strain SC-B67) GN=cl... CLPX_SALPK - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella paratyphi A (strain AKU_12601) GN=... gi\|168818939, gi... - gi\|205344101\|gb\|EDZ30865.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella enteric... lcl\|NC_016856.1_... - [gene=clpX] [protein=ATP-dependent protease ATP-binding subunit] [protein_id=YP_005236146.1] [locati... CLPX_SALNS - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella newport (strain SL254) GN=clpX PE=... CLPX_SALHS - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Salmonella heidelberg (strain SL476) GN=clpX ... gi\|194471272, gi... - gi\|194471272\|ref\|ZP_03077256.1\| ATP-dependent Clp protease, ATP-binding subunit ClpX [Salmonella ent... CLPX_SALTY - ATP-dependent Clp protease ATP-binding subunit clpX OS=Salmonella typhimurium GN=clpX PE=3 SV=1 gi\|238911420 - gi\|238911420\|ref\|ZP_04655257.1\| ATP-dependent protease ATP-binding subunit ClpX [Salmonella enterica...	410.0	[0..1]	[421..1]
gi\|7594817 - gi\|7594817\|dbj\|BAA94669.1\| ATPase subunit [Salmonella enterica subsp. enterica serovar Typhimurium] gi\|7594817\|dbj\|B... - ATPase subunit [Salmonella typhimurium]	410.0	[0..1]	[421..1]
CLPX_YEREN - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Yersinia enterocolitica GN=clpX PE=3 SV=1 CLPX_YERE8 - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Yersinia enterocolitica serotype O:8 / biotyp...	406.0	[0..1]	[424..1]
gi\|238710697, gi... - gi\|238751007\|ref\|ZP_04612503.1\| ATP-dependent Clp protease ATP-binding subunit clpX [Yersinia rohdei... gi\|238715486, gi... - gi\|77956936\|ref\|ZP_00821008.1\| COG1219: ATP-dependent protease Clp, ATPase subunit [Yersinia bercovi... gi\|238720660, gi... - gi\|77962323\|ref\|ZP_00826144.1\| COG1219: ATP-dependent protease Clp, ATPase subunit [Yersinia mollare...	406.0	[0..1]	[424..1]
CLPX_SHEFN - ATP-dependent Clp protease ATP-binding subunit ClpX OS=Shewanella frigidimarina (strain NCIMB 400) G...	406.0	[0..1]	[424..1]

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Predicted Domain #1

Region A:
Residues: [1-63]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTDKRKDGSG KLLYCSFCGK SQHEVRKLIA GPSVYICDEC VDLCNDIIRE EIKEVAPHRE  60
   61 RSA

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [64-424]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPTPHEIRNH LDDYVIGQEQ AKKVLAVAVY NHYKRLRNGD TSNGVELGKS NILLIGPTGS  60
   61 GKTLLAETLA RLLDVPFTMA DATTLTEAGY VGEDVENIIQ KLLQKCDYDV QKAQRGIVYI 120
  121 DEIDKISRKS DNPSITRDVS GEGVQQALLK LIEGTVAAVP PQGGRKHPQQ EFLQVDTSKI 180
  181 LFICGGAFAG LDKVISHRVE TGSGIGFGAT VKAKSDKASE GELLAQVEPE DLIKFGLIPE 240
  241 FIGRLPVVAT LNELSEEALI QILKEPKNAL TKQYQALFNL EGVDLEFRDE ALDAIAKKAM 300
  301 ARKTGARGLR SIVEAALLDT MYDLPSMEDV EKVVIDESVI DGQSKPLLIY GKPEAQQASG 360
  361 E

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	68.09691
Match:	1um8A
Description:	Crystal structure of helicobacter pylori ClpX
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity	2.55157966585974	bayes_pls_golite062009
binding	1.41264401383678	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
purine nucleotide binding	0.569910969126728	bayes_pls_golite062009
purine ribonucleotide binding	0.568840867400671	bayes_pls_golite062009
ribonucleotide binding	0.568779924702229	bayes_pls_golite062009
nucleotide binding	0.564275755355315	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.546796591575762	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.543610140926125	bayes_pls_golite062009
pyrophosphatase activity	0.540750418412449	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.517457589081898	bayes_pls_golite062009
ATP binding	0.1860481660648	bayes_pls_golite062009
adenyl ribonucleotide binding	0.152859582615242	bayes_pls_golite062009
adenyl nucleotide binding	0.138615225841109	bayes_pls_golite062009
nucleic acid binding	0.030747546048349	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: