YRC Public Data Repository - Protein Structure Prediction

Protein:	HYCE_ECOLI
Organism:	Escherichia coli
Length:	569 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 HYCE_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|157158306, gi... - gi\|75187443\|ref\|ZP_00700710.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Escherichia coli E24377... gi\|75210922 - gi\|75210922\|ref\|ZP_00711046.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Escherichia coli B171] gi\|91212081, gi\|... - gi\|91212081\|ref\|YP_542067.1\| formate hydrogenlyase subunit 5 precursor [Escherichia coli UTI89], gi\|... gi\|75235684 - gi\|75235684\|ref\|ZP_00719858.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Escherichia coli E11001... gi\|13363048, gi\|... - gi\|15832831\|ref\|NP_311604.1\| hydrogenase 3 large subunit [Escherichia coli O157:H7 str. Sakai], gi\|1... gi\|26249120, gi\|... - gi\|26249120\|ref\|NP_755160.1\| formate hydrogenlyase subunit 5 precursor [Escherichia coli CFT073], gi... gi\|218696315, gi... - gi\|218696315\|ref\|YP_002403982.1\| hydrogenase 3, large subunit [Escherichia coli 55989], gi\|218353047... gi\|13363048, gi\|... - gi\|15832831\|ref\|NP_311604.1\| hydrogenase 3 large subunit [Escherichia coli O157:H7], gi\|13363048\|dbj... gi\|218559711, gi... - gi\|218559711\|ref\|YP_002392624.1\| hydrogenase 3, large subunit [Escherichia coli S88], gi\|218366480\|e... gi\|237706656, gi... - gi\|237706656\|ref\|ZP_04537137.1\| formate hydrogenlyase subunit 5 [Escherichia sp. 3_2_53FAA], gi\|2268... gi\|209761890, gi... - pir\|\|A91076 hydrogenase 3 large subunit [imported] - Escherichia coli (strain O157:H7, substrain RI... gi\|254594061, gi... - gi\|254794661\|ref\|YP_003079498.1\| hydrogenase 3, large subunit [Escherichia coli O157:H7 str. TW14359... gi\|208726795, gi... - gi\|208806994\|ref\|ZP_03249331.1\| formate hydrogenlyase, subunit E [Escherichia coli O157:H7 str. EC42... gi\|195938471 - gi\|195938471\|ref\|ZP_03083853.1\| hydrogenase 3, large subunit [Escherichia coli O157:H7 str. EC4024] gi\|215488037, gi... - gi\|215488037\|ref\|YP_002330468.1\| hydrogenase 3, large subunit [Escherichia coli O127:H6 str. E2348/6... gi\|209913419, gi... - gi\|209920160\|ref\|YP_002294244.1\| formate hydrogenlyase subunit [Escherichia coli SE11], gi\|209913419... gi\|218362033, gi... - gi\|218555265\|ref\|YP_002388178.1\| hydrogenase 3, large subunit [Escherichia coli IAI1], gi\|218362033\|... gi\|218355312, gi... - gi\|218547771\|ref\|YP_002381562.1\| hydrogenase 3, large subunit [Escherichia fergusonii ATCC 35469], g... gi\|75256923 - gi\|75256923\|ref\|ZP_00728499.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Escherichia coli E22] gi\|82545204, gi\|... - gi\|82545204\|ref\|YP_409151.1\| large subunit of hydrogenase 3 [Shigella boydii Sb227], gi\|81246615\|gb\|... gi\|115514077, gi... - gi\|117624953\|ref\|YP_853941.1\| hydrogenase 3, large subunit [Escherichia coli APEC O1], gi\|115514077\|...	577.0	[0..1]	[569..1]
gi\|75241665 - gi\|75241665\|ref\|ZP_00725502.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Escherichia coli F11] gi\|110344436, gi... - gi\|110642844\|ref\|YP_670574.1\| formate hydrogenase-3 component E [Escherichia coli 536], gi\|110344436...	577.0	[0..1]	[569..1]
gi\|75176419, gi\|... - gi\|75176419\|ref\|ZP_00696563.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Shigella boydii BS512],...	576.0	[0..1]	[569..1]
gi\|82778088, gi\|... - gi\|82778088\|ref\|YP_404437.1\| large subunit of hydrogenase 3 [Shigella dysenteriae Sd197], gi\|8124223...	576.0	[0..1]	[569..1]
gi\|75230073 - gi\|75230073\|ref\|ZP_00716583.1\| COG3261: Ni,Fe-hydrogenase III large subunit [Escherichia coli B7A]	575.0	[0..1]	[569..1]
gi\|15803238, gi\|... - gi\|15803238\|ref\|NP_289270.1\| large subunit of hydrogenase 3 (part of FHL complex) [Escherichia coli ... gi\|25285222 - pir\|\|H85920 hypothetical protein hycE [imported] - Escherichia coli (strain O157:H7, substrain EDL9...	574.0	[0..1]	[569..1]
gi\|167550311, gi... - gi\|205324728\|gb\|EDZ12567.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enterica se... gi\|205327920, gi... - gi\|205327920\|gb\|EDZ14684.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enterica se... gi\|238909616 - gi\|238909616\|ref\|ZP_04653453.1\| formate hydrogenlyase subunit 5 [Salmonella enterica subsp. enterica... lcl\|NC_016856.1_... - [gene=hycE] [protein=hydrogenase 3 large subunit] [protein_id=YP_005238953.1] [location=complement(3... gi\|16766155, gi\|... - gi\|16766155\|ref\|NP_461770.1\| hydrogenase 3 large subunit [Salmonella typhimurium LT2], gi\|16421395\|g... gi\|224584626, gi... - gi\|224584626\|ref\|YP_002638424.1\| formate hydrogenlyase subunit 5 [Salmonella enterica subsp. enteric... gi\|204928176, gi... - gi\|204928176\|ref\|ZP_03219376.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteric... gi\|206709915, gi... - gi\|207858112\|ref\|YP_002244763.1\| formate hydrogenlyase subunit 5 [Salmonella enterica subsp. enteric... gi\|198245407, gi... - gi\|198245407\|ref\|YP_002216821.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteri... gi\|200389022, gi... - gi\|200389022\|ref\|ZP_03215634.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteric... gi\|197214447, gi... - gi\|197250744\|ref\|YP_002147747.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteri... gi\|197264014, gi... - gi\|197264014\|ref\|ZP_03164088.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteric... gi\|194455273, gi... - gi\|194468909\|ref\|ZP_03074893.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteric... gi\|194737308, gi... - gi\|194737308\|ref\|YP_002115802.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteri... gi\|194401346, gi... - gi\|194442683\|ref\|YP_002042091.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteri... gi\|194448570, gi... - gi\|194448570\|ref\|YP_002046810.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enteri... gi\|168242579, gi... - gi\|205338022\|gb\|EDZ24786.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enterica se... gi\|168820463, gi... - gi\|205342945\|gb\|EDZ29709.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enterica se... gi\|168230910, gi... - gi\|205334554\|gb\|EDZ21318.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enterica se... gi\|197290814, gi... - gi\|197290814\|gb\|EDY30168.1\| formate hydrogenlyase, subunit E [Salmonella enterica subsp. enterica se...	574.0	[0..1]	[569..1]
gi\|197095206, gi... - gi\|197363729\|ref\|YP_002143366.1\| formate hydrogenlyase subunit 5 [Salmonella enterica subsp. enteric... gi\|56414801, gi\|... - gi\|56414801\|ref\|YP_151876.1\| formate hydrogenlyase subunit 5 [Salmonella enterica subsp. enterica se...	573.0	[0..1]	[569..1]
gi\|62181352, gi\|... - gi\|62181352\|ref\|YP_217769.1\| formate hydrogenlyase subunit 5 precursor [Salmonella enterica subsp. e...	573.0	[0..1]	[569..1]
gi\|110616200, gi... - gi\|110806652\|ref\|YP_690172.1\| large subunit of hydrogenase 3 (part of FHL complex) [Shigella flexner...	570.0	[0..1]	[569..1]

Back

Predicted Domain #1

Region A:
Residues: [1-174]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEEKLGQHY LAALNEAFPG VVLDHAWQTK DQLTVTVKVN YLPEVVEFLY YKQGGWLSVL  60
   61 FGNDERKLNG HYAVYYVLSM EKGTKCWITV RVEVDANKPE YPSVTPRVPA AVWGEREVRD 120
  121 MYGLIPVGLP DERRLVLPDD WPDELYPLRK DSMDYRQRPA PTTDAETYEF INEL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	26.69897
Match:	2fug5
Description:	Crystal structure of the hydrophilic domain of respiratory complex I from Thermus thermophilus
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [175-569]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDKKNNVVPI GPLHVTSDEP GHFRLFVDGE NIIDADYRLF YVHRGMEKLA ETRMGYNEVT  60
   61 FLSDRVCGIC GFAHSTAYTT SVENAMGIQV PERAQMIRAI LLEVERLHSH LLNLGLACHF 120
  121 TGFDSGFMQF FRVRETSMKM AEILTGARKT YGLNLIGGIR RDLLKDDMIQ TRQLAQQMRR 180
  181 EVQELVDVLL STPNMEQRTV GIGRLDPEIA RDFSNVGPMV RASGHARDTR ADHPFVGYGL 240
  241 LPMEVHSEQG CDVISRLKVR INEVYTALNM IDYGLDNLPG GPLMVEGFTY IPHRFALGFA 300
  301 EAPRGDDIHW SMTGDNQKLY RWRCRAATYA NWPTLRYMLR GNTVSDAPLI IGSLDPCYSC 360
  361 TDRMTVVDVR KKKSKVVPYK ELERYSIERK NSPLK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	106.0
Match:	2fug4
Description:	Crystal structure of the hydrophilic domain of respiratory complex I from Thermus thermophilus
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
NADH dehydrogenase activity	13.5914597754866	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	12.311192040385	bayes_pls_golite062009
NADH dehydrogenase (ubiquinone) activity	12.1563727867842	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	11.7527486559512	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	11.1653559876285	bayes_pls_golite062009
oxidoreductase activity	6.49653654839585	bayes_pls_golite062009
oxidoreduction-driven active transmembrane transporter activity	4.83230220346474	bayes_pls_golite062009
ferredoxin hydrogenase activity	3.63852106070173	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor	3.63852106070173	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor	3.45611813853803	bayes_pls_golite062009
oxidoreductase activity, acting on iron-sulfur proteins as donors	2.45015987642707	bayes_pls_golite062009
catalytic activity	1.13542026154948	bayes_pls_golite062009
binding	0.911610229264589	bayes_pls_golite062009
electron carrier activity	0.539561648236344	bayes_pls_golite062009
protein binding	0.37415157744344	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: