YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|110806420, gi...
Organism:	Shigella flexneri 5 str. 8401
Length:	252 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|110806420, gi....

Description	E-value	Query Range	Subject Range
gi\|157158565, gi... - gi\|75187240\|ref\|ZP_00700507.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Escherichia coli E24377...	304.0	[0..1]	[252..1]
HYFI_ECOLI - Hydrogenase-4 component I (EC 1.-.-.-) - Escherichia coli gi\|238861461, gi... - gi\|238901654\|ref\|YP_002927450.1\| hydrogenase 4, Fe-S subunit [Escherichia coli BW2952], gi\|238861461... gi\|75237764, gi\|... - gi\|75237764\|ref\|ZP_00721780.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Escherichia coli E11001... gi\|81246349, gi\|... - gi\|82544938\|ref\|YP_408885.1\| hydrogenase 4 Fe-S subunit [Shigella boydii Sb227], gi\|81246349\|gb\|ABB6... gi\|85675423, gi\|... - gi\|89109295\|ref\|AP_003075.1\| hydrogenase 4, Fe-S subunit [Escherichia coli str. K-12 substr. W3110],... EG14217 - hydrogenase 4, Fe-S subunit / Hydrogenase 4 component I; membrane protein of Hyf electron transfer c... EG14217 - hydrogenase 4, Fe-S subunit / Hydrogenase 4 component I; membrane protein of Hyf electron transfer c... gi\|170082099, gi... - gi\|170082099\|ref\|YP_001731419.1\| hydrogenase 4, Fe-S subunit [Escherichia coli str. K-12 substr. DH1...	302.0	[0..1]	[252..1]
gi\|75196497, gi\|... - gi\|75196497\|ref\|ZP_00706567.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Escherichia coli HS], g... gi\|124529802, gi... - gi\|124529802\|ref\|ZP_01700679.1\| NADH ubiquinone oxidoreductase, 20 kDa subunit [Escherichia coli B],... gi\|194437593, gi... - gi\|83586862\|ref\|ZP_00925493.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Escherichia coli 101-1]... gi\|169754155, gi... - gi\|170019227\|ref\|YP_001724181.1\| NADH ubiquinone oxidoreductase 20 kDa subunit [Escherichia coli ATC... gi\|254289224, gi... - gi\|254289224\|ref\|YP_003054972.1\| hydrogenase 4, Fe-S subunit [Escherichia coli BL21(DE3)], gi\|253978... gi\|251785814, gi... - gi\|251785814\|ref\|YP_003000118.1\| hypothetical protein B21_02343 [Escherichia coli BL21], gi\|24237808... gi\|253974364, gi... - gi\|254162463\|ref\|YP_003045571.1\| hydrogenase 4, Fe-S subunit [Escherichia coli B str. REL606], gi\|25... gi\|73856492, gi\|... - gi\|74313015\|ref\|YP_311434.1\| hydrogenase 4 Fe-S subunit [Shigella sonnei Ss046], gi\|73856492\|gb\|AAZ8...	302.0	[0..1]	[252..1]
gi\|82777869, gi\|... - gi\|82777869\|ref\|YP_404218.1\| hydrogenase 4 Fe-S subunit [Shigella dysenteriae Sd197], gi\|81242017\|gb...	301.0	[0..1]	[252..1]
gi\|187770648, gi... - gi\|187770648\|gb\|EDU34492.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4196], gi\|1687... gi\|168768578, gi... - gi\|189362304\|gb\|EDU80723.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4486], gi\|1687... gi\|189368448, gi... - gi\|189368448\|gb\|EDU86864.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4501], gi\|1687... gi\|168756258, gi... - gi\|189356622\|gb\|EDU75041.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4401], gi\|1687... gi\|195936632 - gi\|195936632\|ref\|ZP_03082014.1\| hydrogenase 4 Fe-S subunit [Escherichia coli O157:H7 str. EC4024] gi\|254593834, gi... - gi\|254794434\|ref\|YP_003079271.1\| hydrogenase 4, Fe-S subunit [Escherichia coli O157:H7 str. TW14359]... gi\|189378584, gi... - gi\|189378584\|gb\|EDU97000.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC508], gi\|16879... gi\|168787832, gi... - gi\|189372275\|gb\|EDU90691.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC869], gi\|16878... gi\|189003438, gi... - gi\|189003438\|gb\|EDU72424.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4076], gi\|1687... gi\|25298988, gi\|... - pir\|\|G91047 hydrogenase 4 Fe-S subunit [imported] - Escherichia coli (strain O157:H7, substrain RIM... gi\|15832605, gi\|... - gi\|15832605\|ref\|NP_311378.1\| hydrogenase 4 Fe-S subunit [Escherichia coli O157:H7], gi\|13362821\|dbj\|... gi\|15832605, gi\|... - gi\|15832605\|ref\|NP_311378.1\| hydrogenase 4 Fe-S subunit [Escherichia coli O157:H7 str. Sakai], gi\|13... gi\|168748455, gi... - gi\|188017086\|gb\|EDU55208.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4113], gi\|1687... gi\|209159864, gi... - gi\|209398464\|ref\|YP_002271958.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4115], gi... gi\|208821226, gi... - gi\|208821226\|ref\|ZP_03261546.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4042], gi\|... gi\|208811962, gi... - gi\|208811962\|ref\|ZP_03253291.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4045], gi\|... gi\|208729213, gi... - gi\|208809412\|ref\|ZP_03251749.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. EC4206], gi\|... gi\|217320038, gi... - gi\|217327671\|ref\|ZP_03443754.1\| hydrogenase-4, I subunit [Escherichia coli O157:H7 str. TW14588], gi...	301.0	[0..1]	[252..1]
gi\|194419717, gi... - gi\|83570706\|ref\|ZP_00922149.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Shigella dysenteriae 10...	301.0	[0..1]	[252..1]
gi\|191169211, gi... - gi\|75227505\|ref\|ZP_00714269.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Escherichia coli B7A], ...	300.0	[0..1]	[251..1]
gi\|187732837, gi... - gi\|75178091\|ref\|ZP_00698150.1\| COG3260: Ni,Fe-hydrogenase III small subunit [Shigella boydii BS512],...	300.0	[0..1]	[252..1]
gi\|12516874, gi\|... - gi\|15803012\|ref\|NP_289042.1\| hydrogenase 4 Fe-S subunit [Escherichia coli O157:H7 EDL933], gi\|125168... gi\|25298989 - pir\|\|C85892 hydrogenase 4 Fe-S subunit [imported] - Escherichia coli (strain O157:H7, substrain EDL...	300.0	[0..1]	[252..1]
gi\|49237171, gi\|... - gi\|83591007\|ref\|YP_431016.1\| NADH ubiquinone oxidoreductase, 20 kDa subunit [Moorella thermoacetica ...	266.0	[0..16]	[246..4]

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Predicted Domain #1

Region A:
Residues: [1-177]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSPVLTQYVS QPITLDEQTQ KMKRHLLQDI RRSAYVYRID CGGCNACEIE IFAAITPVFD  60
   61 AERFGIKVVS SPRHADILLF TGAVTRAMRM PALRAYESAP DHKICVSYGA CGVGGGIFHD 120
  121 LYSVWGGSDT IVPIDVWIPG CPPTPAATIH GFAVALGLLQ QKIHAVDYRD PTGVTMQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.0
Match:	2fug6
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
oxidoreductase activity, acting on hydrogen as donor	2.20752608202439	bayes_pls_golite062009
ferredoxin hydrogenase activity	1.32333392056778	bayes_pls_golite062009
oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor	1.32333392056778	bayes_pls_golite062009
NADH dehydrogenase activity	0.84569674518508	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.554599825830849	bayes_pls_golite062009
catalytic activity	0.513070432311783	bayes_pls_golite062009
NADH dehydrogenase (quinone) activity	0.463241887648122	bayes_pls_golite062009
oxidoreductase activity, acting on iron-sulfur proteins as donors	0.39909556472213	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor	0.314635495446813	bayes_pls_golite062009
oxidoreductase activity	0.0918357876652069	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [178-252]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PLWPQIPPSQ RIAIEREARR LAGYRQGREI CDRLLRHLSD DPTGNRVNTW LRDADDPRLN  60
   61 SIVQQLFRVL RGLHD

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

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: