YRC Public Data Repository - Protein Structure Prediction

Protein:	ATP6_SHIF8
Organism:	Shigella flexneri 5 str. 8401
Length:	271 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 ATP6_SHIF8.

Description	E-value	Query Range	Subject Range
ATP6_SALCH - ATP synthase subunit a OS=Salmonella choleraesuis (strain SC-B67) GN=atpB PE=3 SV=1 gi\|238913124 - gi\|238913124\|ref\|ZP_04656961.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica ser... ATP6_SALPA - ATP synthase subunit a OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=atpB PE=3 SV=1 ATP6_SALCH - ATP synthase subunit a OS=Salmonella choleraesuis GN=atpB PE=3 SV=1 ATP6_SALTY - ATP synthase subunit a OS=Salmonella typhimurium GN=atpB PE=3 SV=1 ATP6_SALA4 - ATP synthase subunit a OS=Salmonella agona (strain SL483) GN=atpB PE=3 SV=1 ATP6_SALSV - ATP synthase subunit a OS=Salmonella schwarzengrund (strain CVM19633) GN=atpB PE=3 SV=1 gi\|194458415, gi... - gi\|194472051\|ref\|ZP_03078035.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica sero... ATP6_SALHS - ATP synthase subunit a OS=Salmonella heidelberg (strain SL476) GN=atpB PE=3 SV=1 gi\|29143943, gi\|... - gi\|29143943\|ref\|NP_807285.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica serova... gi\|200388972, gi... - gi\|200388972\|ref\|ZP_03215584.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica sero... gi\|16762455 - gi\|16762455\|ref\|NP_458072.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica serova... ATP6_SALDC - ATP synthase subunit a OS=Salmonella dublin (strain CT_02021853) GN=atpB PE=3 SV=1 ATP6_SALTI - ATP synthase subunit a OS=Salmonella typhi GN=atpB PE=3 SV=1 ATP6_SALPK - ATP synthase subunit a OS=Salmonella paratyphi A (strain AKU_12601) GN=atpB PE=3 SV=1 ATP6_SALTY - ATP synthase subunit a OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=atpB PE=3 ... gi\|197265871, gi... - gi\|197265871\|ref\|ZP_03165945.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica sero... gi\|197287676, gi... - gi\|197287676\|gb\|EDY27067.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica serovar ... gi\|205331669, gi... - gi\|205331669\|gb\|EDZ18433.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica serovar ... gi\|205327323, gi... - gi\|205327323\|gb\|EDZ14087.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica serovar ... ATP6_SALPB - ATP synthase subunit a OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=atpB PE=3 SV=1 ATP6_SALNS - ATP synthase subunit a OS=Salmonella newport (strain SL254) GN=atpB PE=3 SV=1 gi\|168823136, gi... - gi\|205340561\|gb\|EDZ27325.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica serovar ... gi\|168464794, gi... - gi\|195632259\|gb\|EDX50743.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica serovar ... ATP6_SALPB - ATP synthase subunit a OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=atpB PE=3 SV=1 gi\|205348284, gi... - gi\|205348284\|gb\|EDZ34915.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica serovar ... gi\|81416159 - gi\|81416159\|sp\|Q7CPE3.1\|ATP6_SALTY RecName: Full=ATP synthase subunit a; AltName: Full=F-ATPase subu... ATP6_SALPA - ATP synthase subunit a OS=Salmonella paratyphi A GN=atpB PE=3 SV=1 gi\|75479642 - gi\|75479642\|sp\|Q57HX3.1\|ATP6_SALCH RecName: Full=ATP synthase subunit a; AltName: Full=F-ATPase subu... ATP6_SALPC - ATP synthase subunit a OS=Salmonella paratyphi C (strain RKS4594) GN=atpB PE=3 SV=1 gi\|81628043 - gi\|81628043\|sp\|Q8XGC2.1\|ATP6_SALTI RecName: Full=ATP synthase subunit a; AltName: Full=F-ATPase subu... gi\|213052664 - gi\|213052664\|ref\|ZP_03345542.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica ser... ATP6_SALEP - ATP synthase subunit a OS=Salmonella enteritidis PT4 (strain P125109) GN=atpB PE=3 SV=1 lcl\|NC_016856.1_... - [gene=atpB] [protein=F0F1 ATP synthase subunit A] [protein_id=YP_005240139.1] [location=complement(4... ATP6_SALG2 - ATP synthase subunit a OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=atpB PE=3 SV=1 gi\|204928835, gi... - gi\|204928835\|ref\|ZP_03220034.1\| ATP synthase F0, A subunit [Salmonella enterica subsp. enterica sero... gi\|214001330 - gi\|214001330\|ref\|ZP_03412065.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica ser... gi\|213649864 - gi\|213649864\|ref\|ZP_03379917.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica ser... gi\|213427464 - gi\|213427464\|ref\|ZP_03360214.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica ser... gi\|213418552 - gi\|213418552\|ref\|ZP_03351618.1\| F0F1 ATP synthase subunit A [Salmonella enterica subsp. enterica ser...	211.0	[0..1]	[271..1]
gi\|148143 - gi\|148143\|gb\|AAA24740.1\| ATPase, a subunit (EC 3.6.1.3)	211.0	[0..1]	[271..1]
ATP6_SHIDS - ATP synthase subunit a OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=atpB PE=3 SV=1	209.0	[0..1]	[271..1]
gi\|253775627, gi... - gi\|254290440\|ref\|YP_003056188.1\| F0F1 ATP synthase subunit A [Escherichia coli BL21(DE3)], gi\|253979... ATP6_ECO55 - ATP synthase subunit a OS=Escherichia coli (strain 55989 / EAEC) GN=atpB PE=3 SV=1 gi\|251787003, gi... - gi\|251787003\|ref\|YP_003001307.1\| hypothetical protein B21_03566 [Escherichia coli BL21], gi\|24237927... ATP6_ECO8A - ATP synthase subunit a OS=Escherichia coli O8 (strain IAI1) GN=atpB PE=3 SV=1 gi\|253975591, gi... - gi\|254163690\|ref\|YP_003046798.1\| F0F1 ATP synthase subunit A [Escherichia coli B str. REL606], gi\|25... gi\|217320685, gi... - gi\|217324464\|ref\|ZP_03440548.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. TW14588], ... ATP6_ECOSE - ATP synthase subunit a OS=Escherichia coli (strain SE11) GN=atpB PE=3 SV=1 gi\|226838922, gi... - gi\|254038957\|ref\|ZP_04873009.1\| ATP synthase F0 [Escherichia sp. 1_1_43], gi\|226838922\|gb\|EEH70949.1... gi\|254595144, gi... - gi\|254795744\|ref\|YP_003080581.1\| F0 sector of membrane-bound ATP synthase, subunit a [Escherichia co... gi\|124530048, gi... - gi\|124530048\|ref\|ZP_01700831.1\| ATP synthase F0, A subunit [Escherichia coli B], gi\|124499453\|gb\|EAY... gi\|194425230, gi... - gi\|194435687\|ref\|ZP_03067790.1\| ATP synthase F0, A subunit [Escherichia coli 101-1], gi\|194425230\|gb... gi\|194420554, gi... - gi\|194431099\|ref\|ZP_03063392.1\| ATP synthase F0, A subunit [Shigella dysenteriae 1012], gi\|194420554... gi\|194428080, gi... - gi\|194428080\|ref\|ZP_03060624.1\| ATP synthase F0, A subunit [Escherichia coli B171], gi\|194413838\|gb\|... gi\|192957452, gi... - gi\|193069128\|ref\|ZP_03050085.1\| ATP synthase F0, A subunit [Escherichia coli E110019], gi\|192957452\|... ATP6_ECO5E - ATP synthase subunit a OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=atpB PE=3 SV=1 gi\|208819680, gi... - gi\|208819680\|ref\|ZP_03260000.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4042], g... gi\|208735413, gi... - gi\|208814136\|ref\|ZP_03255465.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4045], g... gi\|208726296, gi... - gi\|208806495\|ref\|ZP_03248832.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4206], g... ATP6_SHISS - ATP synthase subunit a OS=Shigella sonnei (strain Ss046) GN=atpB PE=3 SV=1 gi\|89110269, gi\|... - gi\|89110269\|ref\|AP_004049.1\| F0 sector of membrane-bound ATP synthase, subunit a [Escherichia coli s... ATP6_ECO57 - ATP synthase subunit a OS=Escherichia coli O157:H7 GN=atpB PE=3 SV=1 EG10099 - F0 sector of membrane-bound ATP synthase, subunit a / ATP synthase subunit a, membrane-bound, F0 sec... gi\|15804338, gi\|... - gi\|15804338\|ref\|NP_290377.1\| F0F1 ATP synthase subunit A [Escherichia coli O157:H7 EDL933], gi\|12518... EG10099 - F0 sector of membrane-bound ATP synthase, subunit a / ATP synthase subunit a, membrane-bound, F0 sec... ATP6_ECOHS - ATP synthase subunit a OS=Escherichia coli O9:H4 (strain HS) GN=atpB PE=3 SV=1 ATP6_ECOLC - ATP synthase subunit a OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=atpB PE=3 SV=1 ATP6_ECO24 - ATP synthase subunit a OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=atpB PE=3 SV=1 gi\|168786581, gi... - gi\|189373447\|gb\|EDU91863.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC869], gi\|168... gi\|189002460, gi... - gi\|189002460\|gb\|EDU71446.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4076], gi\|16... gi\|187771397, gi... - gi\|187771397\|gb\|EDU35241.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4196], gi\|16... gi\|192930530, gi... - gi\|193063815\|ref\|ZP_03044902.1\| ATP synthase F0, A subunit [Escherichia coli E22], gi\|192930530\|gb\|E... gi\|188494931, gi... - gi\|188494931\|ref\|ZP_03002201.1\| ATP synthase F0, A subunit [Escherichia coli 53638], gi\|188490130\|gb... ATP6_SHIB3 - ATP synthase subunit a OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=atpB PE=3 SV=1 ATP6_ECODH - ATP synthase subunit a OS=Escherichia coli (strain K12 / DH10B) GN=atpB PE=3 SV=1 ATP6_ECOLI - ATP synthase a chain (EC 3.6.3.14) (ATPase protein 6) - Escherichia coli gi\|168766238, gi... - gi\|189364425\|gb\|EDU82844.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4486], gi\|16... gi\|189358852, gi... - gi\|189358852\|gb\|EDU77271.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4401], gi\|16... gi\|168748532, gi... - gi\|188016847\|gb\|EDU54969.1\| ATP synthase F0, A subunit [Escherichia coli O157:H7 str. EC4113], gi\|16... ATP6_ECOBW - ATP synthase subunit a OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=atpB PE=3 SV=1	209.0	[0..1]	[271..1]
ATP6_ECOUT - ATP synthase subunit a OS=Escherichia coli (strain UTI89 / UPEC) GN=atpB PE=3 SV=1 gi\|191170564, gi... - gi\|191170564\|ref\|ZP_03032117.1\| ATP synthase F0, A subunit [Escherichia coli F11], gi\|190909372\|gb\|E... ATP6_ECO27 - ATP synthase subunit a OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=atpB PE=3 SV=1 ATP6_ECOSM - ATP synthase subunit a OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=atpB PE=3 SV=1 ATP6_ECOL6 - ATP synthase subunit a OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=atpB PE=3 S... ATP6_ECOK1 - ATP synthase subunit a OS=Escherichia coli O1:K1 / APEC GN=atpB PE=3 SV=1 ATP6_ECOL5 - ATP synthase subunit a OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=atpB PE=3 SV=1 gi\|227839238, gi... - gi\|227883960\|ref\|ZP_04001765.1\| H(+)-transporting two-sector ATPase [Escherichia coli 83972], gi\|227... sp\|B7UMK3\|ATP6_ECO27 - ATP synthase subunit a OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=atpB PE=3 SV=1 gi\|237703539, gi... - gi\|237703539\|ref\|ZP_04534020.1\| ATP synthase subunit A [Escherichia sp. 3_2_53FAA], gi\|226902803\|gb\|... ATP6_ECOLU - ATP synthase subunit a OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=atpB PE=3 SV=1 ATP6_ECOL6 - ATP synthase subunit a OS=Escherichia coli O6 GN=atpB PE=3 SV=1 ATP6_ECO81 - ATP synthase subunit a OS=Escherichia coli O81 (strain ED1a) GN=atpB PE=3 SV=1 ATP6_ECO7I - ATP synthase subunit a OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=atpB PE=3 SV=1 ATP6_ESCF3 - ATP synthase subunit a OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=at... ATP6_ECO45 - ATP synthase subunit a OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=atpB PE=3 SV=1	209.0	[0..1]	[271..1]
gi\|6625697\|gb\|AA... - ATP synthase subunit a [Salmonella typhimurium] gi\|6625697 - gi\|6625697\|gb\|AAF19356.1\|AF188265_2 ATP synthase subunit a [Salmonella typhimurium]	209.0	[0..1]	[271..1]
gi\|15833934, gi\|... - gi\|15833934\|ref\|NP_312707.1\| F0F1 ATP synthase subunit A [Escherichia coli O157:H7 str. Sakai], gi\|1... gi\|25290551 - pir\|\|H91213 membrane-bound ATP synthase subunit a AtpB [imported] - Escherichia coli (strain O157:H7... gi\|15833934, gi\|... - gi\|15833934\|ref\|NP_312707.1\| ATP synthase subunit A [Escherichia coli O157:H7], gi\|13364155\|dbj\|BAB3...	209.0	[0..1]	[271..1]
ATP6_PHOLL - ATP synthase subunit a OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 105565 /... ATP6_PHOLL - ATP synthase subunit a OS=Photorhabdus luminescens subsp. laumondii GN=atpB PE=3 SV=1	204.0	[0..2]	[271..4]
ATP6_YERE8 - ATP synthase subunit a OS=Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 808... gi\|77977930 - gi\|77977930\|ref\|ZP_00833367.1\| COG0356: F0F1-type ATP synthase, subunit a [Yersinia intermedia ATCC ...	204.0	[0..2]	[271..4]

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Predicted Domain #1

Region A:
Residues: [1-69]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MASENMTPQD YIGHHLNNLQ LDLRTFSLVD PQNPPATFWT INIDSMFFSV VLGLLFLVLF  60
   61 RSVAKKATS

[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.

Predicted Domain #2

Region A:
Residues: [70-271]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GVPGKFQTAI ELVIGFVNGS VKDMYHGKSK LIAPLALTIF VWVFLMNLMD LLPIDLLPYI  60
   61 AEHVLGLPAL RVVPSADVNV TLSMALGVFI LILFYNIKMK GIGGFTKELT LQPFNHWAFI 120
  121 PVNLILEGVS LLSKPVSLGL RLFGNMYAGE LIFILIAGLL PWWSQWILNV PWAIFHILII 180
  181 TLQAFIFMVL TIVYLSMASE EH

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.221849
Match:	1c17M
Description:	F1F0 ATP synthase subunit A
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrogen ion transporting ATP synthase activity, rotational mechanism	14.916062574431	bayes_pls_golite062009
hydrogen ion transmembrane transporter activity	13.3765277511271	bayes_pls_golite062009
monovalent inorganic cation transmembrane transporter activity	11.6266555949852	bayes_pls_golite062009
inorganic cation transmembrane transporter activity	10.5141571800158	bayes_pls_golite062009
cation transmembrane transporter activity	6.7755175807552	bayes_pls_golite062009
ion transmembrane transporter activity	6.66886754588748	bayes_pls_golite062009
substrate-specific transmembrane transporter activity	6.24164033661356	bayes_pls_golite062009
proton-transporting ATPase activity, rotational mechanism	5.34968915140418	bayes_pls_golite062009
transporter activity	4.44683838532142	bayes_pls_golite062009
substrate-specific transporter activity	4.37473908570954	bayes_pls_golite062009
transmembrane transporter activity	4.36056336888635	bayes_pls_golite062009
cation-transporting ATPase activity	3.33662712450334	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of ions	1.11865103919948	bayes_pls_golite062009
primary active transmembrane transporter activity	0.517601509369888	bayes_pls_golite062009
active transmembrane transporter activity	0.511311810386796	bayes_pls_golite062009
P-P-bond-hydrolysis-driven transmembrane transporter activity	0.510137962484563	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances	0.476924701765357	bayes_pls_golite062009
ATPase activity, coupled to movement of substances	0.473395661531507	bayes_pls_golite062009
ATPase activity, coupled to transmembrane movement of substances	0.473285892250811	bayes_pls_golite062009
catalytic activity	0.276917867171685	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.242742762516199	bayes_pls_golite062009
pyrophosphatase activity	0.201337507209354	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.191294406773539	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.188721983770471	bayes_pls_golite062009
ATPase activity, coupled	0.110491424400621	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: