YRC Public Data Repository - Protein Structure Prediction

Protein:	EX5A_ECOLI
Organism:	Escherichia coli
Length:	608 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 EX5A_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|26249248, gi\|... - gi\|26249248\|ref\|NP_755288.1\| exonuclease V subunit alpha [Escherichia coli CFT073], gi\|26109655\|gb\|A... gi\|227888382, gi... - gi\|227888382\|ref\|ZP_04006187.1\| exodeoxyribonuclease V [Escherichia coli 83972], gi\|227834651\|gb\|EEJ...	364.0	[0..1]	[608..1]
gi\|168778811, gi... - gi\|189003209\|gb\|EDU72195.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|168788081, gi... - gi\|189372195\|gb\|EDU90611.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC8... gi\|189376204, gi... - gi\|189376204\|gb\|EDU94620.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC5... gi\|254794757, gi... - gi\|254794757\|ref\|YP_003079594.1\| exonuclease V (RecBCD complex), alpha chain [Escherichia coli O157:... gi\|195936420 - gi\|195936420\|ref\|ZP_03081802.1\| exonuclease V subunit alpha [Escherichia coli O157:H7 str. EC4024] gi\|189354934, gi... - gi\|189354934\|gb\|EDU73353.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|189365395, gi... - gi\|189365395\|gb\|EDU83811.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|168766790, gi... - gi\|189363667\|gb\|EDU82086.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|168777660, gi... - gi\|187767146\|gb\|EDU30990.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|188014890, gi... - gi\|188014890\|gb\|EDU53012.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|13363148, gi\|... - gi\|15832930\|ref\|NP_311703.1\| exonuclease V subunit alpha [Escherichia coli O157:H7 str. Sakai], gi\|1... gi\|209761130, gi... - pir\|\|D91088 DNA helicase RecD [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509952)... gi\|13363148, gi\|... - gi\|15832930\|ref\|NP_311703.1\| DNA helicase [Escherichia coli O157:H7], gi\|13363148\|dbj\|BAB37099.1\| DN... gi\|217319507, gi... - gi\|217327140\|ref\|ZP_03443223.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str.... gi\|208807978, gi... - gi\|208807978\|ref\|ZP_03250315.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str.... gi\|208813693, gi... - gi\|208813693\|ref\|ZP_03255022.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str.... gi\|208739722, gi... - gi\|208819599\|ref\|ZP_03259919.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str.... gi\|209159129, gi... - gi\|209397729\|ref\|YP_002272282.1\| exodeoxyribonuclease V, alpha subunit [Escherichia coli O157:H7 str...	364.0	[0..1]	[608..1]
gi\|82778195, gi\|... - gi\|82778195\|ref\|YP_404544.1\| exonuclease V subunit alpha [Shigella dysenteriae Sd197], gi\|81242343\|g...	364.0	[0..1]	[607..1]
gi\|157162271, gi... - gi\|75196787\|ref\|ZP_00706857.1\| COG0507: ATP-dependent exoDNAse (exonuclease V), alpha subunit - heli...	364.0	[0..1]	[608..1]
gi\|194421197, gi... - gi\|83584776\|ref\|ZP_00923438.1\| COG0507: ATP-dependent exoDNAse (exonuclease V), alpha subunit - heli... gi\|242378367, gi... - gi\|251786094\|ref\|YP_003000398.1\| hypothetical protein B21_02628 [Escherichia coli BL21], gi\|24237836... gi\|253772327, gi... - gi\|254289506\|ref\|YP_003055254.1\| exonuclease V (RecBCD complex), alpha chain [Escherichia coli BL21(...	363.0	[0..1]	[608..1]
gi\|191168598, gi... - gi\|75228191\|ref\|ZP_00714853.1\| COG0507: ATP-dependent exoDNAse (exonuclease V), alpha subunit - heli... gi\|193071404, gi... - gi\|75215039\|ref\|ZP_00713499.1\| COG0507: ATP-dependent exoDNAse (exonuclease V), alpha subunit - heli... gi\|218362136, gi... - gi\|218555368\|ref\|YP_002388281.1\| exonuclease V subunit alpha [Escherichia coli IAI1], gi\|218362136\|e... gi\|192927217, gi... - gi\|75256829\|ref\|ZP_00728423.1\| COG0507: ATP-dependent exoDNAse (exonuclease V), alpha subunit - heli...	363.0	[0..1]	[608..1]
gi\|24053233, gi\|... - gi\|24114100\|ref\|NP_708610.1\| exonuclease V subunit alpha [Shigella flexneri 2a str. 301], gi\|2405323... gi\|30042417, gi\|... - gi\|30064161\|ref\|NP_838332.1\| exonuclease V subunit alpha [Shigella flexneri 2a str. 2457T], gi\|30042...	363.0	[0..1]	[608..1]
gi\|83569187, gi\|... - gi\|83569187\|ref\|ZP_00920645.1\| COG0507: ATP-dependent exoDNAse (exonuclease V), alpha subunit - heli...	363.0	[0..1]	[608..1]
gi\|25289149 - pir\|\|F85933 hypothetical protein recD [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|15803338, gi\|... - gi\|15803338\|ref\|NP_289371.1\| exonuclease V subunit alpha [Escherichia coli O157:H7 EDL933], gi\|12517...	362.0	[0..1]	[608..1]
gi\|91073788, gi\|... - gi\|91212214\|ref\|YP_542200.1\| exonuclease V subunit alpha [Escherichia coli UTI89], gi\|91073788\|gb\|AB... gi\|218366600, gi... - gi\|218559831\|ref\|YP_002392744.1\| exonuclease V subunit alpha [Escherichia coli S88], gi\|218366600\|em... gi\|115514196, gi... - gi\|117625072\|ref\|YP_854060.1\| exonuclease V subunit alpha [Escherichia coli APEC O1], gi\|115514196\|g... gi\|237706520, gi... - gi\|237706520\|ref\|ZP_04537001.1\| exonuclease V subunit alpha [Escherichia sp. 3_2_53FAA], gi\|22689956...	362.0	[0..1]	[607..1]

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Predicted Domain #1

Region A:
Residues: [1-608]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKLQKQLLEA VEHKQLRPLD VQFALTVAGD EHPAVTLAAA LLSHDAGEGH VCLPLSRLEN  60
   61 NEASHPLLAT CVSEIGELQN WEECLLASQA VSRGDEPTPM ILCGDRLYLN RMWCNERTVA 120
  121 RFFNEVNHAI EVDEALLAQT LDKLFPVSDE INWQKVAAAV ALTRRISVIS GGPGTGKTTT 180
  181 VAKLLAALIQ MADGERCRIR LAAPTGKAAA RLTESLGKAL RQLPLTDEQK KRIPEDASTL 240
  241 HRLLGAQPGS QRLRHHAGNP LHLDVLVVDE ASMIDLPMMS RLIDALPDHA RVIFLGDRDQ 300
  301 LASVEAGAVL GDICAYANAG FTAERARQLS RLTGTHVPAG TGTEAASLRD SLCLLQKSYR 360
  361 FGSDSGIGQL AAAINRGDKT AVKTVFQQDF TDIEKRLLQS GEDYIAMLEE ALAGYGRYLD 420
  421 LLQARAEPDL IIQAFNEYQL LCALREGPFG VAGLNERIEQ FMQQKRKIHR HPHSRWYEGR 480
  481 PVMIARNDSA LGLFNGDIGI ALDRGQGTRV WFAMPDGNIK SVQPSRLPEH ETTWAMTVHK 540
  541 SQGSEFDHAA LILPSQRTPV VTRELVYTAV TRARRRLSLY ADERILSAAI ATRTERRSGL 600
  601 AALFSSRE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	100.0
Match:	1w36D
Description:	RecBCD:DNA complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
exodeoxyribonuclease V activity	6.45399906372635	bayes_pls_golite062009
deoxyribonuclease activity	4.214585502776	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	4.1611108835958	bayes_pls_golite062009
exodeoxyribonuclease activity	4.15362118941033	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	3.51963098050513	bayes_pls_golite062009
exonuclease activity	3.26822223300964	bayes_pls_golite062009
nucleoside-triphosphatase activity	2.16381244011837	bayes_pls_golite062009
pyrophosphatase activity	2.13284212711072	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	2.11265775498161	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	2.11046854230259	bayes_pls_golite062009
hydrolase activity	1.66122526893602	bayes_pls_golite062009
ATPase activity	1.53315090215319	bayes_pls_golite062009
binding	1.41264401383678	bayes_pls_golite062009
DNA-dependent ATPase activity	1.1653223755451	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
helicase activity	0.895387263223335	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.847189464648844	bayes_pls_golite062009
DNA helicase activity	0.8104901979223	bayes_pls_golite062009
four-way junction helicase activity	0.26252931460003	bayes_pls_golite062009
nucleic acid binding	0.216266069700019	bayes_pls_golite062009
ATP-dependent helicase activity	0.156322124775303	bayes_pls_golite062009
purine NTP-dependent helicase activity	0.156322124775303	bayes_pls_golite062009
nucleotide binding	0.114848452385726	bayes_pls_golite062009
purine nucleotide binding	0.10713474095071	bayes_pls_golite062009
purine ribonucleotide binding	0.0916519414118148	bayes_pls_golite062009
ribonucleotide binding	0.0915913646217636	bayes_pls_golite062009
ATP-dependent DNA helicase activity	0.0398638249772338	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: