Psyllid ID: psy13776

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------54
Protein Sequence
MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYYR
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHccccHHHHcccHHHHHHHccccccccccHHHHHHHHHHHHccccccHHHEEcccccccccccEEEccccEEEEccHHHHHHHHcccccccEEEEEEcccccccccEEEEEEcccccccccccEEEEccEEEEEccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccHHHHHccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccccEEEEEEEEcccHHHHHHHHHHHcccccccEEEEEEEcccccccccccccccccHHHHHHHHcccEEEEEEccccHHHHHHHHHHHHcccccccccccccEEEEEHHHHHHHHHccccccccccccccccccccccEEEEEccccEEEccccEEEccccccccccccccccccccEEEccHHHHHcccEEEccccEEEEccccccccccccccccccccccccEEEcccHHHHHHHHHHHccccccccHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccHHHccccHHHHHHHHHccccEEcHHHcccEEEEEEEEEccccccccHHHHHHHHHccEEEEEcHHHHHHcccccEcccEEEEEcccccHHHHHHHHHHHcHHccccccccccccccccHHHHHHcccEcccEEEEEEcHHHHHccHHHEEEEEEcccccHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHcHHHHcccccccccEEEEEEEcccHHHHHHHHHHHHHHccHHHEEEEEEcccccHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcHHHHHHHHHHHHHHccccccHHHccccHHHHHHHHHccccEEcHHHcccEEEEEEEEEccccccccHHHHHHHHHccEEEEEcHHHHHHccEEEEccccEEEEEcccHHHcccccEEEEcccccEEEEcHHHcccEEccccccccEcccccEEccHHHHccHHHHHHHHHHccccccHHHHHHHcc
Coil and Loop (DISEMBL)
MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEErilgsapkAVAYRQMSLLlrrppgreaypgdvFYLHSRLLERSAkmseahgggsltalpvietqagdvsayiptnvisitdgqifleTELFYkvdrgsincgqliigdrqtgktALAIDTIINQKRKKRRRLLKYNLLSAGIkavdslvpigrgqreliigdrqtgktALAIDTIINQksiyaaplqylapysgcamgeffrdnGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSAtasdaaplqylapysgcamgeffrdnGKHALIIYDDLSKQAVAYRQMSLLlrrppgreaypgdvFYLHSRLLERSAkmseahgggsltalpvietqagdvsayiptnvisitdgqifLETELFYKGMAlnlepdnvgvvvfgndrlikegdivkrtgaivdvpvgeDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYYR
Flexible Loop (DISEMBL)
MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSIleerilgsapKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQliigdrqtgktalaidtiinqkrkkrRRLLKYNLLsagikavdslvpigrgqreliigdrqtgKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVaigqkrstvAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLlrrppgreayPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRlikegdivkrtgaivdvpvgeDLLGRVVDALGirpainvglsvsrvgsaAQTRamkqtgkirswngwlsllkqlyyr
Low Complexity Region (SEG)
MallsarlaaalaKNIPSSLNQANWAATQIASRKFNVsassraaeissileeRILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQkrkkrrrllkynllSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYYR
Disordered region (IsUnstruct)
**********************ANWAATQIA****************SILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE***********GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE***********GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYY*
Disordered Region (DISOPRED)
***********************************************SILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDT**************YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMS***GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYY*
Disordered Region (DISEMBL)
MALLSARLAAALAKNIPSSLNQANWAATQIASRK*********AEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSR*************GKIRSWNGWLSLLKQLYYR
Disordered Region (DISPRO)
****SARL***L***IPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYYR
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGKIRSWNGWLSLLKQLYYR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	539	2.2.26 [Sep-21-2011]
P35381	552	ATP synthase subunit alph	yes	N/A	0.758	0.740	0.528	1e-128
Q5R546	553	ATP synthase subunit alph	yes	N/A	0.699	0.681	0.526	1e-117
A5A6H5	553	ATP synthase subunit alph	yes	N/A	0.701	0.683	0.525	1e-117
P25705	553	ATP synthase subunit alph	yes	N/A	0.701	0.683	0.525	1e-117
P19483	553	ATP synthase subunit alph	yes	N/A	0.699	0.681	0.526	1e-117
P15999	553	ATP synthase subunit alph	yes	N/A	0.669	0.652	0.533	1e-115
Q03265	553	ATP synthase subunit alph	yes	N/A	0.675	0.658	0.530	1e-115
Q9XXK1	538	ATP synthase subunit alph	yes	N/A	0.725	0.726	0.483	1e-113
P08428	545	ATP synthase subunit alph	N/A	N/A	0.697	0.689	0.492	1e-107
Q2VZN0	509	ATP synthase subunit alph	yes	N/A	0.450	0.477	0.606	1e-105

>sp|P35381|ATPA_DROME ATP synthase subunit alpha, mitochondrial OS=Drosophila melanogaster GN=blw PE=1 SV=2

 Score =  457 bits (1176), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 285/539 (52%), Positives = 322/539 (59%), Gaps = 130/539 (24%)

Query: 1   MALLSARLAAALAKNIPSSLNQANW----AATQIASRKFNVSASSRAAEISSILEERILG 56
           M++ SARLA+++A+N+P + NQ        A  +A+RK +V+++ R+AEIS+ILEERILG
Sbjct: 1   MSIFSARLASSVARNLPKAANQVACKAAYPAASLAARKLHVASTQRSAEISNILEERILG 60

Query: 57  SAPKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPV 112
            APKA              GR    GD    V+ L++   +   + S    G +L   P 
Sbjct: 61  VAPKADL---------EETGRVLSIGDGIARVYGLNNIQADEMVEFSSGLKGMALNLEP- 110

Query: 113 IETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAI 170
                 +V   +  N   I  G I   T     V  G    G+++  +G+   GK A   
Sbjct: 111 -----DNVGVVVFGNDKLIKQGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGA--- 162

Query: 171 DTIINQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTA 221
              IN K + R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTA
Sbjct: 163 ---INTKDRFRVGIKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTA 219

Query: 222 LAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKK 281
           LAIDTIINQK    A                                       QDE KK
Sbjct: 220 LAIDTIINQKRFNEA---------------------------------------QDESKK 240

Query: 282 LYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR 341
           LYCIYVAIGQKRSTVAQIVKRLTDSGAMGY++IVSATASDAAPLQYLAPYSGCAMGE+FR
Sbjct: 241 LYCIYVAIGQKRSTVAQIVKRLTDSGAMGYSVIVSATASDAAPLQYLAPYSGCAMGEYFR 300

Query: 342 DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGG 401
           D GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKMS A GG
Sbjct: 301 DKGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSPAMGG 360

Query: 402 GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGND 461
           GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                  
Sbjct: 361 GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG------------------ 402

Query: 462 RLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQT 520
                                            IRPAINVGLSVSRVGSAAQT+AMKQ 
Sbjct: 403 ---------------------------------IRPAINVGLSVSRVGSAAQTKAMKQV 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.
Drosophila melanogaster (taxid: 7227)

>sp|Q5R546|ATPA_PONAB ATP synthase subunit alpha, mitochondrial OS=Pongo abelii GN=ATP5A1 PE=2 SV=1

 Score =  422 bits (1085), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 269/511 (52%), Positives = 300/511 (58%), Gaps = 134/511 (26%)

Query: 30  IASRKFNVSAS----SRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD-- 83
           IA+R F+ S +    +  AE+SSILEERILG A  +V   +         GR    GD  
Sbjct: 31  IAARNFHASNTHLQKTGTAEMSSILEERILG-ADTSVDLEET--------GRVLSIGDGI 81

Query: 84  --VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE 141
             V  L +   E   + S    G SL   P       +V   +  N   I +G I   T 
Sbjct: 82  ARVHGLRNVQAEEMVEFSSGLKGMSLNLEP------DNVGVVVFGNDKLIKEGDIVKRTG 135

Query: 142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQKRKKRRRL-LK----------YN 188
               V  G    G+++  +G+   GK  ++         K RRR+ LK            
Sbjct: 136 AIVDVPVGEELLGRVVDALGNAIDGKGPIS--------SKTRRRVGLKAPGIIPRISVRE 187

Query: 189 LLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCA 248
            +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                 
Sbjct: 188 PMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR---------------- 231

Query: 249 MGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGA 308
               F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ A
Sbjct: 232 ----FNDG-------------------SDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA 268

Query: 309 MGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLL 368
           M YTI+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLL
Sbjct: 269 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLL 328

Query: 369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI 428
           RRPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISI
Sbjct: 329 RRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISI 388

Query: 429 TDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGR 488
           TDGQIFLETELFYKG                                             
Sbjct: 389 TDGQIFLETELFYKG--------------------------------------------- 403

Query: 489 VVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                 IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 404 ------IRPAINVGLSVSRVGSAAQTRAMKQ 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Pongo abelii (taxid: 9601)

>sp|A5A6H5|ATPA_PANTR ATP synthase subunit alpha, mitochondrial OS=Pan troglodytes GN=ATP5A1 PE=2 SV=1

 Score =  421 bits (1083), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 268/510 (52%), Positives = 298/510 (58%), Gaps = 132/510 (25%)

Query: 30  IASRKFNVSAS----SRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD-- 83
           IA+R F+ S +    +  AE+SSILEERILG A  +V   +         GR    GD  
Sbjct: 31  IAARNFHASNTHLQKTGTAEMSSILEERILG-ADTSVDLEET--------GRVLSIGDGI 81

Query: 84  --VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE 141
             V  L +   E   + S    G SL   P       +V   +  N   I +G I   T 
Sbjct: 82  ARVHGLRNVQAEEMVEFSSGLKGMSLNLEP------DNVGVVVFGNDKLIKEGDIVKRTG 135

Query: 142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQKRKKRRRLLK----------YNL 189
               V  G    G+++  +G+   GK  +   T       +RR  LK             
Sbjct: 136 AIVDVPVGEELLGRVVDALGNAIDGKGPIGSKT-------RRRVGLKAPGIIPRISVREP 188

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                  
Sbjct: 189 MQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR----------------- 231

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
              F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM
Sbjct: 232 ---FNDG-------------------SDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAM 269

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLR
Sbjct: 270 KYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 329

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISIT
Sbjct: 330 RPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISIT 389

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLETELFYKG                                              
Sbjct: 390 DGQIFLETELFYKG---------------------------------------------- 403

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 404 -----IRPAINVGLSVSRVGSAAQTRAMKQ 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Pan troglodytes (taxid: 9598)

>sp|P25705|ATPA_HUMAN ATP synthase subunit alpha, mitochondrial OS=Homo sapiens GN=ATP5A1 PE=1 SV=1

 Score =  421 bits (1083), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 268/510 (52%), Positives = 298/510 (58%), Gaps = 132/510 (25%)

Query: 30  IASRKFNVSAS----SRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD-- 83
           IA+R F+ S +    +  AE+SSILEERILG A  +V   +         GR    GD  
Sbjct: 31  IAARNFHASNTHLQKTGTAEMSSILEERILG-ADTSVDLEET--------GRVLSIGDGI 81

Query: 84  --VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE 141
             V  L +   E   + S    G SL   P       +V   +  N   I +G I   T 
Sbjct: 82  ARVHGLRNVQAEEMVEFSSGLKGMSLNLEP------DNVGVVVFGNDKLIKEGDIVKRTG 135

Query: 142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQKRKKRRRLLK----------YNL 189
               V  G    G+++  +G+   GK  +   T       +RR  LK             
Sbjct: 136 AIVDVPVGEELLGRVVDALGNAIDGKGPIGSKT-------RRRVGLKAPGIIPRISVREP 188

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                  
Sbjct: 189 MQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR----------------- 231

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
              F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM
Sbjct: 232 ---FNDG-------------------SDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAM 269

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLR
Sbjct: 270 KYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 329

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISIT
Sbjct: 330 RPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISIT 389

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLETELFYKG                                              
Sbjct: 390 DGQIFLETELFYKG---------------------------------------------- 403

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 404 -----IRPAINVGLSVSRVGSAAQTRAMKQ 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Homo sapiens (taxid: 9606)

>sp|P19483|ATPA_BOVIN ATP synthase subunit alpha, mitochondrial OS=Bos taurus GN=ATP5A1 PE=1 SV=1

 Score =  421 bits (1082), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 269/511 (52%), Positives = 298/511 (58%), Gaps = 134/511 (26%)

Query: 30  IASRKFNVSAS----SRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD-- 83
           IA+R  + S S    +  AE+SSILEERILG A  +V   +         GR    GD  
Sbjct: 31  IAARNLHASNSRLQKTGTAEVSSILEERILG-ADTSVDLEET--------GRVLSIGDGI 81

Query: 84  --VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE 141
             V  L +   E   + S    G SL   P       +V   +  N   I +G I   T 
Sbjct: 82  ARVHGLRNVQAEEMVEFSSGLKGMSLNLEP------DNVGVVVFGNDKLIKEGDIVKRTG 135

Query: 142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQKRKKRRRL-LK----------YN 188
               V  G    G+++  +G+   GK  +          K RRR+ LK            
Sbjct: 136 AIVDVPVGEELLGRVVDALGNAIDGKGPIG--------SKARRRVGLKAPGIIPRISVRE 187

Query: 189 LLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCA 248
            +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                 
Sbjct: 188 PMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR---------------- 231

Query: 249 MGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGA 308
               F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ A
Sbjct: 232 ----FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA 268

Query: 309 MGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLL 368
           M YTI+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLL
Sbjct: 269 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLL 328

Query: 369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI 428
           RRPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISI
Sbjct: 329 RRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISI 388

Query: 429 TDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGR 488
           TDGQIFLETELFYKG                                             
Sbjct: 389 TDGQIFLETELFYKG--------------------------------------------- 403

Query: 489 VVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                 IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 404 ------IRPAINVGLSVSRVGSAAQTRAMKQ 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Bos taurus (taxid: 9913)

>sp|P15999|ATPA_RAT ATP synthase subunit alpha, mitochondrial OS=Rattus norvegicus GN=Atp5a1 PE=1 SV=2

 Score =  416 bits (1070), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 264/495 (53%), Positives = 289/495 (58%), Gaps = 134/495 (27%)

Query: 44  AEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMS 99
           AE+SSILEERILG A  +V   +         GR    GD    V  L +   E   + S
Sbjct: 49  AEMSSILEERILG-ADTSVDLEET--------GRVLSIGDGIARVHGLRNVQAEEMVEFS 99

Query: 100 EAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIG 159
               G SL   P       +V   +  N   I +G I   T     V           +G
Sbjct: 100 SGLKGMSLNLEP------DNVGVVVFGNDKLIKEGDIVKRTGAIVDVP----------VG 143

Query: 160 DRQTGKTALAIDTIINQK----RKKRRRL-LK----------YNLLSAGIKAVDSLVPIG 204
           D   G+   A+   I+ K     K RRR+ LK             +  GIKAVDSLVPIG
Sbjct: 144 DELLGRVVDALGNAIDGKGPVGSKIRRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIG 203

Query: 205 RGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIY 264
           RGQRELIIGDRQTGKT++AIDTIINQK                     F D         
Sbjct: 204 RGQRELIIGDRQTGKTSIAIDTIINQKR--------------------FNDG-------- 235

Query: 265 DDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAP 324
                       DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI+VSATASDAAP
Sbjct: 236 -----------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAP 284

Query: 325 LQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYL 384
           LQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYL
Sbjct: 285 LQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYL 344

Query: 385 HSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           HSRLLER+AKM+++ GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 
Sbjct: 345 HSRLLERAAKMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG- 403

Query: 445 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLS 504
                                                             IRPAINVGLS
Sbjct: 404 --------------------------------------------------IRPAINVGLS 413

Query: 505 VSRVGSAAQTRAMKQ 519
           VSRVGSAAQTRAMKQ
Sbjct: 414 VSRVGSAAQTRAMKQ 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Rattus norvegicus (taxid: 10116)

>sp|Q03265|ATPA_MOUSE ATP synthase subunit alpha, mitochondrial OS=Mus musculus GN=Atp5a1 PE=1 SV=1

 Score =  416 bits (1069), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 261/492 (53%), Positives = 289/492 (58%), Gaps = 128/492 (26%)

Query: 44  AEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMS 99
           AE+SSILEERILG A  +V   +         GR    GD    V  L +   E   + S
Sbjct: 49  AEMSSILEERILG-ADTSVDLEET--------GRVLSIGDGIARVHGLRNVQAEEMVEFS 99

Query: 100 EAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI-- 157
               G SL   P       +V   +  N   I +G +   T     V  G    G+++  
Sbjct: 100 SGLKGMSLNLEP------DNVGVVVFGNDKLIKEGDVVKRTGAIVDVPVGEELLGRVVDA 153

Query: 158 IGDRQTGKTALAIDTIINQKRKKRRRLLK----------YNLLSAGIKAVDSLVPIGRGQ 207
           +G+   GK  +   T       +RR  LK             +  GIKAVDSLVPIGRGQ
Sbjct: 154 LGNAIDGKGPIGSKT-------RRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQ 206

Query: 208 RELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDL 267
           RELIIGDRQTGKT++AIDTIINQK                     F D            
Sbjct: 207 RELIIGDRQTGKTSIAIDTIINQKR--------------------FNDG----------- 235

Query: 268 SKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQY 327
                    DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI+VSATASDAAPLQY
Sbjct: 236 --------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQY 287

Query: 328 LAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSR 387
           LAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSR
Sbjct: 288 LAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSR 347

Query: 388 LLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALN 447
           LLER+AKM+++ GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG    
Sbjct: 348 LLERAAKMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG---- 403

Query: 448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSR 507
                                                          IRPAINVGLSVSR
Sbjct: 404 -----------------------------------------------IRPAINVGLSVSR 416

Query: 508 VGSAAQTRAMKQ 519
           VGSAAQTRAMKQ
Sbjct: 417 VGSAAQTRAMKQ 428

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Mus musculus (taxid: 10090)

>sp|Q9XXK1|ATPA_CAEEL ATP synthase subunit alpha, mitochondrial OS=Caenorhabditis elegans GN=H28O16.1 PE=1 SV=1

 Score =  410 bits (1054), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 256/529 (48%), Positives = 300/529 (56%), Gaps = 138/529 (26%)

Query: 12  LAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPKAVAYRQMSLLL 71
           L+K I ++LN A        +      A +  +E+S ILEERILG+              
Sbjct: 2   LSKRIVTALNTAVKVQNAGIATTARGMAGASGSEVSKILEERILGTET------------ 49

Query: 72  RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAG-----------DV 120
                     G       ++L     ++  +G  ++ A  ++E  +G           +V
Sbjct: 50  ----------GINLEETGKVLSIGDGIARVYGLKNIQAEEMVEFDSGIKGMAMNLDVDNV 99

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQKR 178
              +  N   I +G I   T     V  G    G+++  +G+   GK  +A     N +R
Sbjct: 100 GVVVFGNDKVIREGDIVKRTGAIVDVPVGDGLLGRVVDALGNPIDGKGPIA-----NARR 154

Query: 179 KKRR--------RLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ 230
            +          RL     +  G+KAVDSLVPIGRGQRELIIGDRQTGKTA+AIDTIINQ
Sbjct: 155 SRVEVKAPGIIPRLSVREPMVTGVKAVDSLVPIGRGQRELIIGDRQTGKTAIAIDTIINQ 214

Query: 231 KSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIG 290
           K                     F D G                   D+KKKL+CIYVA+G
Sbjct: 215 KR--------------------FNDAG-------------------DDKKKLFCIYVAVG 235

Query: 291 QKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII 350
           QKRSTVAQIVKRLTD+GAM YTI+VSATASDAAPLQ+LAPYSGCAMGE FRDNGKHALII
Sbjct: 236 QKRSTVAQIVKRLTDAGAMDYTIVVSATASDAAPLQFLAPYSGCAMGEHFRDNGKHALII 295

Query: 351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVI 410
           +DDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM+ + GGGSLTALPVI
Sbjct: 296 FDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNNSLGGGSLTALPVI 355

Query: 411 ETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIV 470
           ETQAGDVSAYIPTNVISITDGQIFLETELFYKG                           
Sbjct: 356 ETQAGDVSAYIPTNVISITDGQIFLETELFYKG--------------------------- 388

Query: 471 KRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                   +RPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 389 ------------------------VRPAINVGLSVSRVGSAAQTKAMKQ 413

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Caenorhabditis elegans (taxid: 6239)

>sp|P08428|ATPA_XENLA ATP synthase subunit alpha, mitochondrial OS=Xenopus laevis GN=atp5a PE=2 SV=1

 Score =  390 bits (1003), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 258/524 (49%), Positives = 286/524 (54%), Gaps = 148/524 (28%)

Query: 20  LNQANWAATQIASRKFNVSA-----SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRP 74
           +++    A  +A+R  + S       S  AE+SSILEERILG+   A             
Sbjct: 21  VSKKALGAAFVATRNIHASGVWPPEKSGTAEVSSILEERILGADTTADL---------EE 71

Query: 75  PGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVIS 130
            GR    GD    V+ L +   E   + S    G SL   P       +V      N   
Sbjct: 72  TGRVLSIGDGIARVYGLRNVQAEEMVEFSSGLKGMSLNLEP------DNVGVVGLANDKL 125

Query: 131 ITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQK----RKKRRRL-L 185
           I +G I   T     V           +GD   G+   A+   I+ K     K RRR+ L
Sbjct: 126 IKEGDIVKRTGAIVDVP----------VGDELLGRVVDALGNTIDGKGPIGSKTRRRVGL 175

Query: 186 K----------YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYA 235
           K             +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK    
Sbjct: 176 KAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR--- 232

Query: 236 APLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRST 295
                            F D                     DEKKKLYCIYVAIGQKR  
Sbjct: 233 -----------------FNDG-------------------TDEKKKLYCIYVAIGQKR-- 254

Query: 296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLS 355
                  LTD+ AM YTI+VS TASDAAPLQYLAPYSGC+MGE+FRDNG HALIIYDDLS
Sbjct: 255 -------LTDADAMKYTIVVSRTASDAAPLQYLAPYSGCSMGEYFRDNGTHALIIYDDLS 307

Query: 356 KQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAG 415
           KQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM++  GGGSLTALPVIETQAG
Sbjct: 308 KQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDHFGGGSLTALPVIETQAG 367

Query: 416 DVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGA 475
           DVSAYIPTNVISITDGQIFLETELFYKG                                
Sbjct: 368 DVSAYIPTNVISITDGQIFLETELFYKG-------------------------------- 395

Query: 476 IVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                              IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 396 -------------------IRPAINVGLSVSRVGSAAQTRAMKQ 420

Mitochondrial membrane ATP synthase (F(1)F(0) ATP synthase or Complex V) produces ATP from ADP in the presence of a proton gradient across the membrane which is generated by electron transport complexes of the respiratory chain. F-type ATPases consist of two structural domains, F(1) - containing the extramembraneous catalytic core, and F(0) - containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation. Subunits alpha and beta form the catalytic core in F(1). Rotation of the central stalk against the surrounding alpha(3)beta(3) subunits leads to hydrolysis of ATP in three separate catalytic sites on the beta subunits. Subunit alpha does not bear the catalytic high-affinity ATP-binding sites.

Xenopus laevis (taxid: 8355)

>sp|Q2VZN0|ATPA_MAGSA ATP synthase subunit alpha OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=atpA PE=3 SV=1

 Score =  383 bits (984), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 202/333 (60%), Positives = 223/333 (66%), Gaps = 90/333 (27%)

Query: 187 YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSG 246
           +  +S GIKAVD+L+PIGRGQREL+IGDRQTGKTA+ +DTIINQK  + A          
Sbjct: 143 HEPMSTGIKAVDALIPIGRGQRELVIGDRQTGKTAILVDTIINQKRWHDA---------- 192

Query: 247 CAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDS 306
                                         DEK KL+CIYVA+GQKRSTVAQIVK LTD 
Sbjct: 193 -----------------------------NDEKAKLFCIYVAVGQKRSTVAQIVKTLTDY 223

Query: 307 GAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSL 366
           GAM YTI+V+ATAS+ APLQ++APY+GC MGE+FRDNG HALIIYDDLSKQAVAYRQMSL
Sbjct: 224 GAMDYTIVVAATASEPAPLQFIAPYAGCTMGEYFRDNGMHALIIYDDLSKQAVAYRQMSL 283

Query: 367 LLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVI 426
           LLRRPPGREAYPGDVFYLHSRLLER+AKM +A G GSLTALPVIETQA DVSAYIPTNVI
Sbjct: 284 LLRRPPGREAYPGDVFYLHSRLLERAAKMGDAAGAGSLTALPVIETQANDVSAYIPTNVI 343

Query: 427 SITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLL 486
           SITDGQIFLETELFYKG                                           
Sbjct: 344 SITDGQIFLETELFYKG------------------------------------------- 360

Query: 487 GRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                   IRPA+NVGLSVSRVGSAAQ +AMKQ
Sbjct: 361 --------IRPAVNVGLSVSRVGSAAQIKAMKQ 385

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.

Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) (taxid: 342108)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	539
383860333	547	PREDICTED: ATP synthase subunit alpha, m	0.755	0.744	0.541	1e-129
91087467	551	PREDICTED: similar to AGAP005134-PA isof	0.756	0.740	0.534	1e-128
48100966	547	PREDICTED: ATP synthase subunit alpha, m	0.755	0.744	0.539	1e-128
322785985	544	hypothetical protein SINV_08923 [Solenop	0.756	0.75	0.549	1e-128
195121302	550	GI20326 [Drosophila mojavensis] gi|19391	0.755	0.74	0.536	1e-127
170032139	551	conserved hypothetical protein [Culex qu	0.768	0.751	0.540	1e-127
195383092	550	GJ22050 [Drosophila virilis] gi|19414505	0.753	0.738	0.535	1e-127
269784695	546	ATP synthase subunit alpha, mitochondria	0.755	0.745	0.532	1e-127
195488017	552	GE14023 [Drosophila yakuba] gi|194178237	0.758	0.740	0.530	1e-127
52630965	551	putative mitochondrial ATP synthase alph	0.756	0.740	0.530	1e-127

>gi|383860333|ref|XP_003705645.1| PREDICTED: ATP synthase subunit alpha, mitochondrial-like isoform 1 [Megachile rotundata]

 Score =  466 bits (1200), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 289/534 (54%), Positives = 324/534 (60%), Gaps = 127/534 (23%)

Query: 1   MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPK 60
           MALLS RLA+++A+ +P++  Q  W   ++AS K++VS S R+AEISSILE+RILGSAPK
Sbjct: 1   MALLSLRLASSIARQLPNATIQVKWP-LRVASCKYHVSCSRRSAEISSILEDRILGSAPK 59

Query: 61  AVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ 116
                          GR    GD    V+ L +   +   + S    G +L   P     
Sbjct: 60  TNL---------EETGRVLSIGDGIARVYGLKNIQADEMVEFSSGLKGMALNLEP----- 105

Query: 117 AGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII 174
             +V   +  N   I +G I   T     V  G    G+++  +G+   GK  L      
Sbjct: 106 -DNVGVVVFGNDRHIREGDIVKRTGAIVDVPVGEELLGRVVDALGNPIDGKGPL------ 158

Query: 175 NQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAID 225
           N K++ R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALAID
Sbjct: 159 NSKQRFRIGTKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALAID 218

Query: 226 TIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCI 285
           TIINQK                     F D G                   DEKKKLYCI
Sbjct: 219 TIINQKR--------------------FNDAG-------------------DEKKKLYCI 239

Query: 286 YVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK 345
           YVAIGQKRSTVAQIVKRLTDSGA+ YTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK
Sbjct: 240 YVAIGQKRSTVAQIVKRLTDSGAINYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK 299

Query: 346 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLT 405
           HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM+E+ GGGSLT
Sbjct: 300 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNESLGGGSLT 359

Query: 406 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIK 465
           ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                      
Sbjct: 360 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG---------------------- 397

Query: 466 EGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                        IRPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 398 -----------------------------IRPAINVGLSVSRVGSAAQTKAMKQ 422

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91087467|ref|XP_966334.1| PREDICTED: similar to AGAP005134-PA isoform 1 [Tribolium castaneum] gi|270010980|gb|EFA07428.1| hypothetical protein TcasGA2_TC008728 [Tribolium castaneum]

 Score =  466 bits (1200), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 287/537 (53%), Positives = 327/537 (60%), Gaps = 129/537 (24%)

Query: 1   MALLSARLAAALAKNIPSSLNQAN---WAATQIASRKFNVSASSRAAEISSILEERILGS 57
           M+LLS RLAA++A+ +P+++ Q     + AT +A+RK +V+ ++R AEISSILEERILG+
Sbjct: 1   MSLLSVRLAASVARRLPNNVAQVAGVAFPATSVAARKLHVTPNNRGAEISSILEERILGA 60

Query: 58  APKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVI 113
           APKA              GR    GD    V+ L +   +   + S    G +L   P  
Sbjct: 61  APKADLDET---------GRVLSIGDGIARVYGLKNIQADEMVEFSSGLKGMALNLEP-- 109

Query: 114 ETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAID 171
                +V   +  N   I +G I   T     V  G    G+++  +G+   GK      
Sbjct: 110 ----DNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGP---- 161

Query: 172 TIINQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTAL 222
             IN K++ R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTAL
Sbjct: 162 --INTKQRFRVGIKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTAL 219

Query: 223 AIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKL 282
           AIDTIINQK                     F D                     DEKKKL
Sbjct: 220 AIDTIINQKR--------------------FNDA-------------------DDEKKKL 240

Query: 283 YCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD 342
           YCIYVAIGQKRSTVAQI+KRLTD+GA+ YTIIVSATASDAAPLQYLAPYSGCAMGE+FRD
Sbjct: 241 YCIYVAIGQKRSTVAQILKRLTDTGAINYTIIVSATASDAAPLQYLAPYSGCAMGEYFRD 300

Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKMS+AHGGG
Sbjct: 301 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSDAHGGG 360

Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDR 462
           SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                   
Sbjct: 361 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG------------------- 401

Query: 463 LIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                           IRPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 402 --------------------------------IRPAINVGLSVSRVGSAAQTKAMKQ 426

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|48100966|ref|XP_392639.1| PREDICTED: ATP synthase subunit alpha, mitochondrial isoform 1 [Apis mellifera]

 Score =  465 bits (1196), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 288/534 (53%), Positives = 323/534 (60%), Gaps = 127/534 (23%)

Query: 1   MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPK 60
           MALLS RL +++A+ +P++  Q  W  + I+S K++VS S R+AEISSILEERILG++PK
Sbjct: 1   MALLSLRLVSSIARQLPNTTIQVKWPLS-ISSCKYHVSCSRRSAEISSILEERILGASPK 59

Query: 61  AVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ 116
           A              GR    GD    V+ L +   +   + S    G +L   P     
Sbjct: 60  ANL---------EETGRVLSIGDGIARVYGLKNIQADEMVEFSSGLKGMALNLEP----- 105

Query: 117 AGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII 174
             +V   +  N   I +G I   T     V  G    G+++  +G+   GK  L      
Sbjct: 106 -DNVGVVVFGNDRHIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNPIDGKGPL------ 158

Query: 175 NQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAID 225
           N K + R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALAID
Sbjct: 159 NSKLRFRIGTKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALAID 218

Query: 226 TIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCI 285
           TIINQK                     F D G                   +EKKKLYCI
Sbjct: 219 TIINQKR--------------------FNDAG-------------------EEKKKLYCI 239

Query: 286 YVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK 345
           YVAIGQKRSTVAQIVKRLTDSGAM YTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK
Sbjct: 240 YVAIGQKRSTVAQIVKRLTDSGAMDYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK 299

Query: 346 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLT 405
           HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM+E+ GGGSLT
Sbjct: 300 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNESLGGGSLT 359

Query: 406 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIK 465
           ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                      
Sbjct: 360 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG---------------------- 397

Query: 466 EGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                        IRPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 398 -----------------------------IRPAINVGLSVSRVGSAAQTKAMKQ 422

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322785985|gb|EFZ12601.1| hypothetical protein SINV_08923 [Solenopsis invicta]

 Score =  463 bits (1192), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 291/530 (54%), Positives = 324/530 (61%), Gaps = 122/530 (23%)

Query: 1   MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPK 60
           MALLS RL ++LA+++P++  Q NW    IASRK++VS S R+AEIS+ILEERILGSAPK
Sbjct: 1   MALLSLRLVSSLARHLPNTTVQINWPVATIASRKYHVSCSRRSAEISAILEERILGSAPK 60

Query: 61  AVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ 116
           A              GR    GD    V+ L +   +   + S    G +L   P     
Sbjct: 61  ANL---------EETGRVLSIGDGIARVYGLKNIQADEMVEFSSGLKGMALNLEP----- 106

Query: 117 AGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII 174
             +V   +  N   I +G I   T     V  G    G+++  +G+   GK  L      
Sbjct: 107 -DNVGVVVFGNDRHIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNPIDGKGPL------ 159

Query: 175 NQKRK-----KRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN 229
           N K +     K   ++    +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN
Sbjct: 160 NSKLRFRIGTKAPGIIPREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN 219

Query: 230 QKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAI 289
           QK                     F D G                   +EKKKLYCIYVAI
Sbjct: 220 QKR--------------------FNDGG-------------------EEKKKLYCIYVAI 240

Query: 290 GQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALI 349
           GQKRSTVAQIVKRLTDSGA+ YTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALI
Sbjct: 241 GQKRSTVAQIVKRLTDSGAINYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALI 300

Query: 350 IYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPV 409
           IYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM+E  GGGSLTALPV
Sbjct: 301 IYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNENLGGGSLTALPV 360

Query: 410 IETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDI 469
           IETQAGDVSAYIPTNVISITDGQIFLETELFYKG                          
Sbjct: 361 IETQAGDVSAYIPTNVISITDGQIFLETELFYKG-------------------------- 394

Query: 470 VKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                    IRPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 395 -------------------------IRPAINVGLSVSRVGSAAQTKAMKQ 419

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195121302|ref|XP_002005159.1| GI20326 [Drosophila mojavensis] gi|193910227|gb|EDW09094.1| GI20326 [Drosophila mojavensis]

 Score =  462 bits (1188), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 288/537 (53%), Positives = 323/537 (60%), Gaps = 130/537 (24%)

Query: 3   LLSARLAAALAKNIPSSLNQAN----WAATQIASRKFNVSASSRAAEISSILEERILGSA 58
           ++SARLA+++A+N+P +  Q      + A  +A+RKF+V+++ R+AEIS+ILEERILG A
Sbjct: 1   MISARLASSVARNLPKAAAQVACKAAYPAGTLAARKFHVASTQRSAEISNILEERILGVA 60

Query: 59  PKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIE 114
           PKA              GR    GD    V+ L++   +   + S    G +L   P   
Sbjct: 61  PKADL---------EETGRVLSIGDGIARVYGLNNIQADEMVEFSSGLKGMALNLEP--- 108

Query: 115 TQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDT 172
               +V   +  N   I  G I   T     V  G    G+++  +G+   GK A     
Sbjct: 109 ---DNVGVVVFGNDKLIKQGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGA----- 160

Query: 173 IINQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALA 223
            IN K + R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALA
Sbjct: 161 -INTKDRFRVGIKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALA 219

Query: 224 IDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLY 283
           IDTIINQK                     F D                    QDE KKLY
Sbjct: 220 IDTIINQKR--------------------FNDG-------------------QDESKKLY 240

Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN 343
           CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD 
Sbjct: 241 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDK 300

Query: 344 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGS 403
           GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKMS A GGGS
Sbjct: 301 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSPAMGGGS 360

Query: 404 LTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRL 463
           LTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                    
Sbjct: 361 LTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG-------------------- 400

Query: 464 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQT 520
                                          IRPAINVGLSVSRVGSAAQT+AMKQ 
Sbjct: 401 -------------------------------IRPAINVGLSVSRVGSAAQTKAMKQV 426

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170032139|ref|XP_001843940.1| conserved hypothetical protein [Culex quinquefasciatus] gi|167871889|gb|EDS35272.1| conserved hypothetical protein [Culex quinquefasciatus]

 Score =  462 bits (1188), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 287/531 (54%), Positives = 322/531 (60%), Gaps = 117/531 (22%)

Query: 1   MALLSARLAAALAKNIPSSLNQ-ANWA--ATQIASRKFNVSASSRAAEISSILEERILGS 57
           M++LSAR AA +A+ +P + +Q A  A  A Q+A+R  +VSA++R AEISSILEERILGS
Sbjct: 1   MSMLSARFAAQVARQLPRTASQVAKIAVPAVQVAARNLHVSAANRGAEISSILEERILGS 60

Query: 58  APKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVI 113
           APKA              GR    GD    V+ L +   +   + S    G +L   P  
Sbjct: 61  APKADL---------EETGRVLSIGDGIARVYGLKNIQADEMVEFSSGLKGMALNLEP-- 109

Query: 114 ETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAID 171
                +V   +  N   I +G I   T     V  G    G+++  +G+   GK  +   
Sbjct: 110 ----DNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGDEILGRVVDALGNAIDGKGEIKTG 165

Query: 172 TIINQKRKKRRRLLKYNL---LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTII 228
                  K    + + ++   +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTII
Sbjct: 166 QRFRVGIKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTII 225

Query: 229 NQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVA 288
           NQK                     F D                    QDE KKLYCIYVA
Sbjct: 226 NQKR--------------------FNDG-------------------QDESKKLYCIYVA 246

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHAL 348
           IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGE+FRDNGKHAL
Sbjct: 247 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEYFRDNGKHAL 306

Query: 349 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALP 408
           IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM+   GGGSLTALP
Sbjct: 307 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNPTLGGGSLTALP 366

Query: 409 VIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGD 468
           VIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                         
Sbjct: 367 VIETQAGDVSAYIPTNVISITDGQIFLETELFYKG------------------------- 401

Query: 469 IVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                     IRPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 402 --------------------------IRPAINVGLSVSRVGSAAQTKAMKQ 426

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195383092|ref|XP_002050260.1| GJ22050 [Drosophila virilis] gi|194145057|gb|EDW61453.1| GJ22050 [Drosophila virilis]

 Score =  462 bits (1188), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 287/536 (53%), Positives = 325/536 (60%), Gaps = 130/536 (24%)

Query: 3   LLSARLAAALAKNIPSSLNQAN----WAATQIASRKFNVSASSRAAEISSILEERILGSA 58
           ++SARLA+++A+N+P +  Q      + AT +A+RK +V+++ R+AEISS+LEERILG A
Sbjct: 1   MISARLASSVARNLPKAAAQVACKAAYPATSLAARKLHVASTQRSAEISSVLEERILGVA 60

Query: 59  PKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIE 114
           PKA              GR    GD    V+ L++   +   + S    G +L       
Sbjct: 61  PKADL---------EETGRVLSIGDGIARVYGLNNIQADEMVEFSSGLKGMALN------ 105

Query: 115 TQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDT 172
            +A +V   +  N   I  G I   T     V  G+   G+++  +G+   GK A     
Sbjct: 106 LEADNVGVVVFGNDKLIKQGDIVKRTGAIVDVPVGNELLGRVVDALGNAIDGKGA----- 160

Query: 173 IINQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALA 223
            IN K + R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALA
Sbjct: 161 -INTKDRFRVGIKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALA 219

Query: 224 IDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLY 283
           IDTIINQK                     F D                    QDE KKLY
Sbjct: 220 IDTIINQKR--------------------FNDG-------------------QDESKKLY 240

Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN 343
           CIYVAIGQKRSTVAQI+KRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD 
Sbjct: 241 CIYVAIGQKRSTVAQILKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDK 300

Query: 344 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGS 403
           GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKMS A GGGS
Sbjct: 301 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSPAMGGGS 360

Query: 404 LTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRL 463
           LTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                    
Sbjct: 361 LTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG-------------------- 400

Query: 464 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                          IRPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 401 -------------------------------IRPAINVGLSVSRVGSAAQTKAMKQ 425

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|269784695|ref|NP_001161449.1| ATP synthase subunit alpha, mitochondrial [Nasonia vitripennis]

 Score =  461 bits (1187), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 285/535 (53%), Positives = 324/535 (60%), Gaps = 128/535 (23%)

Query: 1   MALLSARLAAALAKNIPSSLNQANWAATQIASRKFNVSASSRAAEISSILEERILGSAPK 60
           MALL+ RLAA++A+ +PS+  Q +W A  +ASRK++VS S R+AEISSILEERILG++ K
Sbjct: 1   MALLTVRLAASVARQLPST--QVSWPAAVVASRKYHVSCSRRSAEISSILEERILGASSK 58

Query: 61  AVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ 116
           A              GR    GD    V+ L +   +   + S    G +L   P     
Sbjct: 59  ANL---------EETGRVLSIGDGIARVYGLKNIQADEMVEFSSGLKGMALNLEP----- 104

Query: 117 AGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII 174
             +V   +  N   I +G I   T     V  G+   G+++  +G+   GK  L      
Sbjct: 105 -DNVGIVVFGNDRHIKEGDIVKRTGAIVDVPVGNELLGRVVDALGNPIDGKGPL------ 157

Query: 175 NQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAID 225
           N K + R          R      +  GIKAVDSLVPIGRGQRELIIGDRQTGKTALAID
Sbjct: 158 NNKLRFRIGTKAPGIIPRESVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTALAID 217

Query: 226 TIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCI 285
           TIINQK                     F + G                   DE KKLYCI
Sbjct: 218 TIINQKR--------------------FNEGG-------------------DENKKLYCI 238

Query: 286 YVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK 345
           YVA+GQKRSTVAQIVKRLTD+GA+ Y+IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK
Sbjct: 239 YVAVGQKRSTVAQIVKRLTDAGAINYSIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK 298

Query: 346 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLT 405
           HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM+++ GGGSLT
Sbjct: 299 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNKSLGGGSLT 358

Query: 406 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIK 465
           ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                      
Sbjct: 359 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG---------------------- 396

Query: 466 EGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQT 520
                                        IRPAINVGLSVSRVGSAAQT+AMKQ 
Sbjct: 397 -----------------------------IRPAINVGLSVSRVGSAAQTKAMKQV 422

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195488017|ref|XP_002092136.1| GE14023 [Drosophila yakuba] gi|194178237|gb|EDW91848.1| GE14023 [Drosophila yakuba]

 Score =  461 bits (1185), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 286/539 (53%), Positives = 324/539 (60%), Gaps = 130/539 (24%)

Query: 1   MALLSARLAAALAKNIPSSLNQANW----AATQIASRKFNVSASSRAAEISSILEERILG 56
           M+++SARLA+++A+N+P + NQ        A  +A+RKF+V+++ R+AEIS+ILEERILG
Sbjct: 1   MSMISARLASSVARNLPKAANQVACKAAYPAASLAARKFHVASTQRSAEISNILEERILG 60

Query: 57  SAPKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPV 112
            APKA              GR    GD    V+ L++   +   + S    G +L   P 
Sbjct: 61  VAPKADL---------EETGRVLSIGDGIARVYGLNNIQADEMVEFSSGLKGMALNLEP- 110

Query: 113 IETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAI 170
                 +V   +  N   I  G I   T     V  G    G+++  +G+   GK A   
Sbjct: 111 -----DNVGVVVFGNDKLIKQGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGA--- 162

Query: 171 DTIINQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTA 221
              IN K + R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTA
Sbjct: 163 ---INTKDRFRVGIKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTA 219

Query: 222 LAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKK 281
           LAIDTIINQK    A                                       QDE KK
Sbjct: 220 LAIDTIINQKRFNEA---------------------------------------QDESKK 240

Query: 282 LYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR 341
           LYCIYVAIGQKRSTVAQIVKRLTDSGAMGY++IVSATASDAAPLQYLAPYSGCAMGE+FR
Sbjct: 241 LYCIYVAIGQKRSTVAQIVKRLTDSGAMGYSVIVSATASDAAPLQYLAPYSGCAMGEYFR 300

Query: 342 DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGG 401
           D GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKMS A GG
Sbjct: 301 DKGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSPAMGG 360

Query: 402 GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGND 461
           GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                  
Sbjct: 361 GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG------------------ 402

Query: 462 RLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQT 520
                                            IRPAINVGLSVSRVGSAAQT+AMKQ 
Sbjct: 403 ---------------------------------IRPAINVGLSVSRVGSAAQTKAMKQV 428

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|52630965|gb|AAU84946.1| putative mitochondrial ATP synthase alpha subunit precursor [Toxoptera citricida]

 Score =  460 bits (1184), Expect = e-127,   Method: Compositional matrix adjust.
 Identities = 285/537 (53%), Positives = 319/537 (59%), Gaps = 129/537 (24%)

Query: 1   MALLSARLAAALAKNIPSSLNQ---ANWAATQIASRKFNVSASSRAAEISSILEERILGS 57
           MA LS RLA  + K + ++L Q   A+W  +++ SR  +++ S+RAAEISSILEERILG+
Sbjct: 1   MANLSLRLATKIGKQLNNTLPQISKASWTTSKLISRSLHITCSARAAEISSILEERILGA 60

Query: 58  APKAVAYRQMSLLLRRPPGREAYPGD----VFYLHSRLLERSAKMSEAHGGGSLTALPVI 113
            PKA              GR    GD    V+ L +   E   + S    G +L   P  
Sbjct: 61  PPKADL---------EETGRVLSIGDGIARVYGLKNVQAEEMVEFSSGLKGMALNLEP-- 109

Query: 114 ETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAID 171
                +V   +  N   I +G +   T     V  G    G+++  +G+   GK  L   
Sbjct: 110 ----DNVGVVVFGNDKLIKEGDVVKRTGAIVDVPVGEDLLGRVVDALGNTIDGKGPL--- 162

Query: 172 TIINQKRKKR---------RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTAL 222
                K + R          R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKTAL
Sbjct: 163 ---TSKLRYRVGIKAPGIIPRVSVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTAL 219

Query: 223 AIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKL 282
           AIDTIINQK                     F D                    QDEKKKL
Sbjct: 220 AIDTIINQKR--------------------FNDA-------------------QDEKKKL 240

Query: 283 YCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD 342
           YCIYVAIGQKRSTVAQIVKRLTD+GA+ YTIIVSATASDAAPLQYLAPYSGCAMGEFFRD
Sbjct: 241 YCIYVAIGQKRSTVAQIVKRLTDTGAIKYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD 300

Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKMSE  GGG
Sbjct: 301 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMSETLGGG 360

Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDR 462
           SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG                   
Sbjct: 361 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG------------------- 401

Query: 463 LIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ 519
                                           +RPAINVGLSVSRVGSAAQT+AMKQ
Sbjct: 402 --------------------------------VRPAINVGLSVSRVGSAAQTKAMKQ 426

Source: Toxoptera citricida

Species: Toxoptera citricida

Genus: Toxoptera

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	539
FB|FBgn0011211	552	blw "bellwether" [Drosophila m	0.361	0.353	0.852	1.5e-104
UNIPROTKB|P25705	553	ATP5A1 "ATP synthase subunit a	0.361	0.352	0.822	6e-99
UNIPROTKB|A5A6H5	553	ATP5A1 "ATP synthase subunit a	0.361	0.352	0.822	6e-99
UNIPROTKB|Q5R546	553	ATP5A1 "ATP synthase subunit a	0.361	0.352	0.822	6e-99
UNIPROTKB|K7EK63	449	ATP5A1 "ATP synthase subunit a	0.361	0.434	0.822	6e-99
UNIPROTKB|K7ENP3	531	ATP5A1 "ATP synthase subunit a	0.361	0.367	0.822	6e-99
UNIPROTKB|F1MLB8	553	ATP5A1 "ATP synthase subunit a	0.361	0.352	0.822	7.6e-99
UNIPROTKB|P19483	553	ATP5A1 "ATP synthase subunit a	0.361	0.352	0.822	7.6e-99
UNIPROTKB|F1RPS8	533	ATP5A1 "ATP synthase subunit a	0.361	0.365	0.822	7.6e-99
UNIPROTKB|F1NGA2	555	ATP5A1W "ATP synthase subunit	0.361	0.351	0.817	1.6e-98

FB|FBgn0011211 blw "bellwether" [Drosophila melanogaster (taxid:7227)]

 Score = 836 (299.3 bits), Expect = 1.5e-104, Sum P(2) = 1.5e-104
 Identities = 168/197 (85%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK AL I   ++++     QDE KKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGY++
Sbjct:   213 RQTGKTALAIDTIINQKRFNEAQDESKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYSV 272

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             IVSATASDAAPLQYLAPYSGCAMGE+FRD GKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   273 IVSATASDAAPLQYLAPYSGCAMGEYFRDKGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 332

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKMS A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   333 REAYPGDVFYLHSRLLERAAKMSPAMGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 392

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   393 FLETELFYKGIRPAINV 409

GO:0007286 "spermatid development" evidence=IMP

GO:0008553 "hydrogen-exporting ATPase activity, phosphorylative mechanism" evidence=ISS;NAS

GO:0040007 "growth" evidence=IMP

GO:0015992 "proton transport" evidence=ISS;NAS

GO:0000275 "mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006911 "phagocytosis, engulfment" evidence=IMP

GO:0005811 "lipid particle" evidence=IDA

GO:0005875 "microtubule associated complex" evidence=IDA

UNIPROTKB|P25705 ATP5A1 "ATP synthase subunit alpha, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 817 (292.7 bits), Expect = 6.0e-99, Sum P(2) = 6.0e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   214 RQTGKTSIAIDTIINQKRFNDGSDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 273

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   274 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 333

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   334 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 393

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   394 FLETELFYKGIRPAINV 410

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

GO:0001937 "negative regulation of endothelial cell proliferation" evidence=IMP

GO:0005886 "plasma membrane" evidence=IDA

GO:0043499 "eukaryotic cell surface binding" evidence=IDA

GO:0006754 "ATP biosynthetic process" evidence=IC;NAS

GO:0005524 "ATP binding" evidence=ISS

GO:0006629 "lipid metabolic process" evidence=ISS

GO:0009790 "embryo development" evidence=ISS

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=ISS

GO:0005739 "mitochondrion" evidence=NAS

GO:0005753 "mitochondrial proton-transporting ATP synthase complex" evidence=IDA

GO:0016887 "ATPase activity" evidence=IDA

GO:0042288 "MHC class I protein binding" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005743 "mitochondrial inner membrane" evidence=IDA

GO:0042776 "mitochondrial ATP synthesis coupled proton transport" evidence=IC;TAS

GO:0022857 "transmembrane transporter activity" evidence=IC

GO:0008180 "signalosome" evidence=IDA

GO:0005759 "mitochondrial matrix" evidence=TAS

GO:0022904 "respiratory electron transport chain" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0006200 "ATP catabolic process" evidence=IDA

UNIPROTKB|A5A6H5 ATP5A1 "ATP synthase subunit alpha, mitochondrial" [Pan troglodytes (taxid:9598)]

 Score = 817 (292.7 bits), Expect = 6.0e-99, Sum P(2) = 6.0e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   214 RQTGKTSIAIDTIINQKRFNDGSDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 273

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   274 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 333

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   334 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 393

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   394 FLETELFYKGIRPAINV 410

GO:0005753 "mitochondrial proton-transporting ATP synthase complex" evidence=ISS

UNIPROTKB|Q5R546 ATP5A1 "ATP synthase subunit alpha, mitochondrial" [Pongo abelii (taxid:9601)]

 Score = 817 (292.7 bits), Expect = 6.0e-99, Sum P(2) = 6.0e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   214 RQTGKTSIAIDTIINQKRFNDGSDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 273

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   274 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 333

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   334 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 393

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   394 FLETELFYKGIRPAINV 410

GO:0005753 "mitochondrial proton-transporting ATP synthase complex" evidence=ISS

UNIPROTKB|K7EK63 ATP5A1 "ATP synthase subunit alpha" [Homo sapiens (taxid:9606)]

 Score = 817 (292.7 bits), Expect = 6.0e-99, Sum P(2) = 6.0e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   110 RQTGKTSIAIDTIINQKRFNDGSDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 169

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   170 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 229

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   230 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 289

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   290 FLETELFYKGIRPAINV 306

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

UNIPROTKB|K7ENP3 ATP5A1 "ATP synthase subunit alpha" [Homo sapiens (taxid:9606)]

 Score = 817 (292.7 bits), Expect = 6.0e-99, Sum P(2) = 6.0e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   192 RQTGKTSIAIDTIINQKRFNDGSDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 251

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   252 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 311

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   312 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 371

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   372 FLETELFYKGIRPAINV 388

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

UNIPROTKB|F1MLB8 ATP5A1 "ATP synthase subunit alpha" [Bos taurus (taxid:9913)]

 Score = 816 (292.3 bits), Expect = 7.6e-99, Sum P(2) = 7.6e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   214 RQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 273

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   274 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 333

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   334 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 393

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   394 FLETELFYKGIRPAINV 410

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0043499 "eukaryotic cell surface binding" evidence=IEA

GO:0042288 "MHC class I protein binding" evidence=IEA

GO:0009790 "embryo development" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0006629 "lipid metabolic process" evidence=IEA

GO:0005753 "mitochondrial proton-transporting ATP synthase complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0001937 "negative regulation of endothelial cell proliferation" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

UNIPROTKB|P19483 ATP5A1 "ATP synthase subunit alpha, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 816 (292.3 bits), Expect = 7.6e-99, Sum P(2) = 7.6e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   214 RQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 273

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   274 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 333

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   334 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 393

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   394 FLETELFYKGIRPAINV 410

GO:0005753 "mitochondrial proton-transporting ATP synthase complex" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

UNIPROTKB|F1RPS8 ATP5A1 "ATP synthase subunit alpha" [Sus scrofa (taxid:9823)]

 Score = 816 (292.3 bits), Expect = 7.6e-99, Sum P(2) = 7.6e-99
 Identities = 162/197 (82%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   194 RQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 253

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   254 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 313

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   314 REAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 373

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   374 FLETELFYKGIRPAINV 390

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0043499 "eukaryotic cell surface binding" evidence=IEA

GO:0042288 "MHC class I protein binding" evidence=IEA

GO:0009790 "embryo development" evidence=IEA

GO:0008180 "signalosome" evidence=IEA

GO:0006629 "lipid metabolic process" evidence=IEA

GO:0005753 "mitochondrial proton-transporting ATP synthase complex" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0001937 "negative regulation of endothelial cell proliferation" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

UNIPROTKB|F1NGA2 ATP5A1W "ATP synthase subunit alpha" [Gallus gallus (taxid:9031)]

 Score = 813 (291.2 bits), Expect = 1.6e-98, Sum P(2) = 1.6e-98
 Identities = 161/197 (81%), Positives = 179/197 (90%)

Query:   254 RDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTI 313
             R  GK ++ I   ++++      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YTI
Sbjct:   216 RQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTI 275

Query:   314 IVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 373
             +VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG
Sbjct:   276 VVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPG 335

Query:   374 REAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 433
             REAYPGDVFYLHSRLLER+AKM+++ GGGSLTALPVIETQAGDVSAYIPTNVISITDGQI
Sbjct:   336 REAYPGDVFYLHSRLLERAAKMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI 395

Query:   434 FLETELFYKGM--ALNL 448
             FLETELFYKG+  A+N+
Sbjct:   396 FLETELFYKGIRPAINV 412

GO:0015986 "ATP synthesis coupled proton transport" evidence=IEA

GO:0015991 "ATP hydrolysis coupled proton transport" evidence=IEA

GO:0046933 "proton-transporting ATP synthase activity, rotational mechanism" evidence=IEA

GO:0046961 "proton-transporting ATPase activity, rotational mechanism" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0045261 "proton-transporting ATP synthase complex, catalytic core F(1)" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q4UK16	ATPA_RICFE	3, ., 6, ., 3, ., 1, 4	0.5981	0.4471	0.4725	yes	N/A
A8F2U2	ATPA_RICM5	3, ., 6, ., 3, ., 1, 4	0.6012	0.4471	0.4725	yes	N/A
Q9XXK1	ATPA_CAEEL	No assigned EC number	0.4839	0.7254	0.7267	yes	N/A
A5V3X3	ATPA_SPHWW	3, ., 6, ., 3, ., 1, 4	0.4703	0.6883	0.7288	yes	N/A
B9KPI6	ATPA_RHOSK	3, ., 6, ., 3, ., 1, 4	0.4663	0.6846	0.7207	yes	N/A
Q28TJ8	ATPA_JANSC	3, ., 6, ., 3, ., 1, 4	0.5762	0.4452	0.4687	yes	N/A
A8GPZ6	ATPA_RICAH	3, ., 6, ., 3, ., 1, 4	0.5981	0.4471	0.4707	yes	N/A
O50288	ATPA_RICPR	3, ., 6, ., 3, ., 1, 4	0.5951	0.4471	0.4707	yes	N/A
P25705	ATPA_HUMAN	No assigned EC number	0.5254	0.7012	0.6835	yes	N/A
B0BVB8	ATPA_RICRO	3, ., 6, ., 3, ., 1, 4	0.5981	0.4471	0.4725	yes	N/A
A8LJR6	ATPA2_DINSH	3, ., 6, ., 3, ., 1, 4	0.4525	0.6771	0.7128	yes	N/A
P07251	ATPA_YEAST	No assigned EC number	0.4621	0.7532	0.7449	yes	N/A
Q4FP36	ATPA_PELUB	3, ., 6, ., 3, ., 1, 4	0.5909	0.4452	0.4696	yes	N/A
Q5LNN9	ATPA_RUEPO	3, ., 6, ., 3, ., 1, 4	0.5945	0.4452	0.4687	yes	N/A
P35381	ATPA_DROME	No assigned EC number	0.5287	0.7588	0.7409	yes	N/A
Q13DP4	ATPA_RHOPS	3, ., 6, ., 3, ., 1, 4	0.5621	0.4526	0.4784	yes	N/A
Q0AKV8	ATPA_MARMM	3, ., 6, ., 3, ., 1, 4	0.5714	0.4545	0.4803	yes	N/A
A3PIB7	ATPA1_RHOS1	3, ., 6, ., 3, ., 1, 4	0.4663	0.6846	0.7207	yes	N/A
Q21CY5	ATPA_RHOPB	3, ., 6, ., 3, ., 1, 4	0.5650	0.4526	0.4784	yes	N/A
P15999	ATPA_RAT	No assigned EC number	0.5333	0.6697	0.6528	yes	N/A
A5A6H5	ATPA_PANTR	No assigned EC number	0.5254	0.7012	0.6835	yes	N/A
B0UE41	ATPA_METS4	3, ., 6, ., 3, ., 1, 4	0.5781	0.4601	0.4872	yes	N/A
Q3J433	ATPA_RHOS4	3, ., 6, ., 3, ., 1, 4	0.4663	0.6846	0.7207	yes	N/A
Q68VU6	ATPA_RICTY	3, ., 6, ., 3, ., 1, 4	0.6012	0.4471	0.4707	yes	N/A
Q03265	ATPA_MOUSE	No assigned EC number	0.5304	0.6753	0.6582	yes	N/A
P19483	ATPA_BOVIN	No assigned EC number	0.5264	0.6994	0.6817	yes	N/A
B1LVH1	ATPA_METRJ	3, ., 6, ., 3, ., 1, 4	0.4516	0.6771	0.7156	yes	N/A
C4K229	ATPA_RICPU	3, ., 6, ., 3, ., 1, 4	0.6012	0.4471	0.4725	yes	N/A
Q92G86	ATPA_RICCN	3, ., 6, ., 3, ., 1, 4	0.5981	0.4471	0.4725	yes	N/A
P0C520	ATPAM_ORYSA	No assigned EC number	0.5969	0.4471	0.4734	yes	N/A
P0C522	ATPAM_ORYSJ	No assigned EC number	0.5969	0.4471	0.4734	yes	N/A
Q2N8Z5	ATPA_ERYLH	3, ., 6, ., 3, ., 1, 4	0.4627	0.6938	0.7347	yes	N/A
P49375	ATPA_KLULA	No assigned EC number	0.4590	0.7384	0.7262	yes	N/A
P24487	ATPA_SCHPO	No assigned EC number	0.4787	0.6864	0.6902	yes	N/A
A8GTS8	ATPA_RICRS	3, ., 6, ., 3, ., 1, 4	0.5981	0.4471	0.4725	yes	N/A
B7KUA4	ATPA_METC4	3, ., 6, ., 3, ., 1, 4	0.4516	0.6753	0.7151	yes	N/A
Q5R546	ATPA_PONAB	No assigned EC number	0.5264	0.6994	0.6817	yes	N/A
A4WUM9	ATPA_RHOS5	3, ., 6, ., 3, ., 1, 4	0.4665	0.6808	0.7167	yes	N/A
B1ZEE9	ATPA_METPB	3, ., 6, ., 3, ., 1, 4	0.4497	0.6753	0.7151	yes	N/A
A8GY42	ATPA_RICB8	3, ., 6, ., 3, ., 1, 4	0.6072	0.4471	0.4707	yes	N/A
B8IN03	ATPA_METNO	3, ., 6, ., 3, ., 1, 4	0.5781	0.4601	0.4872	yes	N/A
A9W2R3	ATPA_METEP	3, ., 6, ., 3, ., 1, 4	0.4516	0.6753	0.7151	yes	N/A
Q2VZN0	ATPA_MAGSA	3, ., 6, ., 3, ., 1, 4	0.6066	0.4508	0.4774	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.3.14	0.824
3rd Layer	3.6.3	0.766

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	539
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	0.0
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	1e-161
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	1e-156
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	1e-148
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	1e-139
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	1e-138
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	4e-94
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	4e-91
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	9e-86
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	2e-74
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	6e-68
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	2e-63
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	7e-60
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	3e-56
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	3e-55
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	3e-54
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	5e-42
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	6e-40
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	1e-38
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	4e-37
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	1e-33
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	4e-27
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	1e-25
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	5e-24
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	2e-22
TIGR02546	422	TIGR02546, III_secr_ATP, type III secretion appara	6e-20
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	3e-19
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	5e-18
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	2e-17
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	9e-17
cd01136	326	cd01136, ATPase_flagellum-secretory_path_III, Flag	2e-16
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	3e-16
cd01135	276	cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-	4e-16
TIGR03498	418	TIGR03498, FliI_clade3, flagellar protein export A	7e-16
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	9e-16
PRK06315	442	PRK06315, PRK06315, type III secretion system ATPa	3e-15
TIGR03497	413	TIGR03497, FliI_clade2, flagellar protein export A	3e-15
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	4e-15
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	1e-14
PRK09099	441	PRK09099, PRK09099, type III secretion system ATPa	1e-14
PRK08472	434	PRK08472, fliI, flagellum-specific ATP synthase; V	2e-14
PRK07721	438	PRK07721, fliI, flagellum-specific ATP synthase; V	8e-14
COG1156	463	COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase su	1e-13
PRK06820	440	PRK06820, PRK06820, type III secretion system ATPa	2e-13
PRK08149	428	PRK08149, PRK08149, ATP synthase SpaL; Validated	5e-13
PRK07960	455	PRK07960, fliI, flagellum-specific ATP synthase; V	5e-13
TIGR03496	411	TIGR03496, FliI_clade1, flagellar protein export A	6e-13
PRK06936	439	PRK06936, PRK06936, type III secretion system ATPa	8e-13
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	1e-12
PRK07196	434	PRK07196, fliI, flagellum-specific ATP synthase; V	1e-12
PRK05688	451	PRK05688, fliI, flagellum-specific ATP synthase; V	2e-12
TIGR01041	458	TIGR01041, ATP_syn_B_arch, ATP synthase archaeal,	1e-11
PRK02118	436	PRK02118, PRK02118, V-type ATP synthase subunit B;	3e-11
PRK07594	433	PRK07594, PRK07594, type III secretion system ATPa	4e-11
PRK08972	444	PRK08972, fliI, flagellum-specific ATP synthase; V	1e-10
PRK06002	450	PRK06002, fliI, flagellum-specific ATP synthase; V	2e-10
PRK08927	442	PRK08927, fliI, flagellum-specific ATP synthase; V	2e-09
TIGR01040	466	TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B	3e-09
PRK06793	432	PRK06793, fliI, flagellum-specific ATP synthase; V	7e-09
PRK05922	434	PRK05922, PRK05922, type III secretion system ATPa	8e-09
pfam02874	69	pfam02874, ATP-synt_ab_N, ATP synthase alpha/beta	2e-08
PRK04196	460	PRK04196, PRK04196, V-type ATP synthase subunit B;	3e-08
PRK14698	1017	PRK14698, PRK14698, V-type ATP synthase subunit A;	4e-08
COG1155	588	COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase su	6e-08
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	3e-07
cd01135	276	cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-	5e-07
PRK04192	586	PRK04192, PRK04192, V-type ATP synthase subunit A;	5e-07
TIGR01043	578	TIGR01043, ATP_syn_A_arch, ATP synthase archaeal,	1e-06
cd01134	369	cd01134, V_A-ATPase_A, V/A-type ATP synthase catal	2e-06
TIGR02546	422	TIGR02546, III_secr_ATP, type III secretion appara	3e-06
COG1156	463	COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase su	4e-06
PRK02118	436	PRK02118, PRK02118, V-type ATP synthase subunit B;	1e-05
TIGR03497	413	TIGR03497, FliI_clade2, flagellar protein export A	3e-05
TIGR01042	591	TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A	3e-05
cd01136	326	cd01136, ATPase_flagellum-secretory_path_III, Flag	4e-05
PRK08472	434	PRK08472, fliI, flagellum-specific ATP synthase; V	4e-05
TIGR01041	458	TIGR01041, ATP_syn_B_arch, ATP synthase archaeal,	4e-05
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	1e-04
PRK06315	442	PRK06315, PRK06315, type III secretion system ATPa	1e-04
PRK07960	455	PRK07960, fliI, flagellum-specific ATP synthase; V	1e-04
PRK06936	439	PRK06936, PRK06936, type III secretion system ATPa	1e-04
TIGR03497	413	TIGR03497, FliI_clade2, flagellar protein export A	2e-04
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	3e-04
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	4e-04
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	4e-04
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	4e-04
TIGR03498	418	TIGR03498, FliI_clade3, flagellar protein export A	6e-04
TIGR01040	466	TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B	6e-04
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	8e-04
PRK07721	438	PRK07721, fliI, flagellum-specific ATP synthase; V	8e-04
PRK07196	434	PRK07196, fliI, flagellum-specific ATP synthase; V	8e-04
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	0.001
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	0.001
cd01136	326	cd01136, ATPase_flagellum-secretory_path_III, Flag	0.001
PRK06315	442	PRK06315, PRK06315, type III secretion system ATPa	0.001
PRK05688	451	PRK05688, fliI, flagellum-specific ATP synthase; V	0.001
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	0.002
PRK08149	428	PRK08149, PRK08149, ATP synthase SpaL; Validated	0.002
TIGR03496	411	TIGR03496, FliI_clade1, flagellar protein export A	0.002
PRK08972	444	PRK08972, fliI, flagellum-specific ATP synthase; V	0.002
PRK09099	441	PRK09099, PRK09099, type III secretion system ATPa	0.003
PRK12597	461	PRK12597, PRK12597, F0F1 ATP synthase subunit beta	0.004
TIGR03305	449	TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase,	0.004

>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated

 Score =  520 bits (1343), Expect = 0.0
 Identities = 191/336 (56%), Positives = 217/336 (64%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIKA+D+++PIGRGQRELIIGDRQTGKTA+AIDTIINQK                  
Sbjct: 146 LQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK------------------ 187

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                         K + CIYVAIGQK STVAQ+V++L + GAM
Sbjct: 188 -----------------------------GKDVICIYVAIGQKASTVAQVVRKLEEHGAM 218

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V+ATASD APLQYLAPY+GCAMGE+F DNGK ALI+YDDLSKQAVAYRQ+SLLLR
Sbjct: 219 EYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIVYDDLSKQAVAYRQLSLLLR 278

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AK+S+  GGGSLTALP+IETQAGDVSAYIPTNVISIT
Sbjct: 279 RPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSLTALPIIETQAGDVSAYIPTNVISIT 338

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLE++LF                                                 
Sbjct: 339 DGQIFLESDLFNA----------------------------------------------- 351

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               GIRPAINVG+SVSRVG AAQ +AMK+  G +R
Sbjct: 352 ----GIRPAINVGISVSRVGGAAQIKAMKKVAGTLR 383

Length = 502

>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

 Score =  466 bits (1202), Expect = e-161
 Identities = 189/336 (56%), Positives = 215/336 (63%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIKA+D+L+PIGRGQRELIIGDRQTGKTA+AIDTIINQK                  
Sbjct: 146 LQTGIKAIDALIPIGRGQRELIIGDRQTGKTAIAIDTIINQK------------------ 187

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                           + CIYVAIGQKRSTVA +V+ L + GAM
Sbjct: 188 -----------------------------GSGVKCIYVAIGQKRSTVANVVRTLEEHGAM 218

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V+A+ASD+APLQYLAPY+GCAM E+FRDNGK  LI+YDDLSK AVAYR++SLLLR
Sbjct: 219 DYTIVVAASASDSAPLQYLAPYAGCAMAEYFRDNGKDVLIVYDDLSKHAVAYREISLLLR 278

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AK+S+  GGGS+TALP+IETQAGDVSAYIPTNVISIT
Sbjct: 279 RPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSITALPIIETQAGDVSAYIPTNVISIT 338

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLET+LF                                                 
Sbjct: 339 DGQIFLETDLFNA----------------------------------------------- 351

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               GIRPAINVGLSVSRVGSAAQ +AMK+  G +R
Sbjct: 352 ----GIRPAINVGLSVSRVGSAAQIKAMKKVAGSLR 383

Length = 504

>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score =  447 bits (1152), Expect = e-156
 Identities = 191/320 (59%), Positives = 209/320 (65%), Gaps = 98/320 (30%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIKA+D+++PIGRGQRELIIGDRQTGKTA+AIDTIINQK                  
Sbjct: 53  LQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG----------------- 95

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                         KK+YCIYVAIGQK STVAQ+VK L + GAM
Sbjct: 96  ------------------------------KKVYCIYVAIGQKASTVAQVVKTLEEHGAM 125

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V+ATASD APLQYLAPY+GCAMGE+F DNGKHALIIYDDLSKQAVAYRQMSLLLR
Sbjct: 126 EYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMSLLLR 185

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AK+++  GGGSLTALP+IETQAGDVSAYIPTNVISIT
Sbjct: 186 RPPGREAYPGDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDVSAYIPTNVISIT 245

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLET+LF K                                               
Sbjct: 246 DGQIFLETDLFNK----------------------------------------------- 258

Query: 490 VDALGIRPAINVGLSVSRVG 509
               GIRPAINVGLSVSRVG
Sbjct: 259 ----GIRPAINVGLSVSRVG 274

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic. Length = 274

>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha subunit

 Score =  435 bits (1120), Expect = e-148
 Identities = 192/336 (57%), Positives = 218/336 (64%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIKA+D+++PIGRGQRELIIGDRQTGKTA+AIDTIINQK                  
Sbjct: 145 LQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAVAIDTIINQKD----------------- 187

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                           +YCIYVAIGQK STVAQ+V++L + GAM
Sbjct: 188 ------------------------------SDVYCIYVAIGQKASTVAQVVRKLEEHGAM 217

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V+ATASD+A LQYLAPY+GC MGE+FRDNGKHALIIYDDLSKQAVAYRQ+SLLLR
Sbjct: 218 AYTIVVAATASDSASLQYLAPYTGCTMGEYFRDNGKHALIIYDDLSKQAVAYRQISLLLR 277

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREA+PGDVFYLHSRLLER+AK+++  GGGSLTALP+IETQAGDVSAYIPTNVISIT
Sbjct: 278 RPPGREAFPGDVFYLHSRLLERAAKLNDEKGGGSLTALPIIETQAGDVSAYIPTNVISIT 337

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLE++LF                                                 
Sbjct: 338 DGQIFLESDLFNS----------------------------------------------- 350

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               GIRPAINVGLSVSRVG AAQ +AMKQ  G +R
Sbjct: 351 ----GIRPAINVGLSVSRVGGAAQIKAMKQVAGSLR 382

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit [Energy metabolism, ATP-proton motive force interconversion]. Length = 501

>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit

 Score =  411 bits (1059), Expect = e-139
 Identities = 175/339 (51%), Positives = 203/339 (59%), Gaps = 99/339 (29%)

Query: 187 YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSG 246
           Y  L  G+ A+DS++PIGRGQRELIIGDRQTGKTA+A DTI+NQK               
Sbjct: 122 YEPLQTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVATDTILNQKG-------------- 167

Query: 247 CAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDS 306
                                            + + C+YVAIGQK S+VAQ+V  L + 
Sbjct: 168 ---------------------------------QNVICVYVAIGQKASSVAQVVTTLQER 194

Query: 307 GAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSL 366
           GAM YTI+V+ TA   A LQYLAPY+G A+ E+F   G+H LIIYDDLSKQA AYRQMSL
Sbjct: 195 GAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLSKQAQAYRQMSL 254

Query: 367 LLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVI 426
           LLRRPPGREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDVSAYIPTNVI
Sbjct: 255 LLRRPPGREAYPGDVFYLHSRLLERAAKLSSQLGEGSMTALPIVETQAGDVSAYIPTNVI 314

Query: 427 SITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLL 486
           SITDGQIFL  +LF  G                                           
Sbjct: 315 SITDGQIFLSADLFNAG------------------------------------------- 331

Query: 487 GRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQT-GKIR 524
                   IRPAINVG+SVSRVGSAAQ +AMKQ  GK++
Sbjct: 332 --------IRPAINVGISVSRVGSAAQIKAMKQVAGKLK 362

Length = 485

>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional

 Score =  408 bits (1051), Expect = e-138
 Identities = 163/336 (48%), Positives = 202/336 (60%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIK VD+L+PIGRGQRELIIGDRQTGKTA+AID IINQK                  
Sbjct: 146 LQTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAIINQKD----------------- 188

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                           + C+YVAIGQK S VA++++ L + GA+
Sbjct: 189 ------------------------------SDVICVYVAIGQKASAVARVIETLREHGAL 218

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YT +V A ASD   LQYLAP++GCA+ E+FRD G+ ALI+YDDLSK A AYR++SLLLR
Sbjct: 219 EYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQGQDALIVYDDLSKHAAAYRELSLLLR 278

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGD+FYLHSRLLER+AK+S   GGGSLTALP+IET AG++SAYIPTN+ISIT
Sbjct: 279 RPPGREAYPGDIFYLHSRLLERAAKLSPELGGGSLTALPIIETLAGELSAYIPTNLISIT 338

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQI+L+++LF                                                 
Sbjct: 339 DGQIYLDSDLF------------------------------------------------- 349

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
             A G RPA++VGLSVSRVG  AQ  A+++ +G++R
Sbjct: 350 --AAGQRPAVDVGLSVSRVGGKAQHPAIRKESGRLR 383

Length = 502

>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score =  295 bits (757), Expect = 4e-94
 Identities = 145/336 (43%), Positives = 188/336 (55%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  G+K +D+L+PIGRGQRELI+GDRQTGKTA+AIDTI+NQK                  
Sbjct: 146 LQTGLKVIDALIPIGRGQRELILGDRQTGKTAIAIDTILNQKG----------------- 188

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                         + + CIY AIGQ+ S VA++V  L + GAM
Sbjct: 189 ------------------------------RNVLCIYCAIGQRASAVAKVVANLREHGAM 218

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V    +D   LQY+APY+  ++GE F + G+  LI+YDDL++ A AYR++SLLLR
Sbjct: 219 DYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELSLLLR 278

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREA+PGD+FY+HSRLLERS  ++E  GGGSLTALP+IET+A ++SAYIPTN+ISIT
Sbjct: 279 RPPGREAFPGDIFYVHSRLLERSTHLNEELGGGSLTALPIIETEAQNISAYIPTNLISIT 338

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQI+L   LF                                                 
Sbjct: 339 DGQIYLSPTLF------------------------------------------------- 349

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
              LG+ PA++VG SVSRVG  AQ  A +   G ++
Sbjct: 350 --ELGVLPAVDVGKSVSRVGGKAQLAAYRAVAGDLK 383

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase. Length = 497

>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional

 Score =  290 bits (742), Expect = 4e-91
 Identities = 171/344 (49%), Positives = 211/344 (61%), Gaps = 92/344 (26%)

Query: 182 RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYL 241
           R  + YNLL+ G KAVD+++PIGRGQRELI+GDRQTGKT++A+ TIINQ           
Sbjct: 166 RSPVNYNLLT-GFKAVDTMIPIGRGQRELIVGDRQTGKTSIAVSTIINQ----------- 213

Query: 242 APYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVK 301
                       R N +        LSK AV            IYV+IGQ+ S VA+I +
Sbjct: 214 -----------VRINQQ-------ILSKNAVI----------SIYVSIGQRCSNVARIHR 245

Query: 302 RLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAY 361
            L   GA+ YT +++ATA++ A LQYLAPYSG  MGE+F + G+H L +YDDLSKQAVAY
Sbjct: 246 LLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAY 305

Query: 362 RQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYI 421
           RQ+SLLLRRPPGREAYPGDVFYLHSRLLER+A +S   GGGS+TALP++ET + DV+AYI
Sbjct: 306 RQISLLLRRPPGREAYPGDVFYLHSRLLERAAMLSPGKGGGSVTALPIVETLSNDVTAYI 365

Query: 422 PTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPV 481
            TNVISITDGQI+L+T+LF                                TG       
Sbjct: 366 VTNVISITDGQIYLDTKLF--------------------------------TG------- 386

Query: 482 GEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
                       G RPA+N+GLSVSRVGS+AQ  AMK   GK++
Sbjct: 387 ------------GQRPAVNIGLSVSRVGSSAQNVAMKAVAGKLK 418

Length = 574

>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, nucleotide-binding domain

 Score =  263 bits (676), Expect = 9e-86
 Identities = 94/251 (37%), Positives = 129/251 (51%), Gaps = 51/251 (20%)

Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GI+A+D L+PIG+GQR  I G   TGKT L      N K                     
Sbjct: 2   GIRAIDLLLPIGKGQRIGIFGGSGTGKTVLLGMIARNAK--------------------- 40

Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                                        +  +YV IG++   VA+ ++ L   GA+  T
Sbjct: 41  ---------------------------ADVVEVYVLIGERGREVAEFIEELLGEGALKRT 73

Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           ++V+AT+ +    +YLAPY+   + E+FRD GK  L++ D L++ A A R++SLLL  PP
Sbjct: 74  VVVAATSDEPPAERYLAPYTALTIAEYFRDQGKDVLLLLDSLTRFARALREISLLLGEPP 133

Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GRE YPG +F   +RLLER+ K     GGGS+TALP +    GD++  IP N ISITDGQ
Sbjct: 134 GREGYPGSLFSDLARLLERAGK---VEGGGSITALPTVLVPGGDITDPIPDNTISITDGQ 190

Query: 433 IFLETELFYKG 443
           I L  EL  +G
Sbjct: 191 IVLSRELAERG 201

This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Length = 213

>gnl|CDD|235951 PRK07165, PRK07165, F0F1 ATP synthase subunit alpha; Validated

 Score =  244 bits (625), Expect = 2e-74
 Identities = 118/346 (34%), Positives = 167/346 (48%), Gaps = 113/346 (32%)

Query: 184 LLKYNLLS----AGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQ 239
           L+    L+     GI A+D L+PIG+GQRELIIGDRQTGKT +A++TIINQK        
Sbjct: 117 LMTVKTLNEQLYTGIIAIDLLIPIGKGQRELIIGDRQTGKTHIALNTIINQK-------- 168

Query: 240 YLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI 299
                           N K                         CIYVAIGQKR  +++I
Sbjct: 169 --------------NTNVK-------------------------CIYVAIGQKRENLSRI 189

Query: 300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGE---FFRDNGKHALIIYDDLSK 356
            + L +  A+  TII+ A  S +   QYLAPY   A  E   +  D     LI++DDL+K
Sbjct: 190 YETLKEHDALKNTIIIDA-PSTSPYEQYLAPYVAMAHAENISYNDD----VLIVFDDLTK 244

Query: 357 QAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGD 416
            A  YR+++LL  +P G+EA+PGD+F+ HS+LLER+ K        ++TALP+++T   D
Sbjct: 245 HANIYREIALLTNKPVGKEAFPGDMFFAHSKLLERAGKFK---NRKTITALPILQTVDND 301

Query: 417 VSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAI 476
           +++ I +N+ISITDGQI   ++LF                                    
Sbjct: 302 ITSLISSNIISITDGQIVTSSDLF------------------------------------ 325

Query: 477 VDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQTGK 522
                          A G  PAI++ LSVSR GS+ Q++ + +   
Sbjct: 326 ---------------ASGKLPAIDIDLSVSRTGSSVQSKTITKVAG 356

Length = 507

>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated

 Score =  227 bits (581), Expect = 6e-68
 Identities = 78/94 (82%), Positives = 86/94 (91%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           AVAYRQ+SLLLRRPPGREAYPGDVFYLHSRLLER+AK+S+  GGGSLTALP+IETQAGDV
Sbjct: 267 AVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSLTALPIIETQAGDV 326

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFLE++LF    R +IN G
Sbjct: 327 SAYIPTNVISITDGQIFLESDLFNAGIRPAINVG 360

Length = 502

>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score =  208 bits (531), Expect = 2e-63
 Identities = 80/94 (85%), Positives = 87/94 (92%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AK+++  GGGSLTALP+IETQAGDV
Sbjct: 174 AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDV 233

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFLET+LF K  R +IN G
Sbjct: 234 SAYIPTNVISITDGQIFLETDLFNKGIRPAINVG 267

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic. Length = 274

>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

 Score =  205 bits (524), Expect = 7e-60
 Identities = 77/94 (81%), Positives = 86/94 (91%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           AVAYR++SLLLRRPPGREAYPGDVFYLHSRLLER+AK+S+  GGGS+TALP+IETQAGDV
Sbjct: 267 AVAYREISLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSITALPIIETQAGDV 326

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFLET+LF    R +IN G
Sbjct: 327 SAYIPTNVISITDGQIFLETDLFNAGIRPAINVG 360

Length = 504

>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha subunit

 Score =  195 bits (498), Expect = 3e-56
 Identities = 76/94 (80%), Positives = 86/94 (91%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           AVAYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER+AK+++  GGGSLTALP+IETQAGDV
Sbjct: 266 AVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAAKLNDEKGGGSLTALPIIETQAGDV 325

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFLE++LF    R +IN G
Sbjct: 326 SAYIPTNVISITDGQIFLESDLFNSGIRPAINVG 359

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit [Energy metabolism, ATP-proton motive force interconversion]. Length = 501

>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit

 Score =  192 bits (491), Expect = 3e-55
 Identities = 74/94 (78%), Positives = 81/94 (86%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDV
Sbjct: 246 AQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSQLGEGSMTALPIVETQAGDV 305

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFL  +LF    R +IN G
Sbjct: 306 SAYIPTNVISITDGQIFLSADLFNAGIRPAINVG 339

Length = 485

>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional

 Score =  190 bits (485), Expect = 3e-54
 Identities = 67/94 (71%), Positives = 83/94 (88%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AYR++SLLLRRPPGREAYPGD+FYLHSRLLER+AK+S   GGGSLTALP+IET AG++
Sbjct: 267 AAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSPELGGGSLTALPIIETLAGEL 326

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTN+ISITDGQI+L+++LF    R +++ G
Sbjct: 327 SAYIPTNLISITDGQIYLDSDLFAAGQRPAVDVG 360

Length = 502

>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score =  157 bits (398), Expect = 5e-42
 Identities = 67/109 (61%), Positives = 85/109 (77%), Gaps = 2/109 (1%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AYR++SLLLRRPPGREA+PGD+FY+HSRLLERS  ++E  GGGSLTALP+IET+A ++
Sbjct: 267 ARAYRELSLLLRRPPGREAFPGDIFYVHSRLLERSTHLNEELGGGSLTALPIIETEAQNI 326

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALA 169
           SAYIPTN+ISITDGQI+L   LF      +++ G+ +   R  GK  LA
Sbjct: 327 SAYIPTNLISITDGQIYLSPTLFELGVLPAVDVGKSV--SRVGGKAQLA 373

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase. Length = 497

>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated

 Score =  151 bits (384), Expect = 6e-40
 Identities = 64/127 (50%), Positives = 78/127 (61%), Gaps = 24/127 (18%)

Query: 155 QLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD 214
           +LIIGDRQTGKTA+AIDTIINQK K              +  +   V I  GQ+   +  
Sbjct: 165 ELIIGDRQTGKTAIAIDTIINQKGK-------------DVICI--YVAI--GQKASTVAQ 207

Query: 215 -----RQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSK 269
                 + G  A+    ++   +   APLQYLAPY+GCAMGE+F DNGK ALI+YDDLSK
Sbjct: 208 VVRKLEEHG--AMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIVYDDLSK 265

Query: 270 QAVAYRQ 276
           QAVAYRQ
Sbjct: 266 QAVAYRQ 272

Length = 502

>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score =  142 bits (359), Expect = 1e-38
 Identities = 65/125 (52%), Positives = 77/125 (61%), Gaps = 20/125 (16%)

Query: 155 QLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIG- 213
           +LIIGDRQTGKTA+AIDTIINQK K              +  +   V I  GQ+   +  
Sbjct: 72  ELIIGDRQTGKTAIAIDTIINQKGK-------------KVYCI--YVAI--GQKASTVAQ 114

Query: 214 --DRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA 271
                    A+    ++   +   APLQYLAPY+GCAMGE+F DNGKHALIIYDDLSKQA
Sbjct: 115 VVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQA 174

Query: 272 VAYRQ 276
           VAYRQ
Sbjct: 175 VAYRQ 179

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic. Length = 274

>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional

 Score =  144 bits (364), Expect = 4e-37
 Identities = 68/95 (71%), Positives = 82/95 (86%)

Query: 60  KAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGD 119
           +AVAYRQ+SLLLRRPPGREAYPGDVFYLHSRLLER+A +S   GGGS+TALP++ET + D
Sbjct: 301 QAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAMLSPGKGGGSVTALPIVETLSND 360

Query: 120 VSAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           V+AYI TNVISITDGQI+L+T+LF    R ++N G
Sbjct: 361 VTAYIVTNVISITDGQIYLDTKLFTGGQRPAVNIG 395

Length = 574

>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, nucleotide-binding domain

 Score =  126 bits (319), Expect = 1e-33
 Identities = 47/92 (51%), Positives = 59/92 (64%), Gaps = 3/92 (3%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R++SLLL  PPGRE YPG +F   +RLLER+ K     GGGS+TALP +    GD+
Sbjct: 119 ARALREISLLLGEPPGREGYPGSLFSDLARLLERAGK---VEGGGSITALPTVLVPGGDI 175

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSIN 152
           +  IP N ISITDGQI L  EL  +    +I+
Sbjct: 176 TDPIPDNTISITDGQIVLSRELAERGIYPAID 207

This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Length = 213

>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit

 Score =  114 bits (287), Expect = 4e-27
 Identities = 57/128 (44%), Positives = 72/128 (56%), Gaps = 22/128 (17%)

Query: 154 GQ--LIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI 211
           GQ  LIIGDRQTGKTA+A DTI+NQK               G   +   V I  GQ+   
Sbjct: 141 GQRELIIGDRQTGKTAVATDTILNQK---------------GQNVICVYVAI--GQKASS 183

Query: 212 IGDRQTG---KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLS 268
           +    T    + A+    ++ + +   A LQYLAPY+G A+ E+F   G+H LIIYDDLS
Sbjct: 184 VAQVVTTLQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLS 243

Query: 269 KQAVAYRQ 276
           KQA AYRQ
Sbjct: 244 KQAQAYRQ 251

Length = 485

>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated

 Score =  110 bits (277), Expect = 1e-25
 Identities = 36/53 (67%), Positives = 42/53 (79%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
            G+ALNLE DNVG V+ G+   IKEGD VKRTG I++VPVGE LLGRVV+ LG
Sbjct: 60  YGIALNLEEDNVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLG 112

Length = 502

>gnl|CDD|235951 PRK07165, PRK07165, F0F1 ATP synthase subunit alpha; Validated

 Score =  105 bits (263), Expect = 5e-24
 Identities = 37/80 (46%), Positives = 59/80 (73%), Gaps = 3/80 (3%)

Query: 64  YRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAY 123
           YR+++LL  +P G+EA+PGD+F+ HS+LLER+ K        ++TALP+++T   D+++ 
Sbjct: 249 YREIALLTNKPVGKEAFPGDMFFAHSKLLERAGKFK---NRKTITALPILQTVDNDITSL 305

Query: 124 IPTNVISITDGQIFLETELF 143
           I +N+ISITDGQI   ++LF
Sbjct: 306 ISSNIISITDGQIVTSSDLF 325

Length = 507

>gnl|CDD|223134 COG0056, AtpA, F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

 Score =  100 bits (251), Expect = 2e-22
 Identities = 46/82 (56%), Positives = 54/82 (65%), Gaps = 12/82 (14%)

Query: 425 VISITDGQI-------FLETELF-----YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKR 472
           VIS+ DG          +  EL       KGMALNLE D+VG V+ G+   IKEGD VKR
Sbjct: 31  VISVGDGIARVSGLENVMAGELVEFPGGVKGMALNLEEDSVGAVILGDYSDIKEGDEVKR 90

Query: 473 TGAIVDVPVGEDLLGRVVDALG 494
           TG I++VPVGE+LLGRVVDALG
Sbjct: 91  TGRILEVPVGEELLGRVVDALG 112

Length = 504

>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus H+-transporting two-sector ATPase

 Score = 92.0 bits (229), Expect = 6e-20
 Identities = 67/250 (26%), Positives = 101/250 (40%), Gaps = 53/250 (21%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  G++A+D L+  G GQR  I      GK+ L                          +
Sbjct: 129 LPTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTL--------------------------L 162

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
           G   R  G  A +                      +   IG++   V + ++        
Sbjct: 163 GMIAR--GASADV---------------------NVIALIGERGREVREFIEHHLGEEGR 199

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
             +++V +T+   +  +  A Y+  A+ E+FRD GK  L++ D L++ A A R++ L   
Sbjct: 200 KRSVLVVSTSDRPSLERLKAAYTATAIAEYFRDQGKRVLLMMDSLTRFARALREIGLAAG 259

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
            PP R  YP  VF    RLLER A   E    GS+TAL  +  +  D++  I   V SI 
Sbjct: 260 EPPARGGYPPSVFSSLPRLLER-AGNGEK---GSITALYTVLVEGDDMNDPIADEVRSIL 315

Query: 430 DGQIFLETEL 439
           DG I L   L
Sbjct: 316 DGHIVLSRAL 325

[Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]. Length = 422

>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family

 Score = 90.1 bits (224), Expect = 3e-19
 Identities = 44/132 (33%), Positives = 69/132 (52%), Gaps = 4/132 (3%)

Query: 312 TIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRP 371
           +++V AT+  +  L+    Y   A+ E+FRD GK  L++ D +++ A+A R++ L    P
Sbjct: 220 SVVVVATSDQSPLLRLKGAYVATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEP 279

Query: 372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG 431
           P  + Y   VF    RLLER+     A G GS+TA   +  +  D++  I  +V  I DG
Sbjct: 280 PATKGYTPSVFSTLPRLLERAG----ASGKGSITAFYTVLVEGDDMNEPIADSVRGILDG 335

Query: 432 QIFLETELFYKG 443
            I L   L  +G
Sbjct: 336 HIVLSRALAQRG 347

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins [Energy metabolism, ATP-proton motive force interconversion]. Length = 440

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 81.0 bits (200), Expect = 5e-18
 Identities = 44/162 (27%), Positives = 69/162 (42%), Gaps = 26/162 (16%)

Query: 279 KKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGE 338
            K    +YV I ++   + + +   +  GA+   IIV ATA D A  + L      +  E
Sbjct: 25  TKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLL------SKAE 78

Query: 339 FFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEA 398
             R+ G   LII D+L++   A R++         RE YPG++      LLER+ K    
Sbjct: 79  RLRERGGDDLIILDELTRLVRALREI---------REGYPGELDEELRELLERARK---- 125

Query: 399 HGGGSLTALPVIETQAGDVSAY----IPTNVISITDGQIFLE 436
              G +T +  ++  +GD           N+  I D  I L 
Sbjct: 126 ---GGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTVIVLS 164

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion. Length = 165

>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 84.2 bits (209), Expect = 2e-17
 Identities = 56/216 (25%), Positives = 86/216 (39%), Gaps = 56/216 (25%)

Query: 312 TIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRP 371
           +++V AT+ ++A ++  A ++   + E+FRD GK  L+I D L++ A+A R++ L    P
Sbjct: 220 SVVVVATSDESALMRLKAAFTATTIAEYFRDQGKRVLLIMDSLTRFAMAQREIGLAAGEP 279

Query: 372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG 431
           P  + YP  VF    RLLER A   +    GS+TA   +  +  D++  I   V SI DG
Sbjct: 280 PATKGYPPSVFSELPRLLER-AGNGDK---GSITAFYTVLVEGDDMNDPIADEVRSILDG 335

Query: 432 QIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVD 491
            I L   L                                                    
Sbjct: 336 HIVLSRALA--------------------------------------------------- 344

Query: 492 ALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSW 526
             G  PAI+V  S+SRV     +    K   ++R  
Sbjct: 345 EAGHYPAIDVLASISRVMPQIVSEEHRKAARRLRQL 380

Length = 441

>gnl|CDD|233211 TIGR00962, atpA, proton translocating ATP synthase, F1 alpha subunit

 Score = 82.8 bits (205), Expect = 9e-17
 Identities = 39/82 (47%), Positives = 52/82 (63%), Gaps = 12/82 (14%)

Query: 425 VISITDG------------QIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKR 472
           V+S+ DG               +E E   +G+ALNLE D+VG V+ G+   I+EG  VKR
Sbjct: 30  VVSVGDGIARVYGLENVMSGELIEFEGGVQGIALNLEEDSVGAVIMGDYSDIREGSTVKR 89

Query: 473 TGAIVDVPVGEDLLGRVVDALG 494
           TG I++VPVG+ LLGRVV+ALG
Sbjct: 90  TGRILEVPVGDGLLGRVVNALG 111

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit [Energy metabolism, ATP-proton motive force interconversion]. Length = 501

>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific ATPase/type III secretory pathway virulence-related protein

 Score = 80.4 bits (199), Expect = 2e-16
 Identities = 47/132 (35%), Positives = 72/132 (54%), Gaps = 4/132 (3%)

Query: 312 TIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRP 371
           +++V AT+ ++  L+  A Y+  A+ E+FRD GK  L++ D L++ A+A R++ L    P
Sbjct: 126 SVVVVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIGLAAGEP 185

Query: 372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG 431
           P  + YP  VF L  RLLER+    +    GS+TA   +  +  D++  I   V SI DG
Sbjct: 186 PTTKGYPPSVFALLPRLLERAGNSDK----GSITAFYTVLVEGDDLNEPIADAVRSILDG 241

Query: 432 QIFLETELFYKG 443
            I L   L   G
Sbjct: 242 HIVLSRALAAAG 253

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway. Length = 326

>gnl|CDD|176999 CHL00059, atpA, ATP synthase CF1 alpha subunit

 Score = 80.8 bits (200), Expect = 3e-16
 Identities = 32/60 (53%), Positives = 41/60 (68%)

Query: 435 LETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           +E E    G+ALNLE +NVGVV+ G+  +I+EG  VK TG I  +PV E  LGRVV+AL 
Sbjct: 32  VEFEDGTIGIALNLESNNVGVVLMGDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALA 91

Length = 485

>gnl|CDD|238555 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic) subunit B

 Score = 78.1 bits (193), Expect = 4e-16
 Identities = 47/195 (24%), Positives = 88/195 (45%), Gaps = 7/195 (3%)

Query: 252 FFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGY 311
            F  +G     +   +++QA    ++E   +  ++ A+G              ++GA+  
Sbjct: 74  IFSGSGLPHNELAAQIARQAGVVGEEENFAV--VFAAMGITMEDARFFKDDFEETGALER 131

Query: 312 TIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRR 370
            ++    A+D    + + P       E+   + GKH L+I  D++  A A R++S     
Sbjct: 132 VVLFLNLANDPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREISAAREE 191

Query: 371 PPGREAYPGDVFYLHSRLLERSAKMSEAHG-GGSLTALPVIETQAGDVSAYIPTNVISIT 429
            PGR  YPG   Y+++ L     +     G  GS+T +P++     D++  IP     IT
Sbjct: 192 VPGRRGYPG---YMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPIPDLTGYIT 248

Query: 430 DGQIFLETELFYKGM 444
           +GQI L+ +L  +G+
Sbjct: 249 EGQIVLDRQLHNRGI 263

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit. Length = 276

>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI

 Score = 79.7 bits (197), Expect = 7e-16
 Identities = 45/136 (33%), Positives = 72/136 (52%), Gaps = 4/136 (2%)

Query: 309 MGYTIIVSATASDAAPL-QYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLL 367
           +  +++V AT SD +PL +  A Y+  A+ E+FRD GK  L++ D +++ A+A R++ L 
Sbjct: 194 LKRSVVVVAT-SDESPLMRRQAAYTATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLA 252

Query: 368 LRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVIS 427
              PP    Y   VF    RLLER+   +E  G GS+T +  +     D +  +   V  
Sbjct: 253 AGEPPVARGYTPSVFSELPRLLERAGPGAE--GKGSITGIFTVLVDGDDHNEPVADAVRG 310

Query: 428 ITDGQIFLETELFYKG 443
           I DG I L+  +  +G
Sbjct: 311 ILDGHIVLDRAIAERG 326

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively. Length = 418

>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score = 79.4 bits (196), Expect = 9e-16
 Identities = 47/122 (38%), Positives = 67/122 (54%), Gaps = 14/122 (11%)

Query: 155 QLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD 214
           +LI+GDRQTGKTA+AIDTI+NQ  K R  L  Y  +     AV  +V   R         
Sbjct: 165 ELILGDRQTGKTAIAIDTILNQ--KGRNVLCIYCAIGQRASAVAKVVANLR--------- 213

Query: 215 RQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAY 274
                 A+    ++  +      LQY+APY+  ++GE F + G+  LI+YDDL++ A AY
Sbjct: 214 ---EHGAMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAY 270

Query: 275 RQ 276
           R+
Sbjct: 271 RE 272

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase. Length = 497

>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional

 Score = 78.0 bits (192), Expect = 3e-15
 Identities = 47/151 (31%), Positives = 76/151 (50%), Gaps = 4/151 (2%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHAL 348
           IG++   V + ++       M  ++IV +T+  ++ L+  A Y G A+ E+FRD GK  +
Sbjct: 199 IGERGREVREFIEGDLGEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQGKTVV 258

Query: 349 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALP 408
           ++ D +++ A A R++ L    PP R  Y   VF    +LLERS     A   G++TA  
Sbjct: 259 LMMDSVTRFARALREVGLAAGEPPARAGYTPSVFSTLPKLLERSG----ASDKGTITAFY 314

Query: 409 VIETQAGDVSAYIPTNVISITDGQIFLETEL 439
            +     D++  +   V SI DG I L   L
Sbjct: 315 TVLVAGDDMNEPVADEVKSILDGHIVLSNAL 345

Length = 442

>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI

 Score = 77.4 bits (191), Expect = 3e-15
 Identities = 47/145 (32%), Positives = 73/145 (50%), Gaps = 5/145 (3%)

Query: 299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA 358
           I K L + G +  +++V AT+   A ++  A ++  A+ E+FRD GK  L++ D +++ A
Sbjct: 182 IEKDLGEEG-LKRSVVVVATSDQPALMRLKAAFTATAIAEYFRDQGKDVLLMMDSVTRFA 240

Query: 359 VAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVS 418
           +A R++ L +  PP    Y   VF L  +LLERS         GS+T    +     D++
Sbjct: 241 MAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGN----SQKGSITGFYTVLVDGDDMN 296

Query: 419 AYIPTNVISITDGQIFLETELFYKG 443
             I   V  I DG I L  EL  K 
Sbjct: 297 EPIADAVRGILDGHIVLSRELAAKN 321

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 413

>gnl|CDD|235951 PRK07165, PRK07165, F0F1 ATP synthase subunit alpha; Validated

 Score = 77.7 bits (192), Expect = 4e-15
 Identities = 48/126 (38%), Positives = 65/126 (51%), Gaps = 24/126 (19%)

Query: 155 QLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD 214
           +LIIGDRQTGKT +A++TIINQK                +K +   V IG+ +RE +   
Sbjct: 146 ELIIGDRQTGKTHIALNTIINQKNT-------------NVKCI--YVAIGQ-KRENLSRI 189

Query: 215 RQTGKTALAID-TIINQKSIYAAPLQYLAPYSGCAMGE---FFRDNGKHALIIYDDLSKQ 270
            +T K   A+  TII      +   QYLAPY   A  E   +  D     LI++DDL+K 
Sbjct: 190 YETLKEHDALKNTIIIDAPSTSPYEQYLAPYVAMAHAENISYNDD----VLIVFDDLTKH 245

Query: 271 AVAYRQ 276
           A  YR+
Sbjct: 246 ANIYRE 251

Length = 507

>gnl|CDD|183987 PRK13343, PRK13343, F0F1 ATP synthase subunit alpha; Provisional

 Score = 75.7 bits (187), Expect = 1e-14
 Identities = 35/85 (41%), Positives = 46/85 (54%), Gaps = 13/85 (15%)

Query: 425 VISITDGQIF------------LETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKR 472
           V S+ DG  F            L  E   +G A NLE + VG V+  +   I  G  V+R
Sbjct: 31  VESVGDGIAFVSGLPDAALDELLRFEGGSRGFAFNLEEELVGAVLLDDTADILAGTEVRR 90

Query: 473 TGAIVDVPVGEDLLGRVVDALGIRP 497
           TG +++VPVG+ LLGRV+D LG RP
Sbjct: 91  TGRVLEVPVGDGLLGRVIDPLG-RP 114

Length = 502

>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional

 Score = 76.0 bits (187), Expect = 1e-14
 Identities = 69/259 (26%), Positives = 105/259 (40%), Gaps = 54/259 (20%)

Query: 181 RRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQY 240
            RR+++  L   G++ VD L+ +G GQR  I      GK+ L                  
Sbjct: 139 SRRMVEAPL-PTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTL------------------ 179

Query: 241 LAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIV 300
                   MG F R       +I                         IG++   V + +
Sbjct: 180 --------MGMFARGTQCDVNVI-----------------------ALIGERGREVREFI 208

Query: 301 KRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVA 360
           + +     M  +++V AT+  ++  +  A Y   A+ E+FRD G   L++ D L++ A A
Sbjct: 209 ELILGEDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARA 268

Query: 361 YRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAY 420
            R++ L    PP R  +P  VF    RLLER A M E    GS+TAL  +  +    S  
Sbjct: 269 QREIGLAAGEPPARRGFPPSVFAELPRLLER-AGMGET---GSITALYTVLAEDESGSDP 324

Query: 421 IPTNVISITDGQIFLETEL 439
           I   V  I DG + L  E+
Sbjct: 325 IAEEVRGILDGHMILSREI 343

Length = 441

>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated

 Score = 74.7 bits (184), Expect = 2e-14
 Identities = 43/128 (33%), Positives = 68/128 (53%), Gaps = 3/128 (2%)

Query: 312 TIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRP 371
           T+IV AT+ D+  ++    +   ++ E+F++ G   L I D +++ A+A R++ L L  P
Sbjct: 213 TVIVVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIGLALGEP 272

Query: 372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG 431
           P  + YP  V  L  +L+ER+ K     G GS+TA   +  +  D+S  I     SI DG
Sbjct: 273 PTSKGYPPSVLSLLPQLMERAGK---EEGKGSITAFFTVLVEGDDMSDPIADQSRSILDG 329

Query: 432 QIFLETEL 439
            I L  EL
Sbjct: 330 HIVLSREL 337

Length = 434

>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated

 Score = 73.2 bits (180), Expect = 8e-14
 Identities = 47/157 (29%), Positives = 82/157 (52%), Gaps = 8/157 (5%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGY--TIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKH 346
           IG++   V + ++R  D G  G   +I+V AT+   A ++    Y+  A+ E+FRD G +
Sbjct: 192 IGERGREVREFIER--DLGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLN 249

Query: 347 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTA 406
            +++ D +++ A+A R++ L +  PP  + Y   VF +  +LLER+      +  GS+TA
Sbjct: 250 VMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTPSVFAILPKLLERTG----TNASGSITA 305

Query: 407 LPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
              +     D++  I   V  I DG   L+ +L  KG
Sbjct: 306 FYTVLVDGDDMNEPIADTVRGILDGHFVLDRQLANKG 342

Length = 438

>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

 Score = 72.7 bits (179), Expect = 1e-13
 Identities = 47/186 (25%), Positives = 83/186 (44%), Gaps = 13/186 (6%)

Query: 285 IYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DN 343
           ++ A+G         +    ++GA+   ++    A D A  + + P     + E+   + 
Sbjct: 182 VFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIITPRMALTVAEYLAFEK 241

Query: 344 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHG-GG 402
             H L+I  D++    A R++S      PGR  YPG   Y+++ L     +     G  G
Sbjct: 242 DMHVLVILTDMTNYCEALREISAAREEVPGRRGYPG---YMYTDLATIYERAGRIRGRKG 298

Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGN-D 461
           S+T +P++     D++  IP     IT+GQI L  +L  KG    + P    + V  +  
Sbjct: 299 SITQIPILTMPGDDITHPIPDLTGYITEGQIVLSRDLHRKG----IYP---PINVLPSLS 351

Query: 462 RLIKEG 467
           RL+K+G
Sbjct: 352 RLMKDG 357

Length = 463

>gnl|CDD|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated

 Score = 71.8 bits (176), Expect = 2e-13
 Identities = 47/152 (30%), Positives = 76/152 (50%), Gaps = 6/152 (3%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYL-APYSGCAMGEFFRDNGKHA 347
           IG++   V + ++++    A   T++V AT SD   L+ L    +   + E+FRD GK  
Sbjct: 197 IGERGREVREFLEQVLTPEARARTVVVVAT-SDRPALERLKGLSTATTIAEYFRDRGKKV 255

Query: 348 LIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTAL 407
           L++ D L++ A A R++ L    PP   ++P  VF    RLLER+         GS+TA 
Sbjct: 256 LLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLLERTGNSDR----GSITAF 311

Query: 408 PVIETQAGDVSAYIPTNVISITDGQIFLETEL 439
             +  +  D++  +   V S+ DG I L   L
Sbjct: 312 YTVLVEGDDMNEPVADEVRSLLDGHIVLSRRL 343

Length = 440

>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated

 Score = 70.8 bits (174), Expect = 5e-13
 Identities = 66/256 (25%), Positives = 103/256 (40%), Gaps = 57/256 (22%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  G++A+D L+  G GQR  I      GKT+L                          M
Sbjct: 135 LITGVRAIDGLLTCGVGQRMGIFASAGCGKTSL--------------------------M 168

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVA--IGQKRSTVAQIVKRLTDSG 307
                    + LI      + + A   D       ++V   IG++   V + V+ L  S 
Sbjct: 169 ---------NMLI------EHSEA---D-------VFVIGLIGERGREVTEFVESLRASS 203

Query: 308 AMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLL 367
                ++V AT+  ++  +  A      + E+FRD GK  ++  D +++ A A R ++L 
Sbjct: 204 RREKCVLVYATSDFSSVDRCNAALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALA 263

Query: 368 LRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVIS 427
               P R  YP  VF    RLLER          GS+TA   +  ++ +    I   + S
Sbjct: 264 AGELPARRGYPASVFDSLPRLLERPGATLA----GSITAFYTVLLESEEEPDPIGDEIRS 319

Query: 428 ITDGQIFLETELFYKG 443
           I DG I+L  +L  KG
Sbjct: 320 ILDGHIYLSRKLAAKG 335

Length = 428

>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated

 Score = 71.0 bits (174), Expect = 5e-13
 Identities = 48/153 (31%), Positives = 81/153 (52%), Gaps = 6/153 (3%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYL--APYSGCAMGEFFRDNGKH 346
           IG++   V   ++ +  +     +++++A A D +PL  +  A Y+   + E FRD G+H
Sbjct: 209 IGERGREVKDFIENILGAEGRARSVVIAAPA-DVSPLLRMQGAAYA-TRIAEDFRDRGQH 266

Query: 347 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTA 406
            L+I D L++ A+A R+++L +  PP  + YP  VF     L+ER+   +   GGGS+TA
Sbjct: 267 VLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAG--NGISGGGSITA 324

Query: 407 LPVIETQAGDVSAYIPTNVISITDGQIFLETEL 439
              + T+  D    I  +  +I DG I L   L
Sbjct: 325 FYTVLTEGDDQQDPIADSARAILDGHIVLSRRL 357

Length = 455

>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI

 Score = 70.2 bits (173), Expect = 6e-13
 Identities = 43/128 (33%), Positives = 71/128 (55%), Gaps = 2/128 (1%)

Query: 312 TIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRP 371
           +++V+ATA ++  ++  A +   A+ E+FRD GK  L++ D L++ A+A R+++L +  P
Sbjct: 194 SVVVAATADESPLMRLRAAFYATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIALAIGEP 253

Query: 372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG 431
           P  + YP  VF    +L+ER+    E  G GS+TA   +  +  D    I     +I DG
Sbjct: 254 PATKGYPPSVFAKLPQLVERAGNGEE--GKGSITAFYTVLVEGDDQQDPIADAARAILDG 311

Query: 432 QIFLETEL 439
            I L  EL
Sbjct: 312 HIVLSREL 319

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 411

>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional

 Score = 70.2 bits (172), Expect = 8e-13
 Identities = 45/156 (28%), Positives = 77/156 (49%), Gaps = 4/156 (2%)

Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN 343
            +   IG++   V + ++       +   ++V AT+   +  +  A +   ++ E+FRD 
Sbjct: 191 TVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQ 250

Query: 344 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGS 403
           GK  L++ D +++ A A R++ L    PP R  YP  VF    RL+ER A  S+    GS
Sbjct: 251 GKRVLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRLMER-AGQSDK---GS 306

Query: 404 LTALPVIETQAGDVSAYIPTNVISITDGQIFLETEL 439
           +TAL  +  +  D++  +     SI DG I L  +L
Sbjct: 307 ITALYTVLVEGDDMTEPVADETRSILDGHIILSRKL 342

Length = 439

>gnl|CDD|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score = 69.4 bits (170), Expect = 1e-12
 Identities = 31/55 (56%), Positives = 41/55 (74%), Gaps = 1/55 (1%)

Query: 443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP 497
           G+A N++ D VGVV+ G    ++ GD V+RTG ++DVPVG+ LLGRVVD LG RP
Sbjct: 61  GIAFNVDEDEVGVVLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLG-RP 114

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase. Length = 497

>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated

 Score = 69.5 bits (170), Expect = 1e-12
 Identities = 46/156 (29%), Positives = 79/156 (50%), Gaps = 5/156 (3%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGC-AMGEFFRDNGKHA 347
           IG++   V + ++    +  M  +++V+A A D +PL  +     C A+  ++RD G   
Sbjct: 189 IGERGREVKEFIEHSLQAAGMAKSVVVAAPA-DESPLMRIKATELCHAIATYYRDKGHDV 247

Query: 348 LIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTAL 407
           L++ D L++ A+A R+++L L  PP  + YP   F +  RL E SA  S   G G++TA+
Sbjct: 248 LLLVDSLTRYAMAQREIALSLGEPPATKGYPPSAFSIIPRLAE-SAGNSS--GNGTMTAI 304

Query: 408 PVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
             +  +  D    I     ++ DG I L  +L   G
Sbjct: 305 YTVLAEGDDQQDPIVDCARAVLDGHIVLSRKLAEAG 340

Length = 434

>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated

 Score = 69.0 bits (169), Expect = 2e-12
 Identities = 47/156 (30%), Positives = 81/156 (51%), Gaps = 4/156 (2%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCA-MGEFFRDNGKHA 347
           IG++   V + ++ +     +  +++V++ A DA PL  L     C  + E+FRD GK+ 
Sbjct: 202 IGERGREVKEFIEHILGEEGLKRSVVVASPADDA-PLMRLRAAMYCTRIAEYFRDKGKNV 260

Query: 348 LIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTAL 407
           L++ D L++ A A R+++L +  PP  + YP  VF    +L+ER+       GGGS+TA 
Sbjct: 261 LLLMDSLTRFAQAQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNAEP--GGGSITAF 318

Query: 408 PVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
             + ++  D    I  +   + DG I L   L  +G
Sbjct: 319 YTVLSEGDDQQDPIADSARGVLDGHIVLSRRLAEEG 354

Length = 451

>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit

 Score = 66.3 bits (162), Expect = 1e-11
 Identities = 43/168 (25%), Positives = 78/168 (46%), Gaps = 3/168 (1%)

Query: 278 EKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMG 337
           E+ +   ++ A+G         +K   ++GA+   ++    A D A  + + P       
Sbjct: 170 EESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAA 229

Query: 338 EFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMS 396
           E+   +   H L+I  D++    A R++S      PGR  YPG ++   + + ER+ ++ 
Sbjct: 230 EYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVK 289

Query: 397 EAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
                GS+T +P++     D++  IP     IT+GQI L  EL  KG+
Sbjct: 290 GKK--GSITQMPILTMPGDDITHPIPDLTGYITEGQIVLSRELHRKGI 335

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 458

>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional

 Score = 65.4 bits (160), Expect = 3e-11
 Identities = 41/137 (29%), Positives = 66/137 (48%), Gaps = 4/137 (2%)

Query: 300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQA 358
                ++GA+  T++   TASD      L P    A+ E F  +  K  L++  D++  A
Sbjct: 185 KDTFENAGALDRTVMFIHTASDPPVECLLVPDMALAVAEKFALEGKKKVLVLLTDMTNFA 244

Query: 359 VAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVS 418
            A +++S+ + + P    YPG    L+S L  R  K  +   GGS+T + V      DV+
Sbjct: 245 DALKEISITMDQIPSNRGYPGS---LYSDLASRYEKAVDFEDGGSITIIAVTTMPGDDVT 301

Query: 419 AYIPTNVISITDGQIFL 435
             +P N   IT+GQ +L
Sbjct: 302 HPVPDNTGYITEGQFYL 318

Length = 436

>gnl|CDD|136438 PRK07594, PRK07594, type III secretion system ATPase SsaN; Validated

 Score = 64.6 bits (157), Expect = 4e-11
 Identities = 48/159 (30%), Positives = 75/159 (47%), Gaps = 4/159 (2%)

Query: 285 IYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNG 344
           + V IG++   V + +            +IV AT+   A  +  A +    + EFFRDNG
Sbjct: 185 VLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALFVATTIAEFFRDNG 244

Query: 345 KHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSL 404
           K  +++ D L++ A A R+++L          YP  VF    RLLER+  M E    GS+
Sbjct: 245 KRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTG-MGEK---GSI 300

Query: 405 TALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
           TA   +  +  D++  +   V S+ DG I L   L  +G
Sbjct: 301 TAFYTVLVEGDDMNEPLADEVRSLLDGHIVLSRRLAERG 339

Length = 433

>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated

 Score = 63.2 bits (154), Expect = 1e-10
 Identities = 44/130 (33%), Positives = 66/130 (50%), Gaps = 9/130 (6%)

Query: 314 IVSATASDAAPLQYLAPYSGC----AMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
           +V A  +D +PL  L    GC     + E+FRD G + L++ D L++ A A R+++L + 
Sbjct: 220 VVVAAPADTSPLMRL---KGCETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREIALAVG 276

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
            PP  + YP  VF     L+ER+       G GS+TA   + T+  D+   I     +I 
Sbjct: 277 EPPATKGYPPSVFAKLPALVERAGNGGP--GQGSITAFYTVLTEGDDLQDPIADASRAIL 334

Query: 430 DGQIFLETEL 439
           DG I L  EL
Sbjct: 335 DGHIVLSREL 344

Length = 444

>gnl|CDD|235666 PRK06002, fliI, flagellum-specific ATP synthase; Validated

 Score = 62.3 bits (152), Expect = 2e-10
 Identities = 41/133 (30%), Positives = 71/133 (53%), Gaps = 2/133 (1%)

Query: 307 GAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSL 366
             +   + V AT+ ++  ++ LAP +  A+ E+FRD G++ L+I D +++ A A R+++L
Sbjct: 216 DNLKKAVAVVATSDESPMMRRLAPLTATAIAEYFRDRGENVLLIVDSVTRFAHAAREVAL 275

Query: 367 LLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVI 426
               PP    YP  VF    RLLER+   +E  GGGS+T +  +     D +  +  ++ 
Sbjct: 276 AAGEPPVARGYPPSVFSELPRLLERAGPGAE--GGGSITGIFSVLVDGDDHNDPVADSIR 333

Query: 427 SITDGQIFLETEL 439
              DG I L+  +
Sbjct: 334 GTLDGHIVLDRAI 346

Length = 450

>gnl|CDD|236351 PRK08927, fliI, flagellum-specific ATP synthase; Validated

 Score = 59.2 bits (144), Expect = 2e-09
 Identities = 40/124 (32%), Positives = 63/124 (50%), Gaps = 2/124 (1%)

Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           ++V AT+ + A ++  A Y   A+ E+FRD GK  L + D +++ A+A R++ L    PP
Sbjct: 216 VVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGEPP 275

Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
             + Y   VF    RLLER+       G G++T L  +     D +  +   V  I DG 
Sbjct: 276 TTKGYTPTVFAELPRLLERAGPGPI--GEGTITGLFTVLVDGDDHNEPVADAVRGILDGH 333

Query: 433 IFLE 436
           I +E
Sbjct: 334 IVME 337

Length = 442

>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit

 Score = 59.0 bits (143), Expect = 3e-09
 Identities = 41/162 (25%), Positives = 79/162 (48%), Gaps = 5/162 (3%)

Query: 285 IYVAIGQKRSTVAQIVKR-LTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-D 342
           ++ A+G    T A+  K+   ++G+M    +    A+D    + + P       E+    
Sbjct: 186 VFAAMGVNMET-ARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEYLAYQ 244

Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
             KH L+I  D+S  A A R++S      PGR  +PG ++   + + ER+ ++      G
Sbjct: 245 CEKHVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVEGR--NG 302

Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           S+T +P++     D++  IP     IT+GQI+++ +L  + +
Sbjct: 303 SITQIPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQI 344

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase [Transport and binding proteins, Cations and iron carrying compounds]. Length = 466

>gnl|CDD|180696 PRK06793, fliI, flagellum-specific ATP synthase; Validated

 Score = 57.7 bits (139), Expect = 7e-09
 Identities = 39/154 (25%), Positives = 75/154 (48%), Gaps = 11/154 (7%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHAL 348
           +G++   V   +++      M  +++V AT+ ++  +Q  A     ++ E+FRD G + L
Sbjct: 190 VGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVL 249

Query: 349 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHS---RLLERSAKMSEAHGGGSLT 405
           ++ D +++ A A R + + ++  P      G    + S   +LLERS K  +    GS+T
Sbjct: 250 LMMDSVTRFADARRSVDIAVKELP----IGGKTLLMESYMKKLLERSGKTQK----GSIT 301

Query: 406 ALPVIETQAGDVSAYIPTNVISITDGQIFLETEL 439
            +  +     D++  +P     I DG I L+ EL
Sbjct: 302 GIYTVLVDGDDLNGPVPDLARGILDGHIVLKREL 335

Length = 432

>gnl|CDD|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated

 Score = 57.6 bits (139), Expect = 8e-09
 Identities = 57/243 (23%), Positives = 97/243 (39%), Gaps = 54/243 (22%)

Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKA+D+ + +G+GQR  +  +  +GK++L                      S  A G  
Sbjct: 144 GIKAIDAFLTLGKGQRIGVFSEPGSGKSSL---------------------LSTIAKG-- 180

Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                          SK  +            +   IG++   V + +++  +  A   T
Sbjct: 181 ---------------SKSTIN-----------VIALIGERGREVREYIEQHKEGLAAQRT 214

Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           II+++ A + AP + +A  +   + E+FRD G   L I D LS+   A ++++L      
Sbjct: 215 IIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETL 274

Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
               Y   VF+  S   ER+    +    GS+TAL  I         +    + S+ DG 
Sbjct: 275 SAHHYAASVFHHVSEFTERAGNNDK----GSITALYAILHYPNHPDIFTDY-LKSLLDGH 329

Query: 433 IFL 435
            FL
Sbjct: 330 FFL 332

Length = 434

>gnl|CDD|217261 pfam02874, ATP-synt_ab_N, ATP synthase alpha/beta family, beta-barrel domain

 Score = 50.6 bits (122), Expect = 2e-08
 Identities = 22/69 (31%), Positives = 29/69 (42%), Gaps = 8/69 (11%)

Query: 408 PVIETQAGDVSAYIP--TNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIK 465
           PV++         +P   N + +      +E      G  LNL  D V VVV G    + 
Sbjct: 7   PVVD--VEFGIGRLPGLYNALEVE----LVEFGNGLLGEVLNLGGDKVRVVVMGGTDGLS 60

Query: 466 EGDIVKRTG 474
            GD VKRTG
Sbjct: 61  RGDEVKRTG 69

This family includes the ATP synthase alpha and beta subunits the ATP synthase associated with flagella. Length = 69

>gnl|CDD|235251 PRK04196, PRK04196, V-type ATP synthase subunit B; Provisional

 Score = 56.0 bits (136), Expect = 3e-08
 Identities = 45/163 (27%), Positives = 77/163 (47%), Gaps = 9/163 (5%)

Query: 285 IYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DN 343
           ++ A+G         ++   ++GA+  +++    A D A  + L P       E+   + 
Sbjct: 179 VFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALTAAEYLAFEK 238

Query: 344 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSAKMSEAHG 400
           G H L+I  D++    A R++S      PGR  YPG   Y+++ L    ER+ ++    G
Sbjct: 239 GMHVLVILTDMTNYCEALREISAAREEVPGRRGYPG---YMYTDLATIYERAGRIKGKKG 295

Query: 401 GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
             S+T +P++     D++  IP     IT+GQI L  EL  KG
Sbjct: 296 --SITQIPILTMPDDDITHPIPDLTGYITEGQIVLSRELHRKG 336

Length = 460

>gnl|CDD|184795 PRK14698, PRK14698, V-type ATP synthase subunit A; Provisional

 Score = 55.8 bits (134), Expect = 4e-08
 Identities = 38/157 (24%), Positives = 72/157 (45%), Gaps = 16/157 (10%)

Query: 285 IYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMG 337
           IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  + 
Sbjct: 686 IYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIA 745

Query: 338 EFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------R 391
           E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      R
Sbjct: 746 EYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAGR 802

Query: 392 SAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI 428
              +   +  GS++ +  +    GD S  +  N + +
Sbjct: 803 VVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRV 839

Length = 1017

>gnl|CDD|224077 COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

 Score = 55.0 bits (133), Expect = 6e-08
 Identities = 41/159 (25%), Positives = 74/159 (46%), Gaps = 18/159 (11%)

Query: 285 IYVAIGQKRSTVAQIVKR---LTDSGA----MGYTIIVSATASDAAPLQYLAPYSGCAMG 337
           IYV  G++ + + ++++    L D       M  T++++ T++     +  + Y+G  + 
Sbjct: 254 IYVGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIA 313

Query: 338 EFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSAK 394
           E++RD G    ++ D  S+ A A R++S  L   PG E YP    YL SRL    ER+ +
Sbjct: 314 EYYRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLGSRLAEFYERAGR 370

Query: 395 MSEAHGG----GSLTALPVIETQAGDVSAYIPTNVISIT 429
                      GS+T +  +    GD S  +  N + + 
Sbjct: 371 -VRLVSPEERFGSITVIGAVSPPGGDFSEPVTQNTLRVV 408

Length = 588

>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family

 Score = 52.8 bits (127), Expect = 3e-07
 Identities = 44/151 (29%), Positives = 65/151 (43%), Gaps = 21/151 (13%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L    PP  + Y   VF    RLLER+     A G GS+TA   +  +  D+
Sbjct: 266 AMAQREIGLAAGEPPATKGYTPSVFSTLPRLLERAG----ASGKGSITAFYTVLVEGDDM 321

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRG---SINCGQLIIGDRQTGKTALAIDTIINQK 177
           +  I  +V  I DG I L   L     RG   +I+    I        + L    +  + 
Sbjct: 322 NEPIADSVRGILDGHIVLSRALA---QRGHYPAIDVLASI--------SRLMTAIVSEEH 370

Query: 178 RKKRRRLLKYNLLSAGIKAVDSLVPIGRGQR 208
           R+  R   K+  L +  K  + L+ IG  QR
Sbjct: 371 RRAAR---KFRELLSKYKDNEDLIRIGAYQR 398

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins [Energy metabolism, ATP-proton motive force interconversion]. Length = 440

>gnl|CDD|238555 cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-catalytic) subunit B

 Score = 51.1 bits (123), Expect = 5e-07
 Identities = 27/86 (31%), Positives = 43/86 (50%), Gaps = 4/86 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHG-GGSLTALPVIETQAGD 119
           A A R++S      PGR  YPG   Y+++ L     +     G  GS+T +P++     D
Sbjct: 179 AEALREISAAREEVPGRRGYPG---YMYTDLATIYERAGRVEGRNGSITQIPILTMPNDD 235

Query: 120 VSAYIPTNVISITDGQIFLETELFYK 145
           ++  IP     IT+GQI L+ +L  +
Sbjct: 236 ITHPIPDLTGYITEGQIVLDRQLHNR 261

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit. Length = 276

>gnl|CDD|235248 PRK04192, PRK04192, V-type ATP synthase subunit A; Provisional

 Score = 52.1 bits (126), Expect = 5e-07
 Identities = 31/81 (38%), Positives = 45/81 (55%), Gaps = 9/81 (11%)

Query: 331 YSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL-- 388
           Y+G  + E++RD G   L++ D  S+ A A R++S  L   PG E YP    YL SRL  
Sbjct: 310 YTGITIAEYYRDMGYDVLLMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASRLAE 366

Query: 389 -LERSAKMSEAHGG--GSLTA 406
             ER+ ++ +  GG  GS+T 
Sbjct: 367 FYERAGRV-KTLGGEEGSVTI 386

Length = 586

>gnl|CDD|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit

 Score = 50.9 bits (122), Expect = 1e-06
 Identities = 42/157 (26%), Positives = 73/157 (46%), Gaps = 16/157 (10%)

Query: 285 IYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMG 337
           +Y+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  + 
Sbjct: 252 VYIGCGERGNEMTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIA 311

Query: 338 EFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE--RSAKM 395
           E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL SRL E    A  
Sbjct: 312 EYFRDMGYDVALMADSTSRWAEAMREISGRLEEMPGEEGYPA---YLASRLAEFYERAGR 368

Query: 396 SEAHGG----GSLTALPVIETQAGDVSAYIPTNVISI 428
            +  GG    GS+T +  +    GD S  +  N + I
Sbjct: 369 VKTLGGEERVGSVTVIGAVSPPGGDFSEPVTQNTLRI 405

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 578

>gnl|CDD|238554 cd01134, V_A-ATPase_A, V/A-type ATP synthase catalytic subunit A

 Score = 49.9 bits (120), Expect = 2e-06
 Identities = 33/118 (27%), Positives = 57/118 (48%), Gaps = 20/118 (16%)

Query: 285 IYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSAT-----ASDAAPLQYLAPYS 332
           IYV  G++ + + ++++         T    M  T++++ T     A+  A +     Y+
Sbjct: 187 IYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASI-----YT 241

Query: 333 GCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE 390
           G  + E+FRD G +  ++ D  S+ A A R++S  L   PG E YP    YL +RL  
Sbjct: 242 GITIAEYFRDMGYNVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLGARLAS 296

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. Length = 369

>gnl|CDD|233918 TIGR02546, III_secr_ATP, type III secretion apparatus H+-transporting two-sector ATPase

 Score = 49.2 bits (118), Expect = 3e-06
 Identities = 33/82 (40%), Positives = 40/82 (48%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R++ L    PP R  YP  VF    RLLER A   E    GS+TAL  +  +  D+
Sbjct: 248 ARALREIGLAAGEPPARGGYPPSVFSSLPRLLER-AGNGEK---GSITALYTVLVEGDDM 303

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  I   V SI DG I L   L
Sbjct: 304 NDPIADEVRSILDGHIVLSRAL 325

[Protein fate, Protein and peptide secretion and trafficking, Cellular processes, Pathogenesis]. Length = 422

>gnl|CDD|224078 COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

 Score = 48.9 bits (117), Expect = 4e-06
 Identities = 27/84 (32%), Positives = 41/84 (48%), Gaps = 4/84 (4%)

Query: 63  AYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHG-GGSLTALPVIETQAGDVS 121
           A R++S      PGR  YPG   Y+++ L     +     G  GS+T +P++     D++
Sbjct: 258 ALREISAAREEVPGRRGYPG---YMYTDLATIYERAGRIRGRKGSITQIPILTMPGDDIT 314

Query: 122 AYIPTNVISITDGQIFLETELFYK 145
             IP     IT+GQI L  +L  K
Sbjct: 315 HPIPDLTGYITEGQIVLSRDLHRK 338

Length = 463

>gnl|CDD|179373 PRK02118, PRK02118, V-type ATP synthase subunit B; Provisional

 Score = 47.3 bits (113), Expect = 1e-05
 Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 3/78 (3%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A +++S+ + + P    YPG    L+S L  R  K  +   GGS+T + V      DV
Sbjct: 244 ADALKEISITMDQIPSNRGYPGS---LYSDLASRYEKAVDFEDGGSITIIAVTTMPGDDV 300

Query: 121 SAYIPTNVISITDGQIFL 138
           +  +P N   IT+GQ +L
Sbjct: 301 THPVPDNTGYITEGQFYL 318

Length = 436

>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI

 Score = 45.8 bits (109), Expect = 3e-05
 Identities = 28/82 (34%), Positives = 37/82 (45%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L +  PP    Y   VF L  +LLERS         GS+T    +     D+
Sbjct: 240 AMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGN----SQKGSITGFYTVLVDGDDM 295

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  I   V  I DG I L  EL
Sbjct: 296 NEPIADAVRGILDGHIVLSREL 317

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 413

>gnl|CDD|233245 TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A subunit

 Score = 46.3 bits (110), Expect = 3e-05
 Identities = 42/166 (25%), Positives = 79/166 (47%), Gaps = 22/166 (13%)

Query: 285 IYVAIGQKRSTVAQIVK---RLT------DSGAMGYTIIVSATASDAAPLQYLAPYSGCA 335
           +YV  G++ + +A+++     LT      +   M  T +V+ T++     +  + Y+G  
Sbjct: 256 VYVGCGERGNEMAEVLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYTGIT 315

Query: 336 MGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERS 392
           + E+FRD G +  ++ D  S+ A A R++S  L   P    YP    YL +RL    ER+
Sbjct: 316 LAEYFRDMGYNVSMMADSTSRWAEALREISGRLAEMPADSGYPA---YLGARLASFYERA 372

Query: 393 AKMSEAHGG----GSLTALPVIETQAGDVSAYIPTNVISITDGQIF 434
            ++ +  G     GS++ +  +    GD S  + +  + I   Q+F
Sbjct: 373 GRV-KCLGSPEREGSVSIVGAVSPPGGDFSDPVTSATLGIV--QVF 415

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase [Transport and binding proteins, Cations and iron carrying compounds]. Length = 591

>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific ATPase/type III secretory pathway virulence-related protein

 Score = 45.7 bits (109), Expect = 4e-05
 Identities = 30/82 (36%), Positives = 41/82 (50%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L    PP  + YP  VF L  RLLER+    +    GS+TA   +  +  D+
Sbjct: 172 AMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAGNSDK----GSITAFYTVLVEGDDL 227

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  I   V SI DG I L   L
Sbjct: 228 NEPIADAVRSILDGHIVLSRAL 249

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway. Length = 326

>gnl|CDD|181439 PRK08472, fliI, flagellum-specific ATP synthase; Validated

 Score = 45.8 bits (109), Expect = 4e-05
 Identities = 31/82 (37%), Positives = 42/82 (51%), Gaps = 3/82 (3%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L L  PP  + YP  V  L  +L+ER+ K     G GS+TA   +  +  D+
Sbjct: 259 AMAQREIGLALGEPPTSKGYPPSVLSLLPQLMERAGK---EEGKGSITAFFTVLVEGDDM 315

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           S  I     SI DG I L  EL
Sbjct: 316 SDPIADQSRSILDGHIVLSREL 337

Length = 434

>gnl|CDD|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit

 Score = 45.9 bits (109), Expect = 4e-05
 Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 2/83 (2%)

Query: 63  AYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSA 122
           A R++S      PGR  YPG ++   + + ER+ ++    G  S+T +P++     D++ 
Sbjct: 253 ALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVKGKKG--SITQMPILTMPGDDITH 310

Query: 123 YIPTNVISITDGQIFLETELFYK 145
            IP     IT+GQI L  EL  K
Sbjct: 311 PIPDLTGYITEGQIVLSRELHRK 333

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases [Energy metabolism, ATP-proton motive force interconversion]. Length = 458

>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 44.1 bits (105), Expect = 1e-04
 Identities = 30/82 (36%), Positives = 40/82 (48%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L    PP  + YP  VF    RLLER A   +    GS+TA   +  +  D+
Sbjct: 266 AMAQREIGLAAGEPPATKGYPPSVFSELPRLLER-AGNGDK---GSITAFYTVLVEGDDM 321

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  I   V SI DG I L   L
Sbjct: 322 NDPIADEVRSILDGHIVLSRAL 343

Length = 441

>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional

 Score = 44.1 bits (104), Expect = 1e-04
 Identities = 28/82 (34%), Positives = 37/82 (45%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R++ L    PP R  Y   VF    +LLERS     A   G++TA   +     D+
Sbjct: 268 ARALREVGLAAGEPPARAGYTPSVFSTLPKLLERSG----ASDKGTITAFYTVLVAGDDM 323

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  +   V SI DG I L   L
Sbjct: 324 NEPVADEVKSILDGHIVLSNAL 345

Length = 442

>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 28/82 (34%), Positives = 42/82 (51%), Gaps = 2/82 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R+++L +  PP  + YP  VF     L+ER+   +   GGGS+TA   + T+  D 
Sbjct: 278 AMAQREIALAIGEPPATKGYPPSVFAKLPALVERAG--NGISGGGSITAFYTVLTEGDDQ 335

Query: 121 SAYIPTNVISITDGQIFLETEL 142
              I  +  +I DG I L   L
Sbjct: 336 QDPIADSARAILDGHIVLSRRL 357

Length = 455

>gnl|CDD|180762 PRK06936, PRK06936, type III secretion system ATPase; Provisional

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 30/82 (36%), Positives = 41/82 (50%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R++ L    PP R  YP  VF    RL+ER A  S+    GS+TAL  +  +  D+
Sbjct: 265 ARAQREIGLAAGEPPTRRGYPPSVFAALPRLMER-AGQSDK---GSITALYTVLVEGDDM 320

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  +     SI DG I L  +L
Sbjct: 321 TEPVADETRSILDGHIILSRKL 342

Length = 439

>gnl|CDD|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI

 Score = 43.5 bits (103), Expect = 2e-04
 Identities = 36/135 (26%), Positives = 58/135 (42%), Gaps = 40/135 (29%)

Query: 180 KRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI---------------------------- 211
           KR R+   + L  GIKA+D L+ IG+GQR  I                            
Sbjct: 113 KRPRI--RDPLETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTLLGMIARNAKADINVIAL 170

Query: 212 IGDR----------QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHAL 261
           IG+R            G+  L    ++   S   A ++  A ++  A+ E+FRD GK  L
Sbjct: 171 IGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAAFTATAIAEYFRDQGKDVL 230

Query: 262 IIYDDLSKQAVAYRQ 276
           ++ D +++ A+A R+
Sbjct: 231 LMMDSVTRFAMAQRE 245

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 413

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 41.3 bits (97), Expect = 3e-04
 Identities = 24/163 (14%), Positives = 47/163 (28%), Gaps = 28/163 (17%)

Query: 156 LIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDR 215
           L+ G   +GKT LA+   +N   K                    +V +   +    + +R
Sbjct: 3   LVFGPTGSGKTTLALQLALNIATKG-----------------GKVVYVDIEEEIEELTER 45

Query: 216 QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM-GEFFRDNGKHALIIYDDLSKQAVAY 274
             G++            I           +      E  R+ G   LII D+L++   A 
Sbjct: 46  LIGESL----KGALDNLIIVFATADDPAAARLLSKAERLRERGGDDLIILDELTRLVRAL 101

Query: 275 RQDEKK----KLYCIY--VAIGQKRSTVAQIVKRLTDSGAMGY 311
           R+  +         +   +   +K         ++        
Sbjct: 102 REIREGYPGELDEELRELLERARKGGVTVIFTLQVPSGDKGDP 144

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion. Length = 165

>gnl|CDD|140212 PTZ00185, PTZ00185, ATPase alpha subunit; Provisional

 Score = 42.7 bits (100), Expect = 4e-04
 Identities = 25/91 (27%), Positives = 43/91 (47%), Gaps = 1/91 (1%)

Query: 432 QIFLETELFYKGMALNLEPDN-VGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVV 490
            I +    F  G+  NLE D  +G+++  N   ++ G  V  TG ++ +PVG  +LG+VV
Sbjct: 69  MIQVSPTTFAAGLVFNLEKDGRIGIILMDNITEVQSGQKVMATGKLLYIPVGAGVLGKVV 128

Query: 491 DALGIRPAINVGLSVSRVGSAAQTRAMKQTG 521
           + LG    + +      +  + QT      G
Sbjct: 129 NPLGHEVPVGLLTRSRALLESEQTLGKVDAG 159

Length = 574

>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 30/125 (24%), Positives = 52/125 (41%), Gaps = 38/125 (30%)

Query: 190 LSAGIKAVDSLVPIGRGQRELI----------------------------IGDR------ 215
           LS G++++D L+ +G+GQR  I                            IG+R      
Sbjct: 147 LSTGVRSIDGLLTVGKGQRIGIFAGSGVGKSTLLGMIARNTEADVNVIALIGERGREVRE 206

Query: 216 ----QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA 271
                 G+  L    ++   S  +  L+    Y   A+ E+FRD GK  L++ D +++ A
Sbjct: 207 FIEHDLGEEGLKRSVVVVATSDQSPLLRLKGAYVATAIAEYFRDQGKDVLLLMDSVTRFA 266

Query: 272 VAYRQ 276
           +A R+
Sbjct: 267 MAQRE 271

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins [Energy metabolism, ATP-proton motive force interconversion]. Length = 440

>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 42.6 bits (101), Expect = 4e-04
 Identities = 30/124 (24%), Positives = 50/124 (40%), Gaps = 38/124 (30%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTAL--------AIDTII------------- 228
           L  G++A+D L+  G+GQR  I      GK+ L          D  +             
Sbjct: 147 LDTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTLLGMIARNTEADVNVIALIGERGREVRE 206

Query: 229 ----------NQKS-IYAAP------LQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA 271
                      ++S +  A       ++  A ++   + E+FRD GK  L+I D L++ A
Sbjct: 207 FIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTATTIAEYFRDQGKRVLLIMDSLTRFA 266

Query: 272 VAYR 275
           +A R
Sbjct: 267 MAQR 270

Length = 441

>gnl|CDD|163293 TIGR03498, FliI_clade3, flagellar protein export ATPase FliI

 Score = 41.9 bits (99), Expect = 6e-04
 Identities = 28/89 (31%), Positives = 41/89 (46%), Gaps = 5/89 (5%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L    PP    Y   VF    RLLER+   +E  G GS+T +  +     D 
Sbjct: 243 AMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGPGAE--GKGSITGIFTVLVDGDDH 300

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRG 149
           +  +   V  I DG I L+  +    +RG
Sbjct: 301 NEPVADAVRGILDGHIVLDRAIA---ERG 326

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively. Length = 418

>gnl|CDD|233244 TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B subunit

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 24/82 (29%), Positives = 45/82 (54%), Gaps = 2/82 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R++S      PGR  +PG ++   + + ER+ ++      GS+T +P++     D+
Sbjct: 260 ADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVEGR--NGSITQIPILTMPNDDI 317

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  IP     IT+GQI+++ +L
Sbjct: 318 THPIPDLTGYITEGQIYVDRQL 339

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase [Transport and binding proteins, Cations and iron carrying compounds]. Length = 466

>gnl|CDD|238540 cd01120, RecA-like_NTPases, RecA-like NTPases

 Score = 40.2 bits (94), Expect = 8e-04
 Identities = 25/102 (24%), Positives = 40/102 (39%), Gaps = 12/102 (11%)

Query: 43  AAEISSILEERILGSAPKAVAYRQMSLLLRR-PPGREAYPGDVFYLHSRLLERSAKMSEA 101
           AA + S  E          +   +++ L+R     RE YPG++      LLER+ K    
Sbjct: 70  AARLLSKAERLRERGGDDLIILDELTRLVRALREIREGYPGELDEELRELLERARK---- 125

Query: 102 HGGGSLTALPVIETQAGDVSAY----IPTNVISITDGQIFLE 139
              G +T +  ++  +GD           N+  I D  I L 
Sbjct: 126 ---GGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTVIVLS 164

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion. Length = 165

>gnl|CDD|181092 PRK07721, fliI, flagellum-specific ATP synthase; Validated

 Score = 41.6 bits (98), Expect = 8e-04
 Identities = 28/92 (30%), Positives = 44/92 (47%), Gaps = 4/92 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R++ L +  PP  + Y   VF +  +LLER+      +  GS+TA   +     D+
Sbjct: 261 AMAQREIGLAVGEPPTTKGYTPSVFAILPKLLERTG----TNASGSITAFYTVLVDGDDM 316

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSIN 152
           +  I   V  I DG   L+ +L  K    +IN
Sbjct: 317 NEPIADTVRGILDGHFVLDRQLANKGQYPAIN 348

Length = 438

>gnl|CDD|180875 PRK07196, fliI, flagellum-specific ATP synthase; Validated

 Score = 41.8 bits (98), Expect = 8e-04
 Identities = 27/82 (32%), Positives = 41/82 (50%), Gaps = 3/82 (3%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R+++L L  PP  + YP   F +  RL E SA  S   G G++TA+  +  +  D 
Sbjct: 258 AMAQREIALSLGEPPATKGYPPSAFSIIPRLAE-SAGNSS--GNGTMTAIYTVLAEGDDQ 314

Query: 121 SAYIPTNVISITDGQIFLETEL 142
              I     ++ DG I L  +L
Sbjct: 315 QDPIVDCARAVLDGHIVLSRKL 336

Length = 434

>gnl|CDD|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 17/19 (89%), Positives = 17/19 (89%)

Query: 476 IVDVPVGEDLLGRVVDALG 494
           I DVPVGE LLGRVVDALG
Sbjct: 1   IADVPVGEALLGRVVDALG 19

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic. Length = 274

>gnl|CDD|224079 COG1157, FliI, Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

 Score = 41.4 bits (98), Expect = 0.001
 Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 10/50 (20%)

Query: 455 VVVFGNDRL----------IKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           VV F  +R+          +  G  V  TG  + VPVG+ LLGRV+D LG
Sbjct: 64  VVGFNEERVLLMPFEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLG 113

Length = 441

>gnl|CDD|238556 cd01136, ATPase_flagellum-secretory_path_III, Flagellum-specific ATPase/type III secretory pathway virulence-related protein

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 41/178 (23%), Positives = 72/178 (40%), Gaps = 60/178 (33%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALA-------------------------- 223
           L  G++A+D L+ +G+GQR  I      GK+ L                           
Sbjct: 53  LPTGVRAIDGLLTVGKGQRLGIFAGSGVGKSTLLGMIARGTTADVNVIALIGERGREVRE 112

Query: 224 -IDTIIN----QKSIY-------AAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA 271
            I+  +     ++S+        +  L+  A Y+  A+ E+FRD GK  L++ D L++ A
Sbjct: 113 FIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFA 172

Query: 272 VAYRQDEKKKLYCIYVAIGQKRST------VAQIVKRLTDSGAMG--------YTIIV 315
           +A R+        I +A G+  +T      V  ++ RL +             YT++V
Sbjct: 173 MAQRE--------IGLAAGEPPTTKGYPPSVFALLPRLLERAGNSDKGSITAFYTVLV 222

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway. Length = 326

>gnl|CDD|180526 PRK06315, PRK06315, type III secretion system ATPase; Provisional

 Score = 41.4 bits (97), Expect = 0.001
 Identities = 25/73 (34%), Positives = 40/73 (54%), Gaps = 2/73 (2%)

Query: 204 GRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALII 263
           GR  RE I GD   G+  +    I+   S  ++ L+  A Y G A+ E+FRD GK  +++
Sbjct: 203 GREVREFIEGD--LGEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQGKTVVLM 260

Query: 264 YDDLSKQAVAYRQ 276
            D +++ A A R+
Sbjct: 261 MDSVTRFARALRE 273

Length = 442

>gnl|CDD|168181 PRK05688, fliI, flagellum-specific ATP synthase; Validated

 Score = 41.6 bits (98), Expect = 0.001
 Identities = 26/82 (31%), Positives = 40/82 (48%), Gaps = 2/82 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R+++L +  PP  + YP  VF    +L+ER+       GGGS+TA   + ++  D 
Sbjct: 271 AQAQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNAEP--GGGSITAFYTVLSEGDDQ 328

Query: 121 SAYIPTNVISITDGQIFLETEL 142
              I  +   + DG I L   L
Sbjct: 329 QDPIADSARGVLDGHIVLSRRL 350

Length = 451

>gnl|CDD|233237 TIGR01026, fliI_yscN, ATPase FliI/YscN family

 Score = 40.0 bits (94), Expect = 0.002
 Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 1/75 (1%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINV 501
               +    + V ++ +     ++ G  V  TG  + + VG+ LLGRV+D LG +P    
Sbjct: 60  VAEVVGFNGEFVFLMPYEEVEGVRPGSKVLATGEGLSIKVGDGLLGRVLDGLG-KPIDGK 118

Query: 502 GLSVSRVGSAAQTRA 516
           G  +  V +     A
Sbjct: 119 GKFLDNVETEGLITA 133

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins [Energy metabolism, ATP-proton motive force interconversion]. Length = 440

>gnl|CDD|236166 PRK08149, PRK08149, ATP synthase SpaL; Validated

 Score = 40.4 bits (95), Expect = 0.002
 Identities = 27/82 (32%), Positives = 37/82 (45%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R ++L     P R  YP  VF    RLLER          GS+TA   +  ++ + 
Sbjct: 254 ARALRDVALAAGELPARRGYPASVFDSLPRLLERPGATLA----GSITAFYTVLLESEEE 309

Query: 121 SAYIPTNVISITDGQIFLETEL 142
              I   + SI DG I+L  +L
Sbjct: 310 PDPIGDEIRSILDGHIYLSRKL 331

Length = 428

>gnl|CDD|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI

 Score = 40.5 bits (96), Expect = 0.002
 Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 38/124 (30%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTAL--------AIDTI-------------- 227
           L  G++A++ L+ +GRGQR  I      GK+ L          D +              
Sbjct: 121 LDVGVRAINGLLTVGRGQRMGIFAGSGVGKSTLLGMMARYTEADVVVVGLIGERGREVKE 180

Query: 228 -INQ--------KSI-YAAP------LQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA 271
            I          +S+  AA       ++  A +   A+ E+FRD GK  L++ D L++ A
Sbjct: 181 FIEDILGEEGLARSVVVAATADESPLMRLRAAFYATAIAEYFRDQGKDVLLLMDSLTRFA 240

Query: 272 VAYR 275
           +A R
Sbjct: 241 MAQR 244

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively [Cellular processes, Chemotaxis and motility]. Length = 411

>gnl|CDD|181599 PRK08972, fliI, flagellum-specific ATP synthase; Validated

 Score = 40.5 bits (95), Expect = 0.002
 Identities = 28/82 (34%), Positives = 40/82 (48%), Gaps = 2/82 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R+++L +  PP  + YP  VF     L+ER+       G GS+TA   + T+  D+
Sbjct: 265 AQAQREIALAVGEPPATKGYPPSVFAKLPALVERAGNGGP--GQGSITAFYTVLTEGDDL 322

Query: 121 SAYIPTNVISITDGQIFLETEL 142
              I     +I DG I L  EL
Sbjct: 323 QDPIADASRAILDGHIVLSREL 344

Length = 444

>gnl|CDD|169656 PRK09099, PRK09099, type III secretion system ATPase; Provisional

 Score = 40.1 bits (94), Expect = 0.003
 Identities = 31/82 (37%), Positives = 39/82 (47%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R++ L    PP R  +P  VF    RLLER A M E    GS+TAL  +  +    
Sbjct: 266 ARAQREIGLAAGEPPARRGFPPSVFAELPRLLER-AGMGET---GSITALYTVLAEDESG 321

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           S  I   V  I DG + L  E+
Sbjct: 322 SDPIAEEVRGILDGHMILSREI 343

Length = 441

>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional

 Score = 39.4 bits (93), Expect = 0.004
 Identities = 19/47 (40%), Positives = 29/47 (61%)

Query: 448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           L+   V  +  G+   +  GD V+ TG  ++VPVGE +LGR++D LG
Sbjct: 47  LDETTVRAIALGSTSGLARGDEVRNTGGPIEVPVGEAVLGRLLDVLG 93

Length = 461

>gnl|CDD|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta

 Score = 39.4 bits (92), Expect = 0.004
 Identities = 46/218 (21%), Positives = 86/218 (39%), Gaps = 47/218 (21%)

Query: 182 RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYL 241
           RR  K  +   GIKA+D LVP+ RG +  + G    GKT L  + I N            
Sbjct: 114 RRSSKSEVFETGIKAIDVLVPLERGGKAGLFGGAGVGKTVLLTEMIHNMVG--------- 164

Query: 242 APYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVK 301
                                             Q +   ++C    IG++     ++ +
Sbjct: 165 ----------------------------------QHQGVSIFC---GIGERCREGEELYR 187

Query: 302 RLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVA 360
            + ++G +  T++V    ++    ++   ++   M E+FRD+  +  L++ D++ +   A
Sbjct: 188 EMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRDDEKQDVLLLIDNIFRFIQA 247

Query: 361 YRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEA 398
             ++S LL + P R  Y   +    + L ER A  S+ 
Sbjct: 248 GSEVSGLLGQMPSRLGYQPTLGTELAELEERIATTSDG 285

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase. Length = 449

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	539
COG0056	504	AtpA F0F1-type ATP synthase, alpha subunit [Energy	100.0
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	100.0
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	100.0
PTZ00185	574	ATPase alpha subunit; Provisional	100.0
CHL00059	485	atpA ATP synthase CF1 alpha subunit	100.0
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	100.0
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	100.0
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	100.0
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	100.0
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	100.0
PRK04196	460	V-type ATP synthase subunit B; Provisional	100.0
CHL00060	494	atpB ATP synthase CF1 beta subunit	100.0
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	100.0
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	100.0
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	100.0
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06936	439	type III secretion system ATPase; Provisional	100.0
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	100.0
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	100.0
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	100.0
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06820	440	type III secretion system ATPase; Validated	100.0
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	100.0
PRK09099	441	type III secretion system ATPase; Provisional	100.0
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	100.0
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	100.0
PRK02118	436	V-type ATP synthase subunit B; Provisional	100.0
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	100.0
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	100.0
PRK07594	433	type III secretion system ATPase SsaN; Validated	100.0
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	100.0
PRK08149	428	ATP synthase SpaL; Validated	100.0
PRK05922	434	type III secretion system ATPase; Validated	100.0
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	100.0
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	100.0
PRK04192	586	V-type ATP synthase subunit A; Provisional	100.0
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	100.0
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	100.0
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	100.0
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	100.0
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06315	442	type III secretion system ATPase; Provisional	100.0
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	100.0
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	100.0
PRK14698	1017	V-type ATP synthase subunit A; Provisional	100.0
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	100.0
PRK12608	380	transcription termination factor Rho; Provisional	100.0
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	100.0
COG1156	463	NtpB Archaeal/vacuolar-type H+-ATPase subunit B [E	100.0
KOG1353|consensus	340		100.0
PRK12678	672	transcription termination factor Rho; Provisional	100.0
KOG1351|consensus	489		100.0
PRK09376	416	rho transcription termination factor Rho; Provisio	100.0
KOG1350|consensus	521		100.0
TIGR00767	415	rho transcription termination factor Rho. Members	100.0
COG1155	588	NtpA Archaeal/vacuolar-type H+-ATPase subunit A [E	100.0
cd01128	249	rho_factor Transcription termination factor rho is	100.0
KOG1352|consensus	618		100.0
COG1158	422	Rho Transcription termination factor [Transcriptio	100.0
COG0056	504	AtpA F0F1-type ATP synthase, alpha subunit [Energy	99.3
KOG1353|consensus	340		99.14
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.08
PTZ00185	574	ATPase alpha subunit; Provisional	98.68
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	98.4
CHL00059	485	atpA ATP synthase CF1 alpha subunit	98.24
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	98.2
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	98.16
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.96
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	97.96
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.88
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	97.82
PF02874	69	ATP-synt_ab_N: ATP synthase alpha/beta family, bet	97.75
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.7
PRK09302	509	circadian clock protein KaiC; Reviewed	97.64
PRK04196	460	V-type ATP synthase subunit B; Provisional	97.63
smart00382	148	AAA ATPases associated with a variety of cellular	97.53
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.53
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.53
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	97.52
PRK04328	249	hypothetical protein; Provisional	97.49
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	97.48
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.48
PRK09099	441	type III secretion system ATPase; Provisional	97.41
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	97.38
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	97.36
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	97.36
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	97.34
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	97.34
PRK06067	234	flagellar accessory protein FlaH; Validated	97.31
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.25
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	97.22
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	97.21
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.2
PRK06820	440	type III secretion system ATPase; Validated	97.2
CHL00060	494	atpB ATP synthase CF1 beta subunit	97.16
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	97.15
PRK02118	436	V-type ATP synthase subunit B; Provisional	97.14
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	97.13
PRK07594	433	type III secretion system ATPase SsaN; Validated	97.12
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.11
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.1
PRK09354	349	recA recombinase A; Provisional	97.1
PRK06315	442	type III secretion system ATPase; Provisional	97.09
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	97.08
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.07
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.07
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.0
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	96.97
PRK05922	434	type III secretion system ATPase; Validated	96.96
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	96.95
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.94
PRK09302	509	circadian clock protein KaiC; Reviewed	96.94
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.92
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	96.91
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	96.84
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	96.83
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	96.82
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	96.8
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	96.79
PRK06936	439	type III secretion system ATPase; Provisional	96.7
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.68
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	96.67
PRK08149	428	ATP synthase SpaL; Validated	96.67
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.65
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	96.64
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.61
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.48
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.41
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	96.36
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.35
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.21
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	96.2
PRK04192	586	V-type ATP synthase subunit A; Provisional	96.17
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.15
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	96.1
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	96.09
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.91
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.87
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.76
PRK11823	446	DNA repair protein RadA; Provisional	95.68
PTZ00035	337	Rad51 protein; Provisional	95.62
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	95.32
PF13173	128	AAA_14: AAA domain	95.24
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.19
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	95.08
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.05
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	95.01
PF05729	166	NACHT: NACHT domain	94.99
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.95
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	94.89
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.74
COG2256	436	MGS1 ATPase related to the helicase subunit of the	94.51
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.43
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	94.35
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.29
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.27
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.25
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	94.21
PF00004	132	AAA: ATPase family associated with various cellula	94.06
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	93.93
PRK00411	394	cdc6 cell division control protein 6; Reviewed	93.93
KOG0730|consensus	693		93.47
PRK14698	1017	V-type ATP synthase subunit A; Provisional	93.41
PRK05973	237	replicative DNA helicase; Provisional	93.4
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	93.03
PRK08181	269	transposase; Validated	93.03
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	92.94
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	92.94
cd03269	210	ABC_putative_ATPase This subfamily is involved in	92.86
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	92.81
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	92.8
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	92.78
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	92.75
PRK04296	190	thymidine kinase; Provisional	92.75
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	92.73
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	92.67
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	92.62
PRK06893	229	DNA replication initiation factor; Validated	92.61
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	92.58
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	92.55
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	92.51
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	92.48
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	92.46
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	92.45
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	92.39
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	92.38
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	92.34
PRK13342	413	recombination factor protein RarA; Reviewed	92.34
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	92.32
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	92.3
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	92.3
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	92.28
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	92.26
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	92.25
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	92.18
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	92.17
PF00005	137	ABC_tran: ABC transporter This structure is on hol	92.13
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	92.09
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	92.05
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	92.04
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	92.03
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	92.01
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	92.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	91.99
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	91.97
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	91.97
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	91.95
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	91.95
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	91.93
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	91.91
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	91.9
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	91.9
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	91.88
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	91.87
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	91.87
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	91.87
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	91.82
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	91.81
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	91.77
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	91.76
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	91.76
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	91.73
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	91.72
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	91.7
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	91.69
cd03270	226	ABC_UvrA_I The excision repair protein UvrA domain	91.67
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	91.65
PRK08118	167	topology modulation protein; Reviewed	91.63
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	91.62
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	91.61
PRK08727	233	hypothetical protein; Validated	91.59
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	91.55
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	91.55
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	91.53
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	91.52
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	91.5
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	91.49
cd03216	163	ABC_Carb_Monos_I This family represents the domain	91.49
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	91.48
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	91.48
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	91.47
cd03246	173	ABCC_Protease_Secretion This family represents the	91.47
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	91.44
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	91.44
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	91.43
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	91.4
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	91.4
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	91.39
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	91.38
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	91.38
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	91.35
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	91.35
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	91.35
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	91.34
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	91.34
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	91.31
PRK12377	248	putative replication protein; Provisional	91.31
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	91.26
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	91.25
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	91.25
cd03215	182	ABC_Carb_Monos_II This family represents domain II	91.25
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	91.23
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	91.21
PRK10908	222	cell division protein FtsE; Provisional	91.18
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	91.18
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	91.17
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	91.16
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	91.16
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	91.1
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	91.08
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	91.06
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	91.03
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	91.01
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	91.01
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	90.98
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	90.97
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	90.96
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	90.94
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	90.94
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	90.93
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	90.92
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	90.91
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	90.91
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	90.9
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	90.89
PRK07261	171	topology modulation protein; Provisional	90.88
PRK14253	249	phosphate ABC transporter ATP-binding protein; Pro	90.86
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	90.86
COG4619	223	ABC-type uncharacterized transport system, ATPase	90.86
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	90.84
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	90.83
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	90.8
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	90.79
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	90.78
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	90.74
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	90.74
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	90.72
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	90.71
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	90.7
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	90.7
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	90.68
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	90.66
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	90.66
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	90.64
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	90.64
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	90.62
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	90.61
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	90.61
PRK11308	327	dppF dipeptide transporter ATP-binding subunit; Pr	90.61
PRK14270	251	phosphate ABC transporter ATP-binding protein; Pro	90.6
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	90.56
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	90.56
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	90.56
PRK14251	251	phosphate ABC transporter ATP-binding protein; Pro	90.55
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	90.51
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	90.5
cd03115	173	SRP The signal recognition particle (SRP) mediates	90.5
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	90.47
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	90.45
PRK09984	262	phosphonate/organophosphate ester transporter subu	90.44
PRK14268	258	phosphate ABC transporter ATP-binding protein; Pro	90.44
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	90.43
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	90.43
PRK15079	331	oligopeptide ABC transporter ATP-binding protein O	90.42
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	90.41
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	90.4
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	90.4
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	90.39
PRK14271	276	phosphate ABC transporter ATP-binding protein; Pro	90.38
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	90.38
CHL00131	252	ycf16 sulfate ABC transporter protein; Validated	90.34
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	90.29
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	90.28
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	90.28
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	90.28
COG0444	316	DppD ABC-type dipeptide/oligopeptide/nickel transp	90.26
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	90.25
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	90.24
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	90.24
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	90.23
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	90.2
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	90.2
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	90.19
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	90.13
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	90.08
PRK13546	264	teichoic acids export protein ATP-binding subunit;	90.0
PRK14275	286	phosphate ABC transporter ATP-binding protein; Pro	90.0
PRK14527	191	adenylate kinase; Provisional	89.98
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	89.94
PRK06526	254	transposase; Provisional	89.93
cd03234	226	ABCG_White The White subfamily represents ABC tran	89.93
PRK14265	274	phosphate ABC transporter ATP-binding protein; Pro	89.93
COG4167	267	SapF ABC-type antimicrobial peptide transport syst	89.91
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	89.91
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	89.88
PRK14235	267	phosphate transporter ATP-binding protein; Provisi	89.87
PRK13547	272	hmuV hemin importer ATP-binding subunit; Provision	89.86
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	89.85
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	89.84
PRK14260	259	phosphate ABC transporter ATP-binding protein; Pro	89.84
PRK13651	305	cobalt transporter ATP-binding subunit; Provisiona	89.83
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	89.83
PRK09473	330	oppD oligopeptide transporter ATP-binding componen	89.81
KOG0744|consensus	423		89.8
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	89.79
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	89.78
PRK14249	251	phosphate ABC transporter ATP-binding protein; Pro	89.72
cd03291	282	ABCC_CFTR1 The CFTR subfamily domain 1. The cystic	89.69
PRK14974	336	cell division protein FtsY; Provisional	89.69
PRK14264	305	phosphate ABC transporter ATP-binding protein; Pro	89.64
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	89.64
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	89.62
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	89.6
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	89.6
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	89.59
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	89.59
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	89.55
PRK14252	265	phosphate ABC transporter ATP-binding protein; Pro	89.54
CHL00176	638	ftsH cell division protein; Validated	89.5
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	89.49
PRK13639	275	cbiO cobalt transporter ATP-binding subunit; Provi	89.49
PRK14254	285	phosphate ABC transporter ATP-binding protein; Pro	89.49
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	89.49
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	89.45
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	89.41
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	89.37
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	89.37
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	89.36
PRK14263	261	phosphate ABC transporter ATP-binding protein; Pro	89.33
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	89.33
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	89.32
PRK11022	326	dppD dipeptide transporter ATP-binding subunit; Pr	89.28
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	89.25
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	89.2
PRK14259	269	phosphate ABC transporter ATP-binding protein; Pro	89.19
PF13555	62	AAA_29: P-loop containing region of AAA domain	89.18
cd03299	235	ABC_ModC_like Archeal protein closely related to M	89.18
PRK14236	272	phosphate transporter ATP-binding protein; Provisi	89.18
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	89.16
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	89.02
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	89.0
PRK09580	248	sufC cysteine desulfurase ATPase component; Review	88.99
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	88.97
cd03288	257	ABCC_SUR2 The SUR domain 2. The sulfonylurea recep	88.87
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	88.83
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	88.81
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	88.8
PRK14258	261	phosphate ABC transporter ATP-binding protein; Pro	88.8
PRK10416	318	signal recognition particle-docking protein FtsY;	88.77
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	88.7
PRK12608	380	transcription termination factor Rho; Provisional	88.67
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	88.52
PRK03992	389	proteasome-activating nucleotidase; Provisional	88.51
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	88.51
PRK13634	290	cbiO cobalt transporter ATP-binding subunit; Provi	88.5
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	88.47
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	88.46
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	88.44
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	88.36
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	88.35
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	88.3
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	88.24
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	88.2
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	88.15
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	88.15
PRK13536	340	nodulation factor exporter subunit NodI; Provision	88.14
PRK03695	248	vitamin B12-transporter ATPase; Provisional	88.02
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	87.97
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	87.88
PRK09183	259	transposase/IS protein; Provisional	87.82
PRK14257	329	phosphate ABC transporter ATP-binding protein; Pro	87.69
PRK06921	266	hypothetical protein; Provisional	87.65
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	87.64
TIGR00665	434	DnaB replicative DNA helicase. This model describe	87.63
TIGR00235	207	udk uridine kinase. Model contains a number of lon	87.63
PRK08084	235	DNA replication initiation factor; Provisional	87.6
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	87.57
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	87.55
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	87.54
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	87.49
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	87.43
PRK13537	306	nodulation ABC transporter NodI; Provisional	87.38
TIGR03269	520	met_CoM_red_A2 methyl coenzyme M reductase system,	87.35
COG1156	463	NtpB Archaeal/vacuolar-type H+-ATPase subunit B [E	87.35
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	87.32
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	87.29
KOG0733|consensus	802		87.21
COG4172	534	ABC-type uncharacterized transport system, duplica	87.13
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	87.08
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	86.98
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	86.96
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	86.84
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	86.81
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	86.79
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	86.79
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	86.77
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	86.74
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	86.73
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	86.64
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	86.64
PRK11147	635	ABC transporter ATPase component; Reviewed	86.53
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	86.52
PLN03073	718	ABC transporter F family; Provisional	86.49
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	86.45
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	86.43
PRK15064	530	ABC transporter ATP-binding protein; Provisional	86.42
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	86.36
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	86.32
PRK00300	205	gmk guanylate kinase; Provisional	86.31
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	86.3
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	86.3
PRK15134	529	microcin C ABC transporter ATP-binding protein Yej	86.24
PRK05480	209	uridine/cytidine kinase; Provisional	86.12
PRK10938	490	putative molybdenum transport ATP-binding protein	86.1
PRK14531	183	adenylate kinase; Provisional	86.03
TIGR02633	500	xylG D-xylose ABC transporter, ATP-binding protein	86.02
COG0488	530	Uup ATPase components of ABC transporters with dup	85.99
COG1155	588	NtpA Archaeal/vacuolar-type H+-ATPase subunit A [E	85.9
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	85.85
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	85.83
PRK08233	182	hypothetical protein; Provisional	85.71
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	85.6
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	85.52
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	85.51
PRK06217	183	hypothetical protein; Validated	85.51
PRK13341	725	recombination factor protein RarA/unknown domain f	85.45
PF13245	76	AAA_19: Part of AAA domain	85.44
PRK15064	530	ABC transporter ATP-binding protein; Provisional	85.44
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	85.35
PRK09700	510	D-allose transporter ATP-binding protein; Provisio	85.29
PRK10261	623	glutathione transporter ATP-binding protein; Provi	85.22
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	85.2
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	85.18
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	85.11
COG0411	250	LivG ABC-type branched-chain amino acid transport	85.09
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	85.08
PRK10522	547	multidrug transporter membrane component/ATP-bindi	85.06

>COG0056 AtpA F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

Probab=100.00  E-value=3.4e-118  Score=931.36  Aligned_cols=380  Identities=58%  Similarity=0.851  Sum_probs=360.3

Q ss_pred             cCCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccc
Q psy13776         39 ASSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIE  114 (539)
Q Consensus        39 ~~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~  114 (539)
                      |.++++|++++++++|++|+...+.         ++.|.+.+|||+    +||.+.   +.+|+++|+++.+|++||||+
T Consensus         1 ~~~~~~ei~~~i~~~i~~~~~~~~~---------~~~g~V~sv~DgIa~v~Gl~~~---~~~E~~ef~~~v~G~alnle~   68 (504)
T COG0056           1 MQLNPTEISSLIKQQIENFDVEAEV---------KEVGTVISVGDGIARVSGLENV---MAGELVEFPGGVKGMALNLEE   68 (504)
T ss_pred             CCCcHHHHHHHHHHHHHhcchhhhh---------hccceEEEEecceEEEecCchh---hcCceEEecCCcEEEEEeccc
Confidence            3567899999999999999998888         899999999999    888888   999999999999999999999


Q ss_pred             cCCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhccc---c--cccccccccc
Q psy13776        115 TQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQ---K--RKKRRRLLKY  187 (539)
Q Consensus       115 ~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~~---~--~~~r~ri~~~  187 (539)
                         |+|+++++|+...|++|+.|++||+.+.||||++|+|||+  +|+|+||++++..+...+.   .  ...|+.+  +
T Consensus        69 ---d~VG~vi~g~~~~i~eG~~v~~Tg~i~~Vpvg~~llGRVVn~lG~pidgkg~i~~~~~~~~e~~Apgv~~RksV--~  143 (504)
T COG0056          69 ---DSVGAVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGNPIDGKGPIDATKTRPVEKKAPGVMDRKSV--N  143 (504)
T ss_pred             ---cceeEEEecCCccccCCcEEEeeCceEEEecchhhcceeecCCCCccCCCCCccccccCccccccCceeccccc--C
Confidence               9999999999999999999999999999999999999999  9999999999976654331   1  3455556  9


Q ss_pred             ccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhh
Q psy13776        188 NLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDL  267 (539)
Q Consensus       188 epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~  267 (539)
                      |||+|||++||+|+|||||||++|+||+|||||++|+|+|+||+..                                  
T Consensus       144 ePlqTGikaIDamiPIGRGQRELIIGDRQTGKTaIAidtIiNQk~~----------------------------------  189 (504)
T COG0056         144 EPLQTGIKAIDALIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGS----------------------------------  189 (504)
T ss_pred             chhhhhhHHHhhhcccCCCceEEEeccCcCCcchhhHHHHHhcccC----------------------------------
Confidence            9999999999999999999999999999999999999999999854                                  


Q ss_pred             hhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcE
Q psy13776        268 SKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHA  347 (539)
Q Consensus       268 ~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdV  347 (539)
                                   +++|||||||||.++|++++++|+++|+|+||+||+|+++||+++||+|||+|||||||||++|+||
T Consensus       190 -------------~v~CIYVAIGQK~stva~vv~tL~e~gAmdyTiVV~AsASd~a~lqYLaPy~g~a~aE~f~~~G~dv  256 (504)
T COG0056         190 -------------GVKCIYVAIGQKRSTVANVVRTLEEHGAMDYTIVVAASASDSAPLQYLAPYAGCAMAEYFRDNGKDV  256 (504)
T ss_pred             -------------CcEEEEEEcccchHHHHHHHHHHHHcCCccceEEEEecCCcchhhhhhhhhhhhHHHHHHHhcCCeE
Confidence                         5899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCcccccccc
Q psy13776        348 LIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVIS  427 (539)
Q Consensus       348 Lli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~s  427 (539)
                      |+||||||+||.|||||||+++||||||+|||||||+||||||||+++++++|+|||||+|+++|++||+|+|||+|++|
T Consensus       257 LIVyDDLsKhA~AYReiSLLlrRPPGREAyPGDVFYlHSrLLERAakl~~e~g~GSiTALPIIETqagDvSAyIpTNVIS  336 (504)
T COG0056         257 LIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSITALPIIETQAGDVSAYIPTNVIS  336 (504)
T ss_pred             EEEecCchHHHHHHHHHHHHhcCCCCccCCCCceeehhHHHHHHHHhhccccCCCceEeeeeEEeccCceeeecccceEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccc
Q psy13776        428 ITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSR  507 (539)
Q Consensus       428 itDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr  507 (539)
                      ||||||||+.+||++|                                                   ++||||+|+||||
T Consensus       337 ITDGQIfl~t~LFn~G---------------------------------------------------~rPAInvGlSVSR  365 (504)
T COG0056         337 ITDGQIFLETDLFNAG---------------------------------------------------IRPAINVGLSVSR  365 (504)
T ss_pred             ecCCcEEeehhhhhcC---------------------------------------------------CCccccCCceeec
Confidence            9999999999999999                                                   8999999999999


Q ss_pred             cCchhhhHHHHHhh-hhhhHHHHHHHhhhh
Q psy13776        508 VGSAAQTRAMKQTG-KIRSWNGWLSLLKQL  536 (539)
Q Consensus       508 ~~~~~~~~~~~~~~-~~r~~~~~~~~~~~~  536 (539)
                      ||+++|+++|||++ .+|.   .|+.|+|+
T Consensus       366 vGssAQ~kamkkvag~lrl---~laqYrel  392 (504)
T COG0056         366 VGSAAQIKAMKKVAGSLRL---ILAQYREL  392 (504)
T ss_pred             cchHHHHHHHHHHHHHHHH---HHHHHHHH
Confidence            99999999996655 5555   88888876

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=100.00  E-value=5.1e-107  Score=872.23  Aligned_cols=379  Identities=44%  Similarity=0.664  Sum_probs=352.9

Q ss_pred             ChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCC
Q psy13776         42 RAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQA  117 (539)
Q Consensus        42 ~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~  117 (539)
                      .++||+++++++|++|+.+.+.         +..|.+.+|+|+    .|+.++   ..+|++.|+++..|+|+++++   
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~---------~~~G~V~~v~g~ii~v~gl~~~---~~gEl~~i~~~~~g~Vi~l~~---   68 (497)
T TIGR03324         4 VLDKAFQQLDQARESFQPQLTV---------QEVGTVESVSTGIARVHGLPGV---GFEELLRFPGGLLGIAFNVDE---   68 (497)
T ss_pred             CHHHHHHHHHHHHHhcCCCcce---------eEEEEEEEEeceEEEEEccCCC---CcCCEEEECCCcEEEEEEEcC---
Confidence            4789999999999999999888         889999999999    566667   999999998789999999999   


Q ss_pred             CcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccc
Q psy13776        118 GDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSA  192 (539)
Q Consensus       118 d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~T  192 (539)
                      +++++++|+++.||++|+.|++|+++++||||++|||||+  +|+|+||++++.....++   .+|+...|.++++||+|
T Consensus        69 ~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVvd~lG~PiDg~~~~~~~~~~~i~~~~p~~~~R~~v~epl~T  148 (497)
T TIGR03324        69 DEVGVVLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLGRPLDGGGPLASSPRLPIERPAPPIMDRAPVTVPLQT  148 (497)
T ss_pred             CeEEEEEecCCcCCcCCCEEEECCCCCeEECCHhhCcCEECCCCCCcCCCCCCCCCceeehhccCcCccccCCCCchhhc
Confidence            9999999999999999999999999999999999999999  999999999876544322   22333344444999999


Q ss_pred             cceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHH
Q psy13776        193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV  272 (539)
Q Consensus       193 GIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~  272 (539)
                      |||+||+|+|||||||++|||++|||||+|+++||+||++.                                       
T Consensus       149 GI~aID~l~pigrGQR~~Ifg~~g~GKT~Lal~~I~~q~~~---------------------------------------  189 (497)
T TIGR03324       149 GLKVIDALIPIGRGQRELILGDRQTGKTAIAIDTILNQKGR---------------------------------------  189 (497)
T ss_pred             CCEEEeccCCcccCCEEEeecCCCCCHHHHHHHHHHHhcCC---------------------------------------
Confidence            99999999999999999999999999999999999999753                                       


Q ss_pred             HhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEec
Q psy13776        273 AYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYD  352 (539)
Q Consensus       273 ~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~D  352 (539)
                              +++|||++||||+|||++|+++++++++|+||++|++|+|+||++|++|||+||||||||||+|+|||++||
T Consensus       190 --------dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~ap~~a~aiAEyfrd~G~~VLlv~D  261 (497)
T TIGR03324       190 --------NVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQGRDVLIVYD  261 (497)
T ss_pred             --------CcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhCCCCEEEEEc
Confidence                    368999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCcccccccccccee
Q psy13776        353 DLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ  432 (539)
Q Consensus       353 slTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGq  432 (539)
                      ||||||+||||||+++||||+|+||||||||+||||+||||+++...++||||+||+|++|+||++||||||++||||||
T Consensus       262 dlTr~A~A~REisL~lgepPgr~gYPg~vF~~~srLlERag~~~~~~~~GSITal~~V~~~~dD~s~pI~d~v~sItDGq  341 (497)
T TIGR03324       262 DLTQHARAYRELSLLLRRPPGREAFPGDIFYVHSRLLERSTHLNEELGGGSLTALPIIETEAQNISAYIPTNLISITDGQ  341 (497)
T ss_pred             ChhHHHHHHHHHHhhccCCCccCcCCccHHHHhHHHHHhhhhccCCCCCcceeEEEEEEcCCCCCCCcchHhheeccceE
Confidence            99999999999999999999999999999999999999999998766799999999999999999999999999999999


Q ss_pred             EEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh
Q psy13776        433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA  512 (539)
Q Consensus       433 IvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~  512 (539)
                      |||||+||++|                                                   +|||||++.|+||+|+++
T Consensus       342 IvLsr~La~~G---------------------------------------------------~~PAIDv~~SvSRv~~~~  370 (497)
T TIGR03324       342 IYLSPTLFELG---------------------------------------------------VLPAVDVGKSVSRVGGKA  370 (497)
T ss_pred             EEEcHHHHhCC---------------------------------------------------CCCcCCCccccccCCccc
Confidence            99999999999                                                   799999999999999999


Q ss_pred             hhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        513 QTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       513 ~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                      |+++| +.+..+|+   +|+.|+|+
T Consensus       371 ~~~~~~~~a~~lr~---~la~y~e~  392 (497)
T TIGR03324       371 QLAAYRAVAGDLKL---AYAQFEEL  392 (497)
T ss_pred             cCHHHHHHHHHHHH---HHHHHHHH
Confidence            99999 55667777   88999886

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=100.00  E-value=6.8e-106  Score=866.13  Aligned_cols=381  Identities=51%  Similarity=0.761  Sum_probs=354.5

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEecccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIET  115 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~  115 (539)
                      +++++|+.++++++|.+|+.+...         +..|++.+|+|+    .|+.++   ..+|++.|+++..|+|+++++ 
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~---------~~~G~V~~v~g~i~~v~gl~~~---~~ge~~~i~~~~~g~V~~l~~-   68 (502)
T PRK13343          2 KSNADEWLARIRQRIARYEPQPDA---------REIGRVESVGDGIAFVSGLPDA---ALDELLRFEGGSRGFAFNLEE-   68 (502)
T ss_pred             CCCHHHHHHHHHHHHhcCCCccee---------EEeeEEEEEeCCEEEEeCCCCC---CCCCEEEECCCcEEEEEEecC-
Confidence            467899999999999999988877         789999999998    566666   899999998889999999999 


Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLL  190 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl  190 (539)
                        +.+++++|+++.++++|+.|++|+++++||||++|||||+  +|+||||++++...+..+   .+|++..|.++++||
T Consensus        69 --~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVid~lG~piDg~~~i~~~~~~~i~~~ap~~~~R~~v~epl  146 (502)
T PRK13343         69 --ELVGAVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVIDPLGRPLDGGGPLQATARRPLERPAPAIIERDFVTEPL  146 (502)
T ss_pred             --CeEEEEEeeCCCCCCCCCEeEecCCcceeecCHHhcCCEECCCCCcccCCCCCCCCceecccCCCcChhhcCCCCccc
Confidence              9999999999999999999999999999999999999999  999999999886544322   223333333349999


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      +||||+||+|+|||||||++|||++|||||+|+++||+||++.                                     
T Consensus       147 ~TGIkaID~l~pigrGQR~~I~g~~g~GKt~Lal~~i~~~~~~-------------------------------------  189 (502)
T PRK13343        147 QTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAIINQKDS-------------------------------------  189 (502)
T ss_pred             ccCCceeccccccccCCEEEeeCCCCCCccHHHHHHHHhhcCC-------------------------------------
Confidence            9999999999999999999999999999999999999998753                                     


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                                +++|||++||||+|||++|+++++++++|+||+||++|+|+||++||+|||+|||+||||||+|+|||++
T Consensus       190 ----------dv~~V~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atsd~~~~~r~~ap~~a~aiAEyfrd~G~~VLlv  259 (502)
T PRK13343        190 ----------DVICVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQGQDALIV  259 (502)
T ss_pred             ----------CEEEEEEEeccChHHHHHHHHHHHhcCccceeEEEEecccccHHHHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence                      4789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccc
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITD  430 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitD  430 (539)
                      ||||||||+||||||+++||||+|+|||||+||.||||+||||+++..+++||||+||+|+|++||++||||||++||||
T Consensus       260 ~DdlTr~A~A~REisL~l~epPgr~gYP~~vf~~~srLlERAg~~~~~~~gGSITal~~V~~~~dD~s~pI~~~v~sItD  339 (502)
T PRK13343        260 YDDLSKHAAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSPELGGGSLTALPIIETLAGELSAYIPTNLISITD  339 (502)
T ss_pred             ecchHHHHHHHHHHHHhcCCCCCcCCcCcchHhhhHHHHHhhccCCCCCCCcceEEEEEEEcCCCCCCCcchhhhhcccc
Confidence            99999999999999999999999999999999999999999999987778999999999999999999999999999999


Q ss_pred             eeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCc
Q psy13776        431 GQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGS  510 (539)
Q Consensus       431 GqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~  510 (539)
                      |||||||+||++|                                                   +|||||++.|+||+|+
T Consensus       340 GqIvLsr~La~~G---------------------------------------------------~~PAIDv~~SvSRv~~  368 (502)
T PRK13343        340 GQIYLDSDLFAAG---------------------------------------------------QRPAVDVGLSVSRVGG  368 (502)
T ss_pred             eEEEECHHHHhCC---------------------------------------------------CCCccCCccchhccCc
Confidence            9999999999999                                                   7999999999999999


Q ss_pred             hhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        511 AAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       511 ~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                      ++|+++| +.+.++|.   +|+.|+|+
T Consensus       369 ~~~~~~~~~~a~~lr~---~la~y~e~  392 (502)
T PRK13343        369 KAQHPAIRKESGRLRL---DYAQFLEL  392 (502)
T ss_pred             cccCHHHHHHHHHHHH---HHHHHHHH
Confidence            9999999 55667777   89999886

>PTZ00185 ATPase alpha subunit; Provisional

Probab=100.00  E-value=4.4e-105  Score=853.51  Aligned_cols=366  Identities=47%  Similarity=0.694  Sum_probs=329.3

Q ss_pred             ccCceeeecCCe-------eEEccchhhhhcccccc---cCC-eEEEEEeccccCCC-cEEEEcccCCcCCCCCCEEEEe
Q psy13776         73 RPPGREAYPGDV-------FYLHSRLLERSAKMSEA---HGG-GSLTALPVIETQAG-DVSAYIPTNVISITDGQIFLET  140 (539)
Q Consensus        73 e~~G~v~~IGDg-------~gL~~~~~~~~gEVV~f---~~g-~~G~vl~l~~~~~d-~v~l~~~g~~~gi~~G~~V~~t  140 (539)
                      +++|.+.+|+++       +||.++   +++|+|+|   +++ ..|+|+||++   | ++++++|+++.++++|++|++|
T Consensus        38 ~~~G~V~~v~~gia~v~~v~Gl~~~---~~gElv~f~~~~~~~~~G~vlnl~~---d~~v~~v~lg~~~gI~~G~~V~~t  111 (574)
T PTZ00185         38 EMIGYVHSIDGTIATLIPAPGNPGV---AYNTIIMIQVSPTTFAAGLVFNLEK---DGRIGIILMDNITEVQSGQKVMAT  111 (574)
T ss_pred             eeeEEEEEEcCeEEEEeecCCCccc---ccCceEEEEcCCCCeEEEEEEEecC---CCeEEEEEecCccCCCCCCEEEEC
Confidence            689999999773       366667   99999999   434 4899999999   9 6999999999999999999999


Q ss_pred             cccccccCCCcccceeE--eeeccCCC------CCcccch-h--c-cccccccccccccccccccceeeeeeeeccccce
Q psy13776        141 ELFYKVDRGSINCGQLI--IGDRQTGK------TALAIDT-I--I-NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQR  208 (539)
Q Consensus       141 g~~~~VpVG~~LLGRVv--lG~PiDgk------~~i~~~~-~--~-~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR  208 (539)
                      +++++||||++|||||+  +|+|+||+      +++..++ .  + ..+|++..|-++++||+||||+||+|+|||||||
T Consensus       112 g~~~~VpVG~~lLGRVvD~lG~PIDg~~~~~~~g~i~~~~~~~pIe~~ap~~~~R~~v~epL~TGIkaID~LiPIGRGQR  191 (574)
T PTZ00185        112 GKLLYIPVGAGVLGKVVNPLGHEVPVGLLTRSRALLESEQTLGKVDAGAPNIVSRSPVNYNLLTGFKAVDTMIPIGRGQR  191 (574)
T ss_pred             CCccEEECCcccccCEECCCCcccCCCCccccCCCCCcccccccccCCCcChhhcCCCCCcCcCCceeeeccccccCCCE
Confidence            99999999999999999  99999998      4443331 2  1 1223333333449999999999999999999999


Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEe
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVA  288 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~  288 (539)
                      ++||||+|||||+||+++|+||+...                    +                   ...+++.++|||++
T Consensus       192 ~lIfGd~GtGKTtLAld~IinQ~~~~--------------------~-------------------~~~~~~~~v~Vyva  232 (574)
T PTZ00185        192 ELIVGDRQTGKTSIAVSTIINQVRIN--------------------Q-------------------QILSKNAVISIYVS  232 (574)
T ss_pred             EEeecCCCCChHHHHHHHHHhhhhhc--------------------c-------------------ccccCCCCEEEEEE
Confidence            99999999999999999999998430                    0                   00112357999999


Q ss_pred             eccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhcc
Q psy13776        289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLL  368 (539)
Q Consensus       289 IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~l  368 (539)
                      ||||+|||+++++.|+++|+|+||++|++|+|+||++||++||+|||+||||||+|+|||++||||||||+||||||+++
T Consensus       233 IGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REISLll  312 (574)
T PTZ00185        233 IGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQISLLL  312 (574)
T ss_pred             eccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCC
Q psy13776        369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNL  448 (539)
Q Consensus       369 gepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l  448 (539)
                      ||||+|+|||||+||+||||+||||+++...|+||||+||+|+||+||++||||||++|||||||||||+||++|     
T Consensus       313 grpPgRegYPgdVF~lhsrLlERAg~l~~~~G~GSITAlpiV~t~adDis~pIptnviSItDGqIvLsr~Lf~~G-----  387 (574)
T PTZ00185        313 RRPPGREAYPGDVFYLHSRLLERAAMLSPGKGGGSVTALPIVETLSNDVTAYIVTNVISITDGQIYLDTKLFTGG-----  387 (574)
T ss_pred             CCCCCCCCcCccHHHHhHHHHHhcccccCCCCCcceEEEEEEEccCCCCCCcchHhhhhhcCeEEEEcHHHHhCC-----
Confidence            999999999999999999999999999876789999999999999999999999999999999999999999999     


Q ss_pred             CCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHH
Q psy13776        449 EPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWN  527 (539)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~  527 (539)
                                                                    +||||||+.|+||+|+++|+++| +.+..+|.  
T Consensus       388 ----------------------------------------------iyPAIDVl~SvSRvg~~aq~~~~k~vAg~lr~--  419 (574)
T PTZ00185        388 ----------------------------------------------QRPAVNIGLSVSRVGSSAQNVAMKAVAGKLKG--  419 (574)
T ss_pred             ----------------------------------------------CCCCcCCcccccccCCccCCHHHHHHHHHHHH--
Confidence                                                          79999999999999999999999 55667777  


Q ss_pred             HHHHHhhhhh
Q psy13776        528 GWLSLLKQLY  537 (539)
Q Consensus       528 ~~~~~~~~~~  537 (539)
                       +|+.|+|+-
T Consensus       420 -~LaqY~El~  428 (574)
T PTZ00185        420 -ILAEYRKLA  428 (574)
T ss_pred             -HHHHHHHHH
Confidence             999999873

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=100.00  E-value=1.9e-104  Score=849.45  Aligned_cols=357  Identities=54%  Similarity=0.795  Sum_probs=332.8

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccC
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDR  148 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpV  148 (539)
                      +..|.+.+|+|+    .|+.++   ..+|++.|+++..|+|+++++   +++++++|+++.++++|++|++|++.++||+
T Consensus         5 ~~~G~V~~v~~~ii~v~Gl~~~---~~ge~~~i~~~~~g~vi~~~~---~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpv   78 (485)
T CHL00059          5 VNTGTVLQVGDGIARIYGLDEV---MAGELVEFEDGTIGIALNLES---NNVGVVLMGDGLMIQEGSSVKATGKIAQIPV   78 (485)
T ss_pred             eeeEEEEEEeccEEEEeccccC---CcCCEEEECCCCEEEEEEEcC---CEEEEEEeeCCCCCCCCCEEEECCCcceEEc
Confidence            678999999999    667666   999999998889999999999   9999999999999999999999999999999


Q ss_pred             CCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHhH
Q psy13776        149 GSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       149 G~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      |++|||||+  +|+|+||++++......+   .+|.+..|-++++||+||||+||+|+|||||||++|||++|||||+|+
T Consensus        79 g~~llGRVvd~lG~piDg~~~~~~~~~~~i~~~ap~~~~R~~v~epl~TGI~aID~l~pigrGQR~~I~g~~g~GKt~La  158 (485)
T CHL00059         79 SEAYLGRVVNALAKPIDGKGEISASESRLIESPAPGIISRRSVYEPLQTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVA  158 (485)
T ss_pred             CHhhcCCEECCCCCeeCCCCCcCCCccccccCCCCCchhccCCCcccccCceeeccccccccCCEEEeecCCCCCHHHHH
Confidence            999999999  999999998876543222   223333333449999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHH
Q psy13776        224 IDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRL  303 (539)
Q Consensus       224 ~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l  303 (539)
                      ++||+||++.                                               +++|||++||||+|||++|++++
T Consensus       159 l~~I~~q~~~-----------------------------------------------dv~cV~~~IGer~rev~e~~~~l  191 (485)
T CHL00059        159 TDTILNQKGQ-----------------------------------------------NVICVYVAIGQKASSVAQVVTTL  191 (485)
T ss_pred             HHHHHhcccC-----------------------------------------------CeEEEEEEecCCchHHHHHHHHh
Confidence            9999999753                                               47999999999999999999999


Q ss_pred             hcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhh
Q psy13776        304 TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFY  383 (539)
Q Consensus       304 ~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~  383 (539)
                      +++++|+||++|++|+|+||.+||+|||+|||||||||++|+|||++||||||||+||||||+++||||+++||||||||
T Consensus       192 ~~~~~l~~tvvV~atad~~~~~r~~ap~~a~aiAEyfr~~G~~VLlv~DdlTr~A~A~REisl~l~epPgr~gYP~~vF~  271 (485)
T CHL00059        192 QERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFY  271 (485)
T ss_pred             hcccchhceEEEEeCCCCCHHHHHHHHHHHhhHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhcCCCCCcCCcCchHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEeccccc
Q psy13776        384 LHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRL  463 (539)
Q Consensus       384 ~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~  463 (539)
                      .||||+||||++++++++||||+||+|+|++||++||||||++|||||||||||+||++|                    
T Consensus       272 ~~srLlERag~~~~~~~~GSITal~~V~~~~dD~s~pI~~~v~sItDGqIvLsr~La~~G--------------------  331 (485)
T CHL00059        272 LHSRLLERAAKLSSQLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAG--------------------  331 (485)
T ss_pred             HhHHHHHhhhcccCCCCCcceEEEEEEEccCCCCCCcchHhhhhhcceEEEEcHHHHhCC--------------------
Confidence            999999999999877789999999999999999999999999999999999999999999                    


Q ss_pred             ccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        464 IKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       464 ~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                     +||||||++||||+|+++|+++| +.+.++|.   +|+.|+|+
T Consensus       332 -------------------------------~~PAIDv~~SvSRvg~~aq~~~~~~~a~~lr~---~la~y~e~  371 (485)
T CHL00059        332 -------------------------------IRPAINVGISVSRVGSAAQIKAMKQVAGKLKL---ELAQFAEL  371 (485)
T ss_pred             -------------------------------CCCCcCcccchhcCCchhhcHHHHHHHHHHHH---HHHHHHHH
Confidence                                           79999999999999999999999 55677777   88999886

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=100.00  E-value=1e-103  Score=851.85  Aligned_cols=381  Identities=58%  Similarity=0.852  Sum_probs=352.4

Q ss_pred             CChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccC
Q psy13776         41 SRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQ  116 (539)
Q Consensus        41 ~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~  116 (539)
                      ++.+++++++++++++|+++.+.         +..|.+.+|+++    .|+.++   ..+|++.|+++..|+|+++++  
T Consensus         2 ~~~~~~~~~~~~~i~~~~~~~~~---------~~~G~V~~v~g~ii~v~g~~~~---~~ge~~~i~~~~~g~Vi~~~~--   67 (501)
T TIGR00962         2 LKLEEISELIKQEIKNFEKDIEM---------EEVGTVVSVGDGIARVYGLENV---MSGELIEFEGGVQGIALNLEE--   67 (501)
T ss_pred             CChHHHHHHHHHHHHhcCCccee---------EEEEEEEEEeCCEEEEECCcCC---CCCCEEEECCCeEEEEEEecC--
Confidence            35789999999999999999888         789999999998    556556   899999998788999999999  


Q ss_pred             CCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---cccccccccccccccc
Q psy13776        117 AGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLS  191 (539)
Q Consensus       117 ~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~  191 (539)
                       +.+.+++|+++.+++.|+.|++|+++++||+|++|||||+  +|+|+||++++......+   .+|....|.++++||+
T Consensus        68 -~~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~llGRV~d~~G~pld~~~~~~~~~~~~i~~~~p~~~~R~~i~~pl~  146 (501)
T TIGR00962        68 -DSVGAVIMGDYSNIREGSTVKRTGRILKVPVGDGLLGRVVNALGQPIDGKGPIDSDEFRPIEKIAPGVMERKSVHEPLQ  146 (501)
T ss_pred             -CeEEEEEecCCcCCCCCCeeEecCCccEEecChHhcCCEeCCCCCeeCCCCCcCCCCceeeecCCCChhhcCCcCceec
Confidence             9999999999999999999999999999999999999999  999999998875443211   2233334444499999


Q ss_pred             ccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHH
Q psy13776        192 AGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA  271 (539)
Q Consensus       192 TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a  271 (539)
                      ||||+||+|+|||||||++|||++|||||+|+++||+||++.                                      
T Consensus       147 TGi~aID~l~pigrGQr~~I~g~~g~GKt~Lal~~i~~~~~~--------------------------------------  188 (501)
T TIGR00962       147 TGIKAIDAMIPIGRGQRELIIGDRQTGKTAVAIDTIINQKDS--------------------------------------  188 (501)
T ss_pred             cCCceeeccCCcccCCEEEeecCCCCCccHHHHHHHHhhcCC--------------------------------------
Confidence            999999999999999999999999999999988999999753                                      


Q ss_pred             HHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEe
Q psy13776        272 VAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  351 (539)
Q Consensus       272 ~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~  351 (539)
                               +++|||++||||+|||++|+++++++++|+||++|++|+|+||.+|++|||+|||+||||||+|+|||++|
T Consensus       189 ---------dv~~V~~~IGer~rev~e~~~~~~~~~~l~~tvvV~atsd~p~~~r~~a~~~a~aiAEyfrd~G~~VLlv~  259 (501)
T TIGR00962       189 ---------DVYCVYVAIGQKASTVAQVVRKLEEHGAMDYTIVVAATASDSASLQYLAPYTGCTMAEYFRDNGKHALIIY  259 (501)
T ss_pred             ---------CeEEEEEEccCChHHHHHHHHHHHhcCccceeEEEEecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEe
Confidence                     47899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccce
Q psy13776        352 DDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG  431 (539)
Q Consensus       352 DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDG  431 (539)
                      ||+||||+||||||+++||||+++|||||+||.||||+||||++++..|+||||+||+|++|+||++||||||++|||||
T Consensus       260 Ddltr~A~A~REisl~lgepP~~~gYP~~vf~~~srLlERag~~~~~~g~GSITal~~V~~~~dD~s~pI~~~~~sItDG  339 (501)
T TIGR00962       260 DDLSKHAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDEKGGGSLTALPIIETQAGDVSAYIPTNVISITDG  339 (501)
T ss_pred             cchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHHHHHHHHhhccCCCCCcceEEEEEEECCCCCCCCcchHhhhhhcce
Confidence            99999999999999999999999999999999999999999999866678999999999999999999999999999999


Q ss_pred             eEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCch
Q psy13776        432 QIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSA  511 (539)
Q Consensus       432 qIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~  511 (539)
                      ||||||+||++|                                                   +||||||+.|+||+|++
T Consensus       340 qIvLsr~La~~G---------------------------------------------------~~PAIdv~~SvSRv~~~  368 (501)
T TIGR00962       340 QIFLESDLFNSG---------------------------------------------------IRPAINVGLSVSRVGGA  368 (501)
T ss_pred             EEEEcHhHHhCC---------------------------------------------------CCCccCCccchhccCcc
Confidence            999999999999                                                   79999999999999999


Q ss_pred             hhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        512 AQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       512 ~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +|.++| +.+.++|.   +|++|+|+.
T Consensus       369 ~~~~~~~~~a~~lr~---~la~y~e~~  392 (501)
T TIGR00962       369 AQIKAMKQVAGSLRL---ELAQYRELE  392 (501)
T ss_pred             ccCHHHHHHHHHHHH---HHHHHHHHH
Confidence            999999 55677777   899998863

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=2.3e-103  Score=849.32  Aligned_cols=382  Identities=58%  Similarity=0.844  Sum_probs=353.2

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEecccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIET  115 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~  115 (539)
                      +++.+++++++++++++|+.+++.         ...|.+.+|+++    .|+.++   ..+|++.|.++..|+|+++++ 
T Consensus         2 ~~~~~~~~~~~~~~i~~~~~~~~~---------~~~G~V~~v~g~~v~v~g~~~~---~~ge~~~i~~~~~g~Vi~~~~-   68 (502)
T PRK09281          2 QINPEEISAIIKQQIENFDAEAEV---------EEVGTVISVGDGIARVYGLDNV---MAGELLEFPGGVYGIALNLEE-   68 (502)
T ss_pred             CCCHHHHHHHHHHHHHhcCCccee---------EEEEEEEEEeCCEEEEECcccc---ccCCEEEECCCcEEEEEEEcC-
Confidence            346789999999999999999888         788999999988    455555   899999998789999999999 


Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLL  190 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl  190 (539)
                        |.+.+++|+++.|++.|+.|++|+++++||||++|||||+  +|+|+||++++...+..+   .+|++..|.++++||
T Consensus        69 --~~~~~~~~~~~~gi~~g~~V~~~~~~~~v~vg~~llGrv~d~~G~pid~~~~~~~~~~~~i~~~~p~~~~R~~~~~~l  146 (502)
T PRK09281         69 --DNVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLGQPIDGKGPIEATETRPVERKAPGVIDRKSVHEPL  146 (502)
T ss_pred             --CeEEEEEecCcccccCCCeeeecCCceEEecCHHhcCCEEccCCCCcCCCCCCCCCceecccCCCcCccccCCcccee
Confidence              9999999999999999999999999999999999999999  999999998876544322   234444444559999


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      +||||+||+|+|||||||++|||++|+|||+||++||+||+..                                     
T Consensus       147 ~TGi~~ID~l~pigrGQr~~Ifg~~g~GKt~lal~~i~~~~~~-------------------------------------  189 (502)
T PRK09281        147 QTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGK-------------------------------------  189 (502)
T ss_pred             ecCCeeeecccccccCcEEEeecCCCCCchHHHHHHHHHhcCC-------------------------------------
Confidence            9999999999999999999999999999999999999998753                                     


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                                +++|||++||||++||++|+++++++++|+||++|++|+|+||.+|+++||+|||+||||||+|+|||++
T Consensus       190 ----------dv~~V~~~IGer~~ev~e~~~~~~~~~~l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLli  259 (502)
T PRK09281        190 ----------DVICIYVAIGQKASTVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIV  259 (502)
T ss_pred             ----------CeEEEEEEecCChHHHHHHHHHHhhcCCccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEE
Confidence                      4789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccc
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITD  430 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitD  430 (539)
                      ||||||||+||||||+++||||+|+|||||+||.||||+||||+++...++||||+||+|+||+||++||||||++||||
T Consensus       260 ~DdlTr~A~A~REisl~~gepPgr~gyP~~vf~~~s~LlERag~~~~~~~~GSITal~~V~~~~dD~s~pI~d~~~sItD  339 (502)
T PRK09281        260 YDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELGGGSLTALPIIETQAGDVSAYIPTNVISITD  339 (502)
T ss_pred             ecCchHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhhccCCCCCccEEEEEEEECCCCCCCCcchHhhhcccc
Confidence            99999999999999999999999999999999999999999999987667999999999999999999999999999999


Q ss_pred             eeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCc
Q psy13776        431 GQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGS  510 (539)
Q Consensus       431 GqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~  510 (539)
                      |||||||+||++|                                                   +||||||+.|+||+|+
T Consensus       340 GqIvLsr~La~~G---------------------------------------------------~~PAIdv~~SvSRv~~  368 (502)
T PRK09281        340 GQIFLESDLFNAG---------------------------------------------------IRPAINVGISVSRVGG  368 (502)
T ss_pred             eEEEEcHHHHhCC---------------------------------------------------CCCccCCcccccccCC
Confidence            9999999999999                                                   7999999999999999


Q ss_pred             hhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        511 AAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       511 ~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      ++|.++| +.+.++|.   +|++|+|+.
T Consensus       369 ~~~~~~~~~~a~~lr~---~la~y~e~~  393 (502)
T PRK09281        369 AAQIKAMKKVAGTLRL---DLAQYRELE  393 (502)
T ss_pred             ccCCHHHHHHHHHHHH---HHHHHHHHH
Confidence            9999999 55666777   899998863

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=1e-101  Score=831.11  Aligned_cols=348  Identities=36%  Similarity=0.532  Sum_probs=320.1

Q ss_pred             eeeecCCe----eEEccchhhhhcccccccCC--eEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCCC
Q psy13776         77 REAYPGDV----FYLHSRLLERSAKMSEAHGG--GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGS  150 (539)
Q Consensus        77 ~v~~IGDg----~gL~~~~~~~~gEVV~f~~g--~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~  150 (539)
                      ++.+|+|+    +|+.++   +.+|++.|+++  ..|+|+++++   |++++++|+++.++++|++|++||++++||||+
T Consensus         4 ~V~~v~~~i~~v~Gl~~~---~~ge~~~~~~~~~~~g~V~~~~~---~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~   77 (507)
T PRK07165          4 KIKSIFDYIVEVKGEYDY---QQNQFFTLKNNPNVKAFVISATE---DKAYLLINNEKGKIKINDELIELNNTNKVKTSK   77 (507)
T ss_pred             EEEEEeceEEEEEcccCC---CcCCEEEECCCCeEEEEEEEEeC---CeEEEEEccCccCCCCCCEEEECCCccEEECCc
Confidence            46777777    677667   89999999766  8999999999   999999999999999999999999999999999


Q ss_pred             cccceeE--eeeccCCCCCccc-----chhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCch
Q psy13776        151 INCGQLI--IGDRQTGKTALAI-----DTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKT  220 (539)
Q Consensus       151 ~LLGRVv--lG~PiDgk~~i~~-----~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKT  220 (539)
                      +|||||+  +|+|+||++++..     +...+   .++++..|.++++||+||||+||+|+|||||||++||||+|||||
T Consensus        78 ~lLGRVvd~lG~piDg~g~i~~~~~~~~~~~~i~~~ap~~~~R~~v~epL~TGIkaID~l~pigrGQR~~Ifg~~gtGKT  157 (507)
T PRK07165         78 EYFGKIIDIDGNIIYPEAQNPLSKKFLPNTSSIFNLAHGLMTVKTLNEQLYTGIIAIDLLIPIGKGQRELIIGDRQTGKT  157 (507)
T ss_pred             cccCCEECCCCcccCCCCCCCcccccccccccccCCCCCchhhCCCCceeecCchhhhhcCCcccCCEEEeecCCCCCcc
Confidence            9999999  9999999997755     11111   234444444559999999999999999999999999999999999


Q ss_pred             HhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHH
Q psy13776        221 ALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIV  300 (539)
Q Consensus       221 tLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~  300 (539)
                      +|+++||+||+..                                               +++|||++||||+|||++|+
T Consensus       158 ~lal~~I~~q~~~-----------------------------------------------dv~~V~~~IGer~~ev~~~~  190 (507)
T PRK07165        158 HIALNTIINQKNT-----------------------------------------------NVKCIYVAIGQKRENLSRIY  190 (507)
T ss_pred             HHHHHHHHHhcCC-----------------------------------------------CeEEEEEEccCChHHHHHHH
Confidence            9999999999753                                               47899999999999999999


Q ss_pred             HHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCc
Q psy13776        301 KRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGD  380 (539)
Q Consensus       301 ~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~  380 (539)
                      ++++++++|+||++|++|+ |||++||+|||+|||+|||||++ +|||+|||||||||+||||||+++||||+|+|||||
T Consensus       191 ~~l~~~gal~~tvvV~ats-d~~~~r~~ap~~a~tiAEyfrd~-~dVLlv~DdLTr~A~A~REisLllgepPgregYPg~  268 (507)
T PRK07165        191 ETLKEHDALKNTIIIDAPS-TSPYEQYLAPYVAMAHAENISYN-DDVLIVFDDLTKHANIYREIALLTNKPVGKEAFPGD  268 (507)
T ss_pred             HHhhhcCceeeeEEEEeCC-CCHHHHHHHHHHHHHHHHHHHhc-CceEEEEcChHHHHHHHHHHHhhccCCCCccCCCch
Confidence            9999999999999999998 59999999999999999999999 999999999999999999999999999999999999


Q ss_pred             hhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecc
Q psy13776        381 VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGN  460 (539)
Q Consensus       381 vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~  460 (539)
                      |||.||||+||||+++   |+||||+||+|+|++||++||||||++|||||||||||+||++|                 
T Consensus       269 vF~~~srLlERAg~~~---g~GSITalpiV~t~~dDis~pIpdnv~sItDGqIvLsr~L~~~G-----------------  328 (507)
T PRK07165        269 MFFAHSKLLERAGKFK---NRKTITALPILQTVDNDITSLISSNIISITDGQIVTSSDLFASG-----------------  328 (507)
T ss_pred             HHHHhHHHHHhccCCC---CCCceEEEEEEECCCCCCCCcchhhhccccCeEEEEcHHHHhCC-----------------
Confidence            9999999999999975   47999999999999999999999999999999999999999999                 


Q ss_pred             cccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        461 DRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       461 ~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                        +||||||+.|+||+|+++|+++| +.+..+|+   +|+.|+++
T Consensus       329 ----------------------------------~~PAIDvl~SvSRv~~~~q~~~~~~~a~~~r~---~la~Y~e~  368 (507)
T PRK07165        329 ----------------------------------KLPAIDIDLSVSRTGSSVQSKTITKVAGEISK---IYRAYKRQ  368 (507)
T ss_pred             ----------------------------------CCCCcCCccchhhccccccCHHHHHHHHHHHH---HHHHHHHH
Confidence                                              79999999999999999999999 55666777   88888876

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=100.00  E-value=2.5e-98  Score=781.05  Aligned_cols=350  Identities=27%  Similarity=0.369  Sum_probs=323.3

Q ss_pred             hhhhcccccccCceeeecCCeeEEccchh-h-hhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         64 YRQMSLLLRRPPGREAYPGDVFYLHSRLL-E-RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        64 ~~ei~g~~~e~~G~v~~IGDg~gL~~~~~-~-~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      +-++.|+++|+.|+.+++|+.|.+..... . ..+|||+|++              +++.+++|++..|+..|++|.+++
T Consensus        28 v~~v~G~~lea~g~~~~iGelc~i~~~~~~~~~~aEVvgf~~--------------~~~~L~p~~~~~gv~~g~~V~~~~   93 (441)
T COG1157          28 LTRVTGLLLEAVGPQARIGELCKIERSRGSEKVLAEVVGFNE--------------ERVLLMPFEPVEGVSPGAEVVPTG   93 (441)
T ss_pred             EEEEeeeEEEEecCCCcccceEEEEecCCCCceeEEEEEEcC--------------CeEEEeccCccccCCCCCEEEecC
Confidence            46789999999999999999999976432 1 3899999988              569999999999999999999999


Q ss_pred             ccccccCCCcccceeE--eeeccCCCCCcccchhc---ccc--ccccccccccccccccceeeeeeeeccccceeeeecc
Q psy13776        142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQK--RKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD  214 (539)
Q Consensus       142 ~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~--~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~  214 (539)
                      +.+++|+|++|||||+  +|+|+||++.+....+.   ..+  |..|.+|  ++||.||||+||+|+|||+|||+|||++
T Consensus        94 ~~~~v~~g~~lLGRVld~~G~plDg~~~~~~~~~~~l~~~pp~pm~R~~I--~~~l~tGVRaIDgllT~G~GQRiGIFAg  171 (441)
T COG1157          94 RPLSVPVGDALLGRVLDGLGRPLDGGGLPDGTERRPLDAPPPNPLKRRPI--EEPLDTGVRAIDGLLTCGKGQRIGIFAG  171 (441)
T ss_pred             CccccccChhhhhhhhccCCCcCcCCCCCCCcccccccCCCCCchhcccc--cccccccceeeecccccccCceeEEEec
Confidence            9999999999999999  99999997777654432   223  5556666  9999999999999999999999999999


Q ss_pred             CCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchh
Q psy13776        215 RQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRS  294 (539)
Q Consensus       215 ~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~  294 (539)
                      +|+|||||+ .||+++..+                     |                           +.|+++||||+|
T Consensus       172 sGVGKStLL-gMiar~t~a---------------------D---------------------------v~ViaLIGERGR  202 (441)
T COG1157         172 SGVGKSTLL-GMIARNTEA---------------------D---------------------------VNVIALIGERGR  202 (441)
T ss_pred             CCCcHHHHH-HHHhccccC---------------------C---------------------------EEEEEEeeccch
Confidence            999999998 888876544                     3                           789999999999


Q ss_pred             HHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCC
Q psy13776        295 TVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGR  374 (539)
Q Consensus       295 ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r  374 (539)
                      ||+||+++..+.+.++|||+|+||||+||.+|..++++|++|||||||||||||++|||+||||+|+|||+|+.||||.+
T Consensus       203 EVrEFIE~~Lg~egl~rsViVvATSD~s~l~R~~aa~~At~IAEyFRDqG~~VLL~mDSlTRfA~AqREI~LA~GEpP~~  282 (441)
T COG1157         203 EVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTATTIAEYFRDQGKRVLLIMDSLTRFAMAQREIGLAAGEPPAT  282 (441)
T ss_pred             hHHHHHHHhcchhhccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEeecHHHHHHHHHHHHHhcCCCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcc
Q psy13776        375 EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVG  454 (539)
Q Consensus       375 ~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~  454 (539)
                      +||||+||+.++||+||||+.    ++||||+||||++++||++|||+|+++||+||||||||+||++|           
T Consensus       283 kGYppSVF~~LP~LlERaG~~----~~GsITafYTVLveGDD~~dPiaD~~RsILDGHIvLsR~LA~~g-----------  347 (441)
T COG1157         283 KGYPPSVFSELPRLLERAGNG----DKGSITAFYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAEAG-----------  347 (441)
T ss_pred             CCCCchHHHHhHHHHhhcCCC----CCCcEEEEEEEEeecCCCCCchhhhhhhhccceEEeeHhHHhcC-----------
Confidence            999999999999999999984    47999999999999999999999999999999999999999999           


Q ss_pred             cEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHh
Q psy13776        455 VVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLL  533 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~  533 (539)
                                                              +||||||+.|+||+|+++.++.| +.+.++|+   ||++|
T Consensus       348 ----------------------------------------hyPaIdvl~SiSRvm~~i~~~~h~~~a~~~r~---lls~y  384 (441)
T COG1157         348 ----------------------------------------HYPAIDVLASISRVMPQIVSEEHRKAARRLRQ---LLSRY  384 (441)
T ss_pred             ----------------------------------------CCCCcchHHHHHHHhhhcCCHHHHHHHHHHHH---HHHHH
Confidence                                                    69999999999999999999999 88999999   77777


Q ss_pred             hhh
Q psy13776        534 KQL  536 (539)
Q Consensus       534 ~~~  536 (539)
                      ++.
T Consensus       385 ~e~  387 (441)
T COG1157         385 EEN  387 (441)
T ss_pred             HHH
Confidence            764

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=100.00  E-value=1.2e-95  Score=781.87  Aligned_cols=358  Identities=22%  Similarity=0.305  Sum_probs=311.8

Q ss_pred             hcccccccCce-eeecCCeeEEccchhh-hhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCE-EEEeccc
Q psy13776         67 MSLLLRRPPGR-EAYPGDVFYLHSRLLE-RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI-FLETELF  143 (539)
Q Consensus        67 i~g~~~e~~G~-v~~IGDg~gL~~~~~~-~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~-V~~tg~~  143 (539)
                      +++.++++.|. .+.+||.|.+.+.... ..+||++|+           +   |++.+++|+++.|++.|+. |++|+++
T Consensus         8 i~g~iv~v~g~~~~~~ge~~~i~~~~~~~~~geVv~~~-----------~---~~~~l~~~~~t~gi~~g~~~V~~tg~~   73 (458)
T TIGR01041         8 IAGPLVFVEGVEPVAYNEIVEIETPDGEKRRGQVLDSS-----------E---GLAVVQVFEGTTGLDPTGTKVRFTGET   73 (458)
T ss_pred             EEccEEEEEccCCCCcCCEEEEEcCCCcEEEEEEEEEE-----------C---CEEEEEEecCCcCcCCCCcEEEECCCc
Confidence            56667777777 7778888777321111 345555554           4   7899999999999999986 9999999


Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhc---cccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||||++|||||+  +|+|+|+++++..+...   ..++++..|..+++||+||||+||+|+|||||||++|||++|+|
T Consensus        74 ~~v~vg~~lLGRViD~~G~plD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~~ID~l~pig~GQR~gIfgg~G~G  153 (458)
T TIGR01041        74 LKLPVSEDMLGRILNGSGEPIDGGPEIVPDERRDINGAPINPYAREYPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLP  153 (458)
T ss_pred             eEEEcChhhccCEEccCCcccCCCCCCCccceeeccCCCCChhhcCCCCCcCCCCeEEEEccCccccCCEEEeeCCCCCC
Confidence            99999999999999  99999999877554322   22344444555599999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||+|+ .+|++|+..                     |.                     .+++++|||++||||++||++
T Consensus       154 Ks~L~-~~ia~~~~a---------------------d~---------------------~~~~~v~V~~~iGERgrEv~e  190 (458)
T TIGR01041       154 HNELA-AQIARQATV---------------------RG---------------------EESEFAVVFAAMGITYEEANF  190 (458)
T ss_pred             HHHHH-HHHHHhhcc---------------------cC---------------------CCCceEEEEEEccccchHHHH
Confidence            99998 568888764                     10                     123579999999999999999


Q ss_pred             HHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHH-HCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCC
Q psy13776        299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY  377 (539)
Q Consensus       299 ~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFr-d~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gy  377 (539)
                      |++++++.++|+|||+|+||||+||.+|+++||+|||+||||| |||+|||+++||+||||+|+||||+++||||+++||
T Consensus       191 fi~~~~~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~GY  270 (458)
T TIGR01041       191 FMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGY  270 (458)
T ss_pred             HHHHHHhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHHHHhcCCCCCCCCc
Confidence            9999999999999999999999999999999999999999999 799999999999999999999999999999999999


Q ss_pred             CCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEE
Q psy13776        378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVV  457 (539)
Q Consensus       378 Pg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~  457 (539)
                      |||+|+.||+|+||||+++.  .+||||+||+|++|+||++||||||++|||||||||||+||++|              
T Consensus       271 P~svfs~l~~LlERaG~~~~--~~GSITai~tV~~~gdD~~dPI~d~~~sIlDGhivLsr~La~~G--------------  334 (458)
T TIGR01041       271 PGYMYTDLATIYERAGRVKG--KKGSITQMPILTMPGDDITHPIPDLTGYITEGQIVLSRELHRKG--------------  334 (458)
T ss_pred             CccHHHHhHHHHHhcccCCC--CCcceEEEEEEEcCCCCCCCchHHhhhhhcceEEEEcHHHHhCC--------------
Confidence            99999999999999999763  38999999999999999999999999999999999999999999              


Q ss_pred             ecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCch-----hhhHHHHHhhhhhhHHHHHHH
Q psy13776        458 FGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSA-----AQTRAMKQTGKIRSWNGWLSL  532 (539)
Q Consensus       458 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~-----~~~~~~~~~~~~r~~~~~~~~  532 (539)
                                                           +|||||++.|+||+++.     ++.+.|+++++  +++..++.
T Consensus       335 -------------------------------------~yPAIDvl~SvSR~~~~~ig~~~~~~~~~~~a~--~l~~~y~~  375 (458)
T TIGR01041       335 -------------------------------------IYPPINVLPSLSRLMKDGIGEGKTREDHKDVSD--QLYAAYAE  375 (458)
T ss_pred             -------------------------------------CCCccCCccchhhcccccccccccCHHHHHHHH--HHHHHHHH
Confidence                                                 69999999999999876     89999977666  55556666


Q ss_pred             hhhh
Q psy13776        533 LKQL  536 (539)
Q Consensus       533 ~~~~  536 (539)
                      +++|
T Consensus       376 ~~~L  379 (458)
T TIGR01041       376 GRDL  379 (458)
T ss_pred             HHHH
Confidence            6655

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=7.1e-95  Score=777.24  Aligned_cols=342  Identities=23%  Similarity=0.326  Sum_probs=299.9

Q ss_pred             hhccccccc--CC--eEEEEEeccccCCCcEEEEcccCCcCCC-CCCEEEEecccccccCCCcccceeE--eeeccCCCC
Q psy13776         94 RSAKMSEAH--GG--GSLTALPVIETQAGDVSAYIPTNVISIT-DGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKT  166 (539)
Q Consensus        94 ~~gEVV~f~--~g--~~G~vl~l~~~~~d~v~l~~~g~~~gi~-~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~  166 (539)
                      ..+|++.|+  ++  ..|+|+++++   |.+.+++|+++.|++ .|++|.+|+++++||+|++|||||+  +|+|+||++
T Consensus        24 ~~ge~~~i~~~~~~~~~geVi~~~~---~~~~l~~~~~t~gl~i~G~~V~~tg~~~~V~vg~~lLGRVvD~~G~PlD~~~  100 (460)
T PRK04196         24 AYGEIVEIELPNGEKRRGQVLEVSE---DKAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPIDGGP  100 (460)
T ss_pred             CCCCEEEEEcCCCCEEEEEEEEEeC---CeEEEEEccCCCCCCCCCCEEEeCCCccEEEcCcccccCEECccCCCccCCC
Confidence            455555553  22  3567777777   899999999999999 8999999999999999999999999  999999998


Q ss_pred             Ccccchhc---cccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhcccccccccc
Q psy13776        167 ALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAP  243 (539)
Q Consensus       167 ~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~  243 (539)
                      ++......   ..++++..|..+++||+||||+||+|+|||||||++|||++|+|||+|+ .+|++|+..          
T Consensus       101 ~i~~~~~~~i~~~ap~~l~R~~i~epl~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L~-~~ia~~~~~----------  169 (460)
T PRK04196        101 EIIPEKRLDINGAPINPVAREYPEEFIQTGISAIDGLNTLVRGQKLPIFSGSGLPHNELA-AQIARQAKV----------  169 (460)
T ss_pred             CCCCCccCcccCCCCChhhcCCCCccccCCeEEEeccCcccCCCEEEeeCCCCCCccHHH-HHHHHhhhh----------
Confidence            87544322   1223333344449999999999999999999999999999999999998 568888754          


Q ss_pred             ccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCCh
Q psy13776        244 YSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAA  323 (539)
Q Consensus       244 ~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a  323 (539)
                                 |+                     .+++++|||++||||+|||+||++++++.++|+||++|+||||+||
T Consensus       170 -----------d~---------------------~~~~~v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~  217 (460)
T PRK04196        170 -----------LG---------------------EEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPA  217 (460)
T ss_pred             -----------cc---------------------CCCceEEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCH
Confidence                       20                     1235899999999999999999999999999999999999999999


Q ss_pred             hhhhhhhHHHHHHHHHHH-HCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCc
Q psy13776        324 PLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG  402 (539)
Q Consensus       324 ~~r~~ap~~a~tiAEyFr-d~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~G  402 (539)
                      .+|+++||+||||||||| |||+|||++|||+||||+||||||+++||||+++|||||+|+.||+|+||||+++.  .+|
T Consensus       218 ~~R~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~gYP~~vf~~l~~LlERaG~~~~--~~G  295 (460)
T PRK04196        218 IERILTPRMALTAAEYLAFEKGMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIKG--KKG  295 (460)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCcEEEEEcChHHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhcCCC--CCe
Confidence            999999999999999999 79999999999999999999999999999999999999999999999999999763  389


Q ss_pred             cceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccc
Q psy13776        403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVG  482 (539)
Q Consensus       403 SITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~  482 (539)
                      |||+||+|++++||++||||||++|||||||||||+||++|                                       
T Consensus       296 SITai~~V~~~gdD~~dpI~d~~~sI~DG~ivLsr~La~~g---------------------------------------  336 (460)
T PRK04196        296 SITQIPILTMPDDDITHPIPDLTGYITEGQIVLSRELHRKG---------------------------------------  336 (460)
T ss_pred             eeEEEEEEEcCCCCCCCchhhhhhhhcceEEEEcHHHHhCC---------------------------------------
Confidence            99999999999999999999999999999999999999999                                       


Q ss_pred             cccchhhccccCCCccccccccccccCchh-----hhHHHHHhhhhhhHHHHHHHhhhh
Q psy13776        483 EDLLGRVVDALGIRPAINVGLSVSRVGSAA-----QTRAMKQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       483 ~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~-----~~~~~~~~~~~r~~~~~~~~~~~~  536 (539)
                                  +|||||+++|+||+++.+     |.+.|++++.-  +...|+.|++|
T Consensus       337 ------------~~PAIDvl~SvSR~~~~~~~~~~~~~~~~~~a~~--l~~~y~~~~~l  381 (460)
T PRK04196        337 ------------IYPPIDVLPSLSRLMKDGIGEGKTREDHKDVANQ--LYAAYARGKDL  381 (460)
T ss_pred             ------------CCCccCCccchhhhccccCCcccCcHHHHHHHHH--HHHHHHHHHHH
Confidence                        699999999999997654     44888554443  44577777765

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=100.00  E-value=3.8e-93  Score=763.80  Aligned_cols=354  Identities=20%  Similarity=0.241  Sum_probs=314.8

Q ss_pred             hhcccccccCceeeec---CCeeEEccch--h---hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEE
Q psy13776         66 QMSLLLRRPPGREAYP---GDVFYLHSRL--L---ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIF  137 (539)
Q Consensus        66 ei~g~~~e~~G~v~~I---GDg~gL~~~~--~---~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V  137 (539)
                      ++.|+++++.|+.+.+   |+.|.+....  .   ...+||++|.+.             +.+.+++|+++.|++.|++|
T Consensus        21 ~v~G~viev~~~~~~iP~ig~~~~i~~~~~~~~~~~~~~EVvg~~~~-------------~~v~~~~l~~~~gi~~G~~V   87 (494)
T CHL00060         21 QIIGPVLDVAFPPGKMPNIYNALVVKGRDTAGQEINVTCEVQQLLGN-------------NRVRAVAMSATDGLMRGMEV   87 (494)
T ss_pred             EEEccEEEEEecCCCcCCcCCEEEEccCCCCCccceEEEEEEEEeCC-------------CeEEEEeccCccCCCCCCEE
Confidence            4577888999988888   9999994322  1   267899999872             55999999999999999999


Q ss_pred             EEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeee
Q psy13776        138 LETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELII  212 (539)
Q Consensus       138 ~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~  212 (539)
                      .+|+++++||||++|||||+  +|+|+||++++...+..+   .++++..|..+++||+||||+||+|+|||||||++||
T Consensus        88 ~~tg~~~~vpvg~~lLGRVid~~G~piDg~~~~~~~~~~pi~~~~p~~~~R~~i~e~L~TGIraID~l~pigkGQR~gIf  167 (494)
T CHL00060         88 IDTGAPLSVPVGGATLGRIFNVLGEPVDNLGPVDTRTTSPIHRSAPAFIQLDTKLSIFETGIKVVDLLAPYRRGGKIGLF  167 (494)
T ss_pred             EeCCCcceeecchhhcCCEEeecCcccCCCCCCCCCccccccCCCcCchhcccccceeecCceeeeccCCcccCCEEeee
Confidence            99999999999999999999  999999998775433212   2233333333499999999999999999999999999


Q ss_pred             ccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccc
Q psy13776        213 GDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQK  292 (539)
Q Consensus       213 g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer  292 (539)
                      |++|+|||+|+.+++.||+..                                              ++++|||++||||
T Consensus       168 gg~GvGKs~L~~~~~~~~~~~----------------------------------------------~~dv~V~~lIGER  201 (494)
T CHL00060        168 GGAGVGKTVLIMELINNIAKA----------------------------------------------HGGVSVFGGVGER  201 (494)
T ss_pred             cCCCCChhHHHHHHHHHHHHh----------------------------------------------cCCeEEEEEeccC
Confidence            999999999998888776643                                              1247999999999


Q ss_pred             hhHHHHHHHHHhcCCC-------CceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCC-cEEEEecChhHHHHHhHHh
Q psy13776        293 RSTVAQIVKRLTDSGA-------MGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK-HALIIYDDLSKQAVAYRQM  364 (539)
Q Consensus       293 ~~ev~e~~~~l~~~~~-------~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~Gk-dVLli~DslTr~A~A~Rei  364 (539)
                      +|||+||++++++.++       ++||++|++|+|+||.+|+++||+|+|+||||||+|+ |||++|||+||||+|+|||
T Consensus       202 grEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~A~A~REI  281 (494)
T CHL00060        202 TREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEV  281 (494)
T ss_pred             chHHHHHHHHHHhcCccccCcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHHHHHHHHH
Confidence            9999999999999555       4588999999999999999999999999999999986 9999999999999999999


Q ss_pred             hhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccC
Q psy13776        365 SLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM  444 (539)
Q Consensus       365 sl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~  444 (539)
                      |+++||||+++|||||+|+.||+|+||||+.+    +||||+||+|++++||++|||||+++|||||||||||+||++| 
T Consensus       282 sl~~gepP~~~GYPpsvfs~l~~LlERaG~~~----~GSITai~tVl~~gdD~tdPI~d~~~silDGhIvLsr~La~~G-  356 (494)
T CHL00060        282 SALLGRMPSAVGYQPTLSTEMGSLQERITSTK----EGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKG-  356 (494)
T ss_pred             HHhcCCCCCCCCcCCCHHHHhHHHHHhccCCC----CCCeeEEEEEECCCCCCCCcchHhhhhhcceEEEEcHHHHhCC-
Confidence            99999999999999999999999999999853    6999999999999999999999999999999999999999999 


Q ss_pred             cCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccccccccccc-CchhhhHHH-HHhhh
Q psy13776        445 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRV-GSAAQTRAM-KQTGK  522 (539)
Q Consensus       445 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~-~~~~~~~~~-~~~~~  522 (539)
                                                                        +|||||++.|+||+ ++....++| +.+.+
T Consensus       357 --------------------------------------------------~yPAIDvl~SvSR~~~~~~v~~~h~~~a~~  386 (494)
T CHL00060        357 --------------------------------------------------IYPAVDPLDSTSTMLQPRIVGEEHYETAQR  386 (494)
T ss_pred             --------------------------------------------------CCCCcCCccchhhhcccccCCHHHHHHHHH
Confidence                                                              79999999999998 888888888 77888


Q ss_pred             hhhHHHHHHHhhhh
Q psy13776        523 IRSWNGWLSLLKQL  536 (539)
Q Consensus       523 ~r~~~~~~~~~~~~  536 (539)
                      +|+   +|++|+|+
T Consensus       387 ~r~---~la~y~e~  397 (494)
T CHL00060        387 VKQ---TLQRYKEL  397 (494)
T ss_pred             HHH---HHHHhHHH
Confidence            888   88888875

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=100.00  E-value=5.9e-93  Score=757.80  Aligned_cols=353  Identities=20%  Similarity=0.275  Sum_probs=316.0

Q ss_pred             hhcccccccCceeeecCCee---EEccchh-hhhccccc-ccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEe
Q psy13776         66 QMSLLLRRPPGREAYPGDVF---YLHSRLL-ERSAKMSE-AHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLET  140 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~---gL~~~~~-~~~gEVV~-f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~t  140 (539)
                      ++.|+++++.|+.+.+|+.|   .+..... ...+|||+ |++              +.+.+++|+++.|++.|+.|.+|
T Consensus         7 ~v~g~~ie~~~~~~~ig~~~~~l~i~~~~~~~~~~eVv~~~~~--------------~~v~l~~l~~~~gi~~G~~V~~t   72 (461)
T TIGR01039         7 QVIGPVVDVEFEQGELPRIYNALKVQNRAESELTLEVAQHLGD--------------DTVRTIAMGSTDGLVRGLEVIDT   72 (461)
T ss_pred             EEEeeEEEEEECCCCCcchheEEEEecCCCceEEEEeeeeeCC--------------CeEEEEEccCcccCCCCCEEEeC
Confidence            46788899999999999999   7732122 26678888 776              66999999999999999999999


Q ss_pred             cccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccC
Q psy13776        141 ELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDR  215 (539)
Q Consensus       141 g~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~  215 (539)
                      +++++||+|++|||||+  +|+|+||++++.....++   .+|++..|..+++||+||||+||+|+|||||||++|||++
T Consensus        73 ~~~~~i~vg~~lLGRViD~~G~pid~~~~~~~~~~~pi~~~~p~~~~R~~~~e~l~TGiraID~l~pig~GQr~~If~~~  152 (461)
T TIGR01039        73 GAPISVPVGKETLGRIFNVLGEPIDEKGPIPAKERWPIHRKAPSFEEQSTKVEILETGIKVIDLLAPYAKGGKIGLFGGA  152 (461)
T ss_pred             CCceEEEcChhhcCCEEccCCcccCCCCCCCCCcccccccCCCChhHcCCcccccccCceeecccCCcccCCEEEeecCC
Confidence            99999999999999999  999999998775443222   2333444444499999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhH
Q psy13776        216 QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRST  295 (539)
Q Consensus       216 gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~e  295 (539)
                      |+|||+|+.+++.|+...                                              .+.+|||++||||+||
T Consensus       153 G~GKt~L~~~~~~~~~~~----------------------------------------------~~~v~V~alIGER~rE  186 (461)
T TIGR01039       153 GVGKTVLIQELINNIAKE----------------------------------------------HGGYSVFAGVGERTRE  186 (461)
T ss_pred             CCChHHHHHHHHHHHHhc----------------------------------------------CCCeEEEEEecCCchH
Confidence            999999996655555421                                              1247999999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhccCCCCCC
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGR  374 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~lgepP~r  374 (539)
                      |+||++++++.++|+||++|+||||+||.+|+++||+|+|+|||||| +|+|||+++||+||||+|+||||+++||||++
T Consensus       187 v~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl~~gepP~~  266 (461)
T TIGR01039       187 GNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSA  266 (461)
T ss_pred             HHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeeEEEecchhHHHHHHHHHHHhcCCCCCC
Confidence            99999999999999999999999999999999999999999999999 89999999999999999999999999999999


Q ss_pred             CCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcc
Q psy13776        375 EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVG  454 (539)
Q Consensus       375 ~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~  454 (539)
                      +||||++|+.||+|+||||+.    ++||||+||+|++++||++|||||+++||+||||+|||+||++|           
T Consensus       267 ~GYPpsvfs~l~~L~ERag~~----~~GSITai~tVl~~gdD~~dPi~d~~~silDGhIvLsr~La~~g-----------  331 (461)
T TIGR01039       267 VGYQPTLATEMGELQERITST----KTGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRKIAELG-----------  331 (461)
T ss_pred             CCcCCcHHHHHHHHHHhcCCC----CCCceeEEEEEEccCCCCCCccHHHHHHhcceEEEECHHHHhCC-----------
Confidence            999999999999999999973    48999999999999999999999999999999999999999999           


Q ss_pred             cEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC-chhhhHHH-HHhhhhhhHHHHHHH
Q psy13776        455 VVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG-SAAQTRAM-KQTGKIRSWNGWLSL  532 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~-~~~~~~~~-~~~~~~r~~~~~~~~  532 (539)
                                                              +|||||++.|+||+| +..+.+.| +.+.++|+   +|++
T Consensus       332 ----------------------------------------~yPAIDvl~S~SR~~~~~~~~~~h~~~a~~~r~---~la~  368 (461)
T TIGR01039       332 ----------------------------------------IYPAVDPLDSTSRLLDPSVVGEEHYDVARGVQQ---ILQR  368 (461)
T ss_pred             ----------------------------------------CCCCcCCccccccccCCccCCHHHHHHHHHHHH---HHHh
Confidence                                                    799999999999999 77788888 66778888   8888


Q ss_pred             hhhh
Q psy13776        533 LKQL  536 (539)
Q Consensus       533 ~~~~  536 (539)
                      |+|+
T Consensus       369 y~e~  372 (461)
T TIGR01039       369 YKEL  372 (461)
T ss_pred             hhHH
Confidence            8876

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=100.00  E-value=8.5e-93  Score=755.00  Aligned_cols=354  Identities=21%  Similarity=0.289  Sum_probs=303.4

Q ss_pred             hhcccccccCce-eeecCCeeEEccchhh-hhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCC-CCEEEEecc
Q psy13776         66 QMSLLLRRPPGR-EAYPGDVFYLHSRLLE-RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITD-GQIFLETEL  142 (539)
Q Consensus        66 ei~g~~~e~~G~-v~~IGDg~gL~~~~~~-~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~-G~~V~~tg~  142 (539)
                      ++.|.++++.|+ .+.+||.|.+....+. ..+||++|++              +.+.+++|+++.|++. |++|++|++
T Consensus         7 ~i~G~~i~~~g~~~~~~Ge~~~i~~~~~~~~~geVi~~~~--------------~~~~l~~~~~~~gi~~~g~~V~~t~~   72 (466)
T TIGR01040         7 GVNGPLVILDNVKFPRFAEIVNLTLPDGTVRSGQVLEVSG--------------NKAVVQVFEGTSGIDAKKTTCEFTGD   72 (466)
T ss_pred             EEEccEEEEECCCCCCcCCEEEEEeCCCCEEEEEEEEEeC--------------CeEEEEEcCCCCCcccCCCEEEECCC
Confidence            467888899998 9999999999421222 3566666655              7799999999999997 999999999


Q ss_pred             cccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +++||||++|||||+  +|+|+||++++..+...+   .++++..|..+++||+||||+||+|+|||||||++|||++|+
T Consensus        73 ~~~v~vg~~lLGRVid~~G~piD~~~~~~~~~~~~i~~~~~~~~~R~~i~e~l~TGI~aID~l~~ig~GQRigIfagsGv  152 (466)
T TIGR01040        73 ILRTPVSEDMLGRVFNGSGKPIDKGPPVLAEDYLDINGQPINPYARIYPEEMIQTGISAIDVMNSIARGQKIPIFSAAGL  152 (466)
T ss_pred             ccEEEcCcccccCEECccccccCCCCCCCCCceeeccCCCCChhHcCCCCCeeecCcEEEeccCccccCCeeeeecCCCC
Confidence            999999999999999  999999998875443222   234444444459999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+ .+|++|+.....        ..+       |           +       ...++++++|||++|||| +|+.
T Consensus       153 GKs~L~-~~i~~~~~~~~~--------~~a-------D-----------~-------~~~~~~~~v~V~a~IGer-re~~  197 (466)
T TIGR01040       153 PHNEIA-AQICRQAGLVKL--------PTK-------D-----------V-------HDGHEDNFAIVFAAMGVN-META  197 (466)
T ss_pred             CHHHHH-HHHHHhhccccc--------ccc-------c-----------c-------ccccCCceEEEEEEeeee-hHHH
Confidence            999998 679988752000        000       1           0       011234689999999999 6666


Q ss_pred             HH-HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHH-HCCCcEEEEecChhHHHHHhHHhhhccCCCCCCC
Q psy13776        298 QI-VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGRE  375 (539)
Q Consensus       298 e~-~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFr-d~GkdVLli~DslTr~A~A~Reisl~lgepP~r~  375 (539)
                      +| .+.|.++++|+||++|++|||+||.+|+++||+|||+||||| ++|+|||+++|||||||+|+||||+++||||+++
T Consensus       198 efi~~~l~~~g~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~A~REisl~~gepP~~~  277 (466)
T TIGR01040       198 RFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRR  277 (466)
T ss_pred             HHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHHHHHHHHHhcCCCCCCc
Confidence            64 555777888999999999999999999999999999999999 6999999999999999999999999999999999


Q ss_pred             CCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCccc
Q psy13776        376 AYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGV  455 (539)
Q Consensus       376 gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~  455 (539)
                      |||||||+.||+|+||||+++.  ++||||+||+|++++||++|||||+++|||||||||||+||++|            
T Consensus       278 GYP~svfs~l~~L~ERaG~~~~--~~GSITai~tV~~~~dD~~~pI~d~~~sIlDGhIvLsr~La~~g------------  343 (466)
T TIGR01040       278 GFPGYMYTDLATIYERAGRVEG--RNGSITQIPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQ------------  343 (466)
T ss_pred             CcCchHHHHHHHHhhccccCCC--CCcceEEEEEEECCCCCCCCcchhhhhhhcceEEEECHHHHhCC------------
Confidence            9999999999999999999753  47999999999999999999999999999999999999999999            


Q ss_pred             EEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhh-----HHHHHhh
Q psy13776        456 VVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQT-----RAMKQTG  521 (539)
Q Consensus       456 ~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~-----~~~~~~~  521 (539)
                                                             +||||||+.|+||+|+.+++     +.|.+.+
T Consensus       344 ---------------------------------------~yPAIDvl~SvSRl~~~v~~~~~~~~~h~~~a  375 (466)
T TIGR01040       344 ---------------------------------------IYPPINVLPSLSRLMKSAIGEGMTRKDHSDVS  375 (466)
T ss_pred             ---------------------------------------CCCccCCccchhhccccccccCcCcHHHHHHH
Confidence                                                   79999999999999999988     5664443

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=100.00  E-value=1.2e-92  Score=757.08  Aligned_cols=353  Identities=20%  Similarity=0.259  Sum_probs=315.6

Q ss_pred             hhcccccccCceee---ecCCeeEEc-cchhhhhccccc-ccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEe
Q psy13776         66 QMSLLLRRPPGREA---YPGDVFYLH-SRLLERSAKMSE-AHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLET  140 (539)
Q Consensus        66 ei~g~~~e~~G~v~---~IGDg~gL~-~~~~~~~gEVV~-f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~t  140 (539)
                      ++.|.++++.|+.+   .+||.|.+. .......+|||+ |++              +.+.+++|+++.|++.|+.|.+|
T Consensus         8 ~i~g~~v~~~~~~~~~~~ige~~~i~~~~~~~~~~EVv~~~~~--------------~~~~~~~~~~~~gi~~G~~V~~t   73 (463)
T PRK09280          8 QVIGPVVDVEFPRGELPKIYNALEVEKGDGKKLVLEVAQHLGD--------------GVVRTIAMGSTDGLVRGMEVIDT   73 (463)
T ss_pred             EEEccEEEEEeCCCCCccccCEEEEEeCCCCeEEEEeeEEecC--------------CeEEEEEecCccCCCCCCEEEeC
Confidence            46778888888877   999999993 112236778888 776              56999999999999999999999


Q ss_pred             cccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccC
Q psy13776        141 ELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDR  215 (539)
Q Consensus       141 g~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~  215 (539)
                      +++++||+|++|||||+  +|+|||+++++.....++   .++++..|..+++||.||||+||+|+|||||||++|||++
T Consensus        74 g~~~~v~vg~~lLGRViD~~G~pld~~~~~~~~~~~pi~~~~~~~~~R~~~~~~l~TGiraID~l~pigkGQR~gIfa~~  153 (463)
T PRK09280         74 GAPISVPVGKATLGRIFNVLGEPIDEKGPIGAEERWPIHRKAPSFEELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGA  153 (463)
T ss_pred             CCceEEEcChhhcCCEEeeeccccCCCCCcCccceecccCCCCChHHhCCccceeccCCeeecccCCcccCCEEEeecCC
Confidence            99999999999999999  999999998775444322   2344444444599999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhH
Q psy13776        216 QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRST  295 (539)
Q Consensus       216 gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~e  295 (539)
                      |+|||+|+.+++.|++..                                              ...+|||++||||++|
T Consensus       154 GvGKt~Ll~~i~~~~~~~----------------------------------------------~~~v~V~~liGER~rE  187 (463)
T PRK09280        154 GVGKTVLIQELINNIAKE----------------------------------------------HGGYSVFAGVGERTRE  187 (463)
T ss_pred             CCChhHHHHHHHHHHHhc----------------------------------------------CCCEEEEEEeccCcHH
Confidence            999999996655555431                                              1247999999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhccCCCCCC
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGR  374 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~lgepP~r  374 (539)
                      |+||++++.+.++|+||++|+||||+||.+|+++||+|+|+|||||| ||+|||+++||+||||+|+||||+++||||++
T Consensus       188 v~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl~~gepP~~  267 (463)
T PRK09280        188 GNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVALTGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSA  267 (463)
T ss_pred             HHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEecchHHHHHHHHHHHHhcCCCCcc
Confidence            99999999999999999999999999999999999999999999999 99999999999999999999999999999999


Q ss_pred             CCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcc
Q psy13776        375 EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVG  454 (539)
Q Consensus       375 ~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~  454 (539)
                      +||||++|+.||+|+||||+.    ++||||+||+|++++||++|||||+++||+||||+|||+||++|           
T Consensus       268 ~GYPpsvfs~l~~L~ERag~~----~~GSITai~tVl~~gdD~~dPI~d~~~silDGhIvLsr~La~~g-----------  332 (463)
T PRK09280        268 VGYQPTLATEMGQLQERITST----KKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAELG-----------  332 (463)
T ss_pred             cCcCchHHHHHHHHHHHhcCC----CCCceeEEEEEECcCCCCCCcchHhhhhhcceEEEEcHHHHhCC-----------
Confidence            999999999999999999973    48999999999999999999999999999999999999999999           


Q ss_pred             cEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC-chhhhHHH-HHhhhhhhHHHHHHH
Q psy13776        455 VVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG-SAAQTRAM-KQTGKIRSWNGWLSL  532 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~-~~~~~~~~-~~~~~~r~~~~~~~~  532 (539)
                                                              +|||||++.|+||+| +..+++.| +.+.++|+   +|++
T Consensus       333 ----------------------------------------~yPAIDvl~S~SR~~~~~~~~~~~~~~a~~~r~---~la~  369 (463)
T PRK09280        333 ----------------------------------------IYPAVDPLDSTSRILDPLIVGEEHYDVAREVQQ---ILQR  369 (463)
T ss_pred             ----------------------------------------CCCccCCccccccccccccCCHHHHHHHHHHHH---HHHH
Confidence                                                    699999999999999 45677899 77888888   8888


Q ss_pred             hhhh
Q psy13776        533 LKQL  536 (539)
Q Consensus       533 ~~~~  536 (539)
                      |+++
T Consensus       370 y~e~  373 (463)
T PRK09280        370 YKEL  373 (463)
T ss_pred             hHHH
Confidence            8875

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=1.7e-92  Score=751.46  Aligned_cols=370  Identities=21%  Similarity=0.292  Sum_probs=326.7

Q ss_pred             HHHHHHhcCcchh-hhhhhhcccccccCceeeecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccC
Q psy13776         49 ILEERILGSAPKA-VAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTN  127 (539)
Q Consensus        49 ~l~~~i~~~~~~~-~~~~ei~g~~~e~~G~v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~  127 (539)
                      .+|+++..+.... --..++.|+++++.|+.+.+||.|.+........+|||+|++              +.+.+++|++
T Consensus        13 ~~~~~~~~~~~~~~G~v~~v~g~~i~~~g~~~~ige~~~i~~~~~~~~~EVv~~~~--------------~~~~l~~~~~   78 (444)
T PRK08972         13 QYKVKVPPFRAVASGKLVRVVGLTLEATGCRAPVGSLCSIETMAGELEAEVVGFDG--------------DLLYLMPIEE   78 (444)
T ss_pred             HHhhccCCCCcceeeEEEEEEcCEEEEeeCCCCCCCEEEEecCCCcEEEEEEEecC--------------CEEEEEECCC
Confidence            3566776554332 123568899999999999999999994322347889999987              6699999999


Q ss_pred             CcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhc---cccccccccccccccccccceeeeeeee
Q psy13776        128 VISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVP  202 (539)
Q Consensus       128 ~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~p  202 (539)
                      +.|++.|++|++|+++++||+|++|||||+  +|+|+||++++..++..   ..++++..|..+++||+||+++||.++|
T Consensus        79 ~~gi~~g~~V~~tg~~~~v~vg~~llGRVid~~G~plD~~~~~~~~~~~~i~~~~~~p~~R~~i~e~l~TGi~aID~ll~  158 (444)
T PRK08972         79 LRGVLPGARVTPLGEQSGLPVGMSLLGRVIDGVGNPLDGLGPIYTDQRASRHSPPINPLSRRPITEPLDVGVRAINAMLT  158 (444)
T ss_pred             cCCCCCCCEEEECCCccEEEcChhhcCCeECCCCCCcCCCCCCCCCccccccCCCCChhhcCCCCCcccccceeecceEE
Confidence            999999999999999999999999999999  99999999887544322   2233344444459999999999999999


Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCce
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKL  282 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~  282 (539)
                      |++|||++|||++|+|||||+ .+|+++...                                                .
T Consensus       159 i~~GqrigI~G~sG~GKSTLL-~~I~~~~~~------------------------------------------------d  189 (444)
T PRK08972        159 VGKGQRMGLFAGSGVGKSVLL-GMMTRGTTA------------------------------------------------D  189 (444)
T ss_pred             EcCCCEEEEECCCCCChhHHH-HHhccCCCC------------------------------------------------C
Confidence            999999999999999999997 666643221                                                2


Q ss_pred             EEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhH
Q psy13776        283 YCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR  362 (539)
Q Consensus       283 ~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~R  362 (539)
                      ++|+++||||++||+||++++.+.+.|+|||+|++|+|+||.+|+++||+|+|+||||||+|+|||++||||||||+|+|
T Consensus       190 v~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~G~~VLl~~DslTR~A~A~R  269 (444)
T PRK08972        190 VIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCETATTIAEYFRDQGLNVLLLMDSLTRYAQAQR  269 (444)
T ss_pred             EEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChHHHHHHHH
Confidence            56669999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhc
Q psy13776        363 QMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK  442 (539)
Q Consensus       363 eisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~  442 (539)
                      |||+++||||+++||||++|+.||+|+||||+...  ++||||+||+|++++||++|||||+++||+||||||||+||++
T Consensus       270 EIsl~~gepP~~~GYPpsvfs~l~~L~ERAg~~~~--~~GSITai~tVl~~gdD~~dpI~d~~~silDGhIvLsr~La~~  347 (444)
T PRK08972        270 EIALAVGEPPATKGYPPSVFAKLPALVERAGNGGP--GQGSITAFYTVLTEGDDLQDPIADASRAILDGHIVLSRELADS  347 (444)
T ss_pred             HHHHhcCCCCccccCCchHHHHhHHHHHHhcCCCC--CCceeeeEEEEEEeCCCCCcchHHhhhhhcceEEEEcHHHHhC
Confidence            99999999999999999999999999999998642  5799999999999999999999999999999999999999999


Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhh
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTG  521 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~  521 (539)
                      |                                                   +|||||++.|+||+|+.++++.| +.+.
T Consensus       348 g---------------------------------------------------~yPAIDvl~S~SR~~~~i~~~~h~~~a~  376 (444)
T PRK08972        348 G---------------------------------------------------HYPAIDIEASISRVMPMVISEEHLEAMR  376 (444)
T ss_pred             C---------------------------------------------------CCCeeCCccccccCchhcCcHHHHHHHH
Confidence            9                                                   79999999999999999999999 6677


Q ss_pred             hhhhHHHHHHHhhhhh
Q psy13776        522 KIRSWNGWLSLLKQLY  537 (539)
Q Consensus       522 ~~r~~~~~~~~~~~~~  537 (539)
                      ++|+   +|+.|+++.
T Consensus       377 ~~r~---~ls~y~~~e  389 (444)
T PRK08972        377 RVKQ---VYSLYQQNR  389 (444)
T ss_pred             HHHH---HHHHHHHHH
Confidence            8888   777777753

>PRK06936 type III secretion system ATPase; Provisional

Probab=100.00  E-value=2.7e-92  Score=750.96  Aligned_cols=375  Identities=23%  Similarity=0.313  Sum_probs=330.5

Q ss_pred             ChHHHHHHHHHHHhcCcchhh--hhhhhcccccccCceeeecCCeeEEccc-hh-hhhcccccccCCeEEEEEeccccCC
Q psy13776         42 RAAEISSILEERILGSAPKAV--AYRQMSLLLRRPPGREAYPGDVFYLHSR-LL-ERSAKMSEAHGGGSLTALPVIETQA  117 (539)
Q Consensus        42 ~~~ei~~~l~~~i~~~~~~~~--~~~ei~g~~~e~~G~v~~IGDg~gL~~~-~~-~~~gEVV~f~~g~~G~vl~l~~~~~  117 (539)
                      ..+++.+.+.+++........  ...++.+.+.++.|+.+.+||.|.+... .. ...+|||+|++              
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~G~V~~v~g~~v~~~~~~~~~ge~~~i~~~~~~~~~~~eVv~~~~--------------   68 (439)
T PRK06936          3 SLDYIPHHLRHAIVGSRLIQIRGRVTQVTGTILKAVVPGVRIGELCYLRNPDNSLSLQAEVIGFAQ--------------   68 (439)
T ss_pred             cHHHHHHHHHHHHhcCCccceeeEEEEEECcEEEEEeCCCCCCCEEEEecCCCCcceEEEEEEEEC--------------
Confidence            467888888888876544211  1245677777888888888888888532 11 26677777776              


Q ss_pred             CcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccc
Q psy13776        118 GDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSA  192 (539)
Q Consensus       118 d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~T  192 (539)
                      +++.+++|+++.|++.|++|++|+++++||+|++|||||+  +|+|+||++++......+   .+|++..|..+++||+|
T Consensus        69 ~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~lLGRV~d~~G~plD~~~~~~~~~~~pi~~~~p~p~~R~~i~~~l~T  148 (439)
T PRK06936         69 HQALLTPLGEMYGISSNTEVSPTGTMHQVGVGEHLLGRVLDGLGQPFDGGHPPEPAAWYPVYADAPAPMSRRLIETPLSL  148 (439)
T ss_pred             CeEEEEecCCCCCCCCCCEEEeCCCceEEEeCccccCCEECCCCCccCCCCCCCccceeeccCCCCChHHccccCCCCcC
Confidence            6699999999999999999999999999999999999999  999999998775443322   23444444445999999


Q ss_pred             cceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHH
Q psy13776        193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV  272 (539)
Q Consensus       193 GIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~  272 (539)
                      ||++||.++||++|||++|||++|+|||||+ .+|+++...                                       
T Consensus       149 Gi~vid~l~~i~~Gq~~~I~G~sG~GKStLl-~~Ia~~~~~---------------------------------------  188 (439)
T PRK06936        149 GVRVIDGLLTCGEGQRMGIFAAAGGGKSTLL-ASLIRSAEV---------------------------------------  188 (439)
T ss_pred             CcceeeeeEEecCCCEEEEECCCCCChHHHH-HHHhcCCCC---------------------------------------
Confidence            9999999999999999999999999999996 788876542                                       


Q ss_pred             HhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEec
Q psy13776        273 AYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYD  352 (539)
Q Consensus       273 ~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~D  352 (539)
                               .+|||++||||+|||+||+++..+.+.|+||++|++|||+||.+|+++||+|+|+||||||||||||+++|
T Consensus       189 ---------dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfrd~G~~Vll~~D  259 (439)
T PRK06936        189 ---------DVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMD  259 (439)
T ss_pred             ---------CEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEecc
Confidence                     26999999999999999998877778899999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCcccccccccccee
Q psy13776        353 DLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ  432 (539)
Q Consensus       353 slTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGq  432 (539)
                      |+||||+|+||||+++||||+++||||++|+.||+|+||||+.    ++||||+||+|++|+||++|||||+++||+|||
T Consensus       260 slTR~A~A~REisl~~gepP~~~gyp~svfs~l~~l~ERaG~~----~~GSIT~i~tVl~~gdD~~dpI~d~~~silDGh  335 (439)
T PRK06936        260 SVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRLMERAGQS----DKGSITALYTVLVEGDDMTEPVADETRSILDGH  335 (439)
T ss_pred             chhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHHHhhccC----CCcceeeeEEEEccCCCCCcchHHHhhhhcceE
Confidence            9999999999999999999999999999999999999999973    489999999999999999999999999999999


Q ss_pred             EEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh
Q psy13776        433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA  512 (539)
Q Consensus       433 IvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~  512 (539)
                      |||||+||++|                                                   +|||||++.|+||+|+.+
T Consensus       336 IvLsr~La~~g---------------------------------------------------~yPAIDvl~S~SR~~~~~  364 (439)
T PRK06936        336 IILSRKLAAAN---------------------------------------------------HYPAIDVLRSASRVMNQI  364 (439)
T ss_pred             EEECHHHHhCC---------------------------------------------------CCCccCCcccccccchhh
Confidence            99999999999                                                   699999999999999999


Q ss_pred             hhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        513 QTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       513 ~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      ++++| +.+.++|+   +|++|+|+.
T Consensus       365 ~~~~~~~~a~~~r~---~la~y~e~e  387 (439)
T PRK06936        365 VSKEHKTWAGRLRE---LLAKYEEVE  387 (439)
T ss_pred             CCHHHHHHHHHHHH---HHHcchHHH
Confidence            99999 77888888   888888763

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=100.00  E-value=1.9e-91  Score=749.39  Aligned_cols=354  Identities=20%  Similarity=0.256  Sum_probs=315.8

Q ss_pred             hhcccccccCcee---eecCCeeEEccchhhhhcccccc-cCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         66 QMSLLLRRPPGRE---AYPGDVFYLHSRLLERSAKMSEA-HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        66 ei~g~~~e~~G~v---~~IGDg~gL~~~~~~~~gEVV~f-~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      ++.+.+++..|..   +.+|+.|.+.+......+||++| ++              +.+.+++|+++.|++.|+.|..|+
T Consensus         8 ~i~g~vi~v~g~~~~~~~ige~~~i~~~~~~~~~eVv~~l~~--------------~~v~l~~~~~~~gl~~G~~V~~tg   73 (461)
T PRK12597          8 KIRGDVVDVEFEEGALPPINQALTVHDDGGPTLLEVKQHLDE--------------TTVRAIALGSTSGLARGDEVRNTG   73 (461)
T ss_pred             EEECcEEEEEECCCCCcCccCEEEEecCCCcEEEEEEEEcCC--------------CeEEEEEecCccCCCCCCEEEeCC
Confidence            4567778888887   99999999954222366788888 44              669999999999999999999999


Q ss_pred             ccccccCCCcccceeE--eeeccCCCCCcccchhc---cccccccccccccccccccceeeeeeeeccccceeeeeccCC
Q psy13776        142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQ  216 (539)
Q Consensus       142 ~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~g  216 (539)
                      ++++||+|++|||||+  +|+|+|+++++.....+   ..++++..|..+++||+||||+||+|+|||||||++|||++|
T Consensus        74 ~~~~v~vg~~llGRVid~~G~plD~~~~~~~~~~~~i~~~~p~~~~R~~~~e~l~TGir~ID~l~pigkGQR~gIfa~~G  153 (461)
T PRK12597         74 GPIEVPVGEAVLGRLLDVLGEPLDGGPPLPAEERRPIHSTIPPLAEQDTSTEILETGIKVIDLLCPIAKGGKTGLFGGAG  153 (461)
T ss_pred             CceEEEcChhhcCCEEeeccccccCCCCCCCcceeeccCCCcChhhcCCcCcceecCCeeecccCccccCCEEEeecCCC
Confidence            9999999999999999  99999999877543322   223444444455999999999999999999999999999999


Q ss_pred             CCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHH
Q psy13776        217 TGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTV  296 (539)
Q Consensus       217 tGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev  296 (539)
                      +|||+|+.+++.|+...                                              +..+|||++||||+|||
T Consensus       154 ~GKt~Ll~~~~~~~~~~----------------------------------------------~~dv~V~~liGER~rEv  187 (461)
T PRK12597        154 VGKTVLMMELIFNISKQ----------------------------------------------HSGSSVFAGVGERSREG  187 (461)
T ss_pred             CChhHHHHHHHHHHHhh----------------------------------------------CCCEEEEEcCCcchHHH
Confidence            99999995555444321                                              12479999999999999


Q ss_pred             HHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcEEEEecChhHHHHHhHHhhhccCCCCCCC
Q psy13776        297 AQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGRE  375 (539)
Q Consensus       297 ~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdVLli~DslTr~A~A~Reisl~lgepP~r~  375 (539)
                      +||+++++++++|+||++|++|+|+||.+|+++||+|+|+||||||+ |+|||+++||+||||+|+||||+++||||+++
T Consensus       188 ~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REisl~~gepP~~~  267 (461)
T PRK12597        188 HELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRDEEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSRV  267 (461)
T ss_pred             HHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEeccchHHHHHHHHHHHhcCCCCCcC
Confidence            99999999999999999999999999999999999999999999998 99999999999999999999999999999999


Q ss_pred             CCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCccc
Q psy13776        376 AYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGV  455 (539)
Q Consensus       376 gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~  455 (539)
                      ||||++|+.+++|+|||++.    ++||||+||||++++||++|||||+++||+||||+|||+||++|            
T Consensus       268 GYPpsvfs~l~~l~ERag~~----~~GSIT~i~tVl~~~dD~~dPI~d~~~~ilDG~IvLsr~La~~g------------  331 (461)
T PRK12597        268 GYQPTLASEVAELQERIAST----KNGSITSIQAVYVPADDLTDPAAVAIFSHLDSTVVLSRAQAAKG------------  331 (461)
T ss_pred             CcCchhHHHHHHHHHhhcCC----CCccccEEEEEEecCCCCCCccHHHHHhhcceEEEEcHHHHhCC------------
Confidence            99999999999999999863    47999999999999999999999999999999999999999999            


Q ss_pred             EEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC-chhhhHHH-HHhhhhhhHHHHHHHh
Q psy13776        456 VVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG-SAAQTRAM-KQTGKIRSWNGWLSLL  533 (539)
Q Consensus       456 ~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~-~~~~~~~~-~~~~~~r~~~~~~~~~  533 (539)
                                                             +|||||++.|+||++ +.+.+++| +.+.++|+   +|++|
T Consensus       332 ---------------------------------------~yPAIDvl~S~SR~~~~~i~~~~h~~~a~~~r~---~la~y  369 (461)
T PRK12597        332 ---------------------------------------IYPAIDPLASSSNLLDPLVVGERHYDAAIEVKR---ILQRY  369 (461)
T ss_pred             ---------------------------------------CCCccCCccccccccccccCCHHHHHHHHHHHH---HHHhh
Confidence                                                   799999999999999 66788888 77888888   88888


Q ss_pred             hhhh
Q psy13776        534 KQLY  537 (539)
Q Consensus       534 ~~~~  537 (539)
                      +|+.
T Consensus       370 ~e~e  373 (461)
T PRK12597        370 KELE  373 (461)
T ss_pred             hhHH
Confidence            8763

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=100.00  E-value=1.2e-90  Score=740.11  Aligned_cols=316  Identities=21%  Similarity=0.282  Sum_probs=289.5

Q ss_pred             CcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhc---cccccccccccccccccc
Q psy13776        118 GDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSA  192 (539)
Q Consensus       118 d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~T  192 (539)
                      +.+.+++|+++.|++.|++|.+|+++++||||++|||||+  +|+|+||++++...+..   ..+|++..|..+++||+|
T Consensus        45 ~~v~l~~l~~t~Gi~~G~~V~~tg~~~~VpVg~~lLGRVlD~~G~PiD~~~~~~~~~~~~i~~~ap~~~~R~~i~e~L~T  124 (449)
T TIGR03305        45 HHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDRREPPKDVEWRSVHQAPPTLTRRSSKSEVFET  124 (449)
T ss_pred             CeEEEEEccCcccCCCCCEEEecCCceEEEcChhhcCCEEccCccccCCCCCCCCccccchhcCCCCchhcccCCccccc
Confidence            7799999999999999999999999999999999999999  99999999876544322   233444445455999999


Q ss_pred             cceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHH
Q psy13776        193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV  272 (539)
Q Consensus       193 GIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~  272 (539)
                      |||+||+|+|||||||++|||++|+|||+|+.+++.|++..                                       
T Consensus       125 GIr~ID~l~pigkGQr~~Ifg~~G~GKt~l~~~~~~~~~~~---------------------------------------  165 (449)
T TIGR03305       125 GIKAIDVLVPLERGGKAGLFGGAGVGKTVLLTEMIHNMVGQ---------------------------------------  165 (449)
T ss_pred             CceeeccccccccCCEEEeecCCCCChhHHHHHHHHHHHhc---------------------------------------
Confidence            99999999999999999999999999999997777765532                                       


Q ss_pred             HhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEe
Q psy13776        273 AYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIY  351 (539)
Q Consensus       273 ~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~  351 (539)
                             +..+|||++||||++||++|++++++.++|+||++|++|+|+||.+|+++||+|+|+|||||| +|+|||+++
T Consensus       166 -------~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~  238 (449)
T TIGR03305       166 -------HQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRDDEKQDVLLLI  238 (449)
T ss_pred             -------CCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEe
Confidence                   124799999999999999999999999999999999999999999999999999999999999 999999999


Q ss_pred             cChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccce
Q psy13776        352 DDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG  431 (539)
Q Consensus       352 DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDG  431 (539)
                      ||+||||+|+||||+++||||+++||||++|+.||+|+||||+.    ++||||+||+|++|+||++|||||+++|||||
T Consensus       239 DslTR~A~A~REisl~~ge~P~~~GYP~~vfs~l~~L~ERag~~----~~GSIT~i~~V~~~~dD~~dPi~d~~~silDG  314 (449)
T TIGR03305       239 DNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELEERIATT----SDGAITSIQAVYVPADDFTDPAAVHTFSHLSA  314 (449)
T ss_pred             cChHHHHHHHHHHHHHcCCCCCccCcCchHHHHhHHHHHhhcCC----CCcCeeEEEEEEccCCCCCCchhHhhhhhcce
Confidence            99999999999999999999999999999999999999999973    47999999999999999999999999999999


Q ss_pred             eEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC-c
Q psy13776        432 QIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG-S  510 (539)
Q Consensus       432 qIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~-~  510 (539)
                      ||||||+||++|                                                   +|||||++.|+||+| +
T Consensus       315 ~IvLsr~La~~g---------------------------------------------------~yPAIDvl~S~SR~~~~  343 (449)
T TIGR03305       315 SLVLSRKRASEG---------------------------------------------------LYPAIDPLQSTSKMATP  343 (449)
T ss_pred             EEEEcHHHHhCC---------------------------------------------------CCCccCCCcchhhcCCc
Confidence            999999999999                                                   799999999999999 5


Q ss_pred             hhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        511 AAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       511 ~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +.+.+.| +.+.++|+   +|++|+|+.
T Consensus       344 ~i~~~~h~~~a~~~~~---~l~~y~e~~  368 (449)
T TIGR03305       344 GIVGERHYDLAREVRQ---TLAQYEELK  368 (449)
T ss_pred             ccCCHHHHHHHHHHHH---HHHHHHHHH
Confidence            5667888 77888888   888888864

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.1e-90  Score=737.05  Aligned_cols=353  Identities=22%  Similarity=0.289  Sum_probs=316.7

Q ss_pred             hhhcccccccCce--eeecCCeeEEccchh-hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         65 RQMSLLLRRPPGR--EAYPGDVFYLHSRLL-ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        65 ~ei~g~~~e~~G~--v~~IGDg~gL~~~~~-~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      .++.+.+++..|+  .+++||.|.+..... ...+||++|.+              +++.+++|+++.|++.|++|++|+
T Consensus        22 ~~i~g~~i~v~g~~~~~~~ge~~~i~~~~~~~~~~eVv~~~~--------------~~~~l~~~~~~~gi~~g~~V~~tg   87 (442)
T PRK08927         22 VAVRGLLVEVAGPIHALSVGARIVVETRGGRPVPCEVVGFRG--------------DRALLMPFGPLEGVRRGCRAVIAN   87 (442)
T ss_pred             EEEEccEEEEEecCCCCCcCCEEEEEcCCCCEEEEEEEEEcC--------------CeEEEEEccCccCCCCCCEEEeCC
Confidence            4678888899998  789999999954222 36778888877              669999999999999999999999


Q ss_pred             ccccccCCCcccceeE--eeeccCCCCCcccc-hh---ccccccccccccccccccccceeeeeeeeccccceeeeeccC
Q psy13776        142 LFYKVDRGSINCGQLI--IGDRQTGKTALAID-TI---INQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDR  215 (539)
Q Consensus       142 ~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~-~~---~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~  215 (539)
                      ++++||+|++|||||+  +|+|+||++++... ..   ...++++..|..+++||+||||+||+|+||++|||++|||++
T Consensus        88 ~~~~v~vg~~llGRVid~~G~piDg~~~~~~~~~~~~i~~~~p~~~~R~~~~~~l~TGir~ID~l~~i~~Gqri~I~G~s  167 (442)
T PRK08927         88 AAAAVRPSRAWLGRVVNALGEPIDGKGPLPQGPVPYPLRAPPPPAHSRARVGEPLDLGVRALNTFLTCCRGQRMGIFAGS  167 (442)
T ss_pred             CccEEECChhhCCCEEccCCCCccCCCCCCCCcccccccCCCcChHHcCCcccccccceEEEeeeeEEcCCCEEEEECCC
Confidence            9999999999999999  99999999877543 22   223344444445599999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhH
Q psy13776        216 QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRST  295 (539)
Q Consensus       216 gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~e  295 (539)
                      |+|||+|+ .+|+++...                                                ..+||++||||++|
T Consensus       168 G~GKTtLL-~~I~~~~~~------------------------------------------------d~~v~~~iGER~rE  198 (442)
T PRK08927        168 GVGKSVLL-SMLARNADA------------------------------------------------DVSVIGLIGERGRE  198 (442)
T ss_pred             CCCHHHHH-HHHHhccCC------------------------------------------------CEEEEEEEecCcHH
Confidence            99999997 677765432                                                24678999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCC
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGRE  375 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~  375 (539)
                      |++|+++..+++.|+||++|++|||+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++
T Consensus       199 v~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~REisl~~ge~P~~~  278 (442)
T PRK08927        199 VQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGEPPTTK  278 (442)
T ss_pred             HHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCcHHHHhhhhHHHHhcCCCCccc
Confidence            99999877676779999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCccc
Q psy13776        376 AYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGV  455 (539)
Q Consensus       376 gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~  455 (539)
                      ||||++|+.||+|+||||+..  .++||||+||+|++|+||++|||||+++||+||||||||+||++|            
T Consensus       279 Gyp~~~f~~l~~l~ERaG~~~--~~~GSIT~i~tVlv~gdD~~dpi~d~~~~i~Dg~ivLsr~La~~g------------  344 (442)
T PRK08927        279 GYTPTVFAELPRLLERAGPGP--IGEGTITGLFTVLVDGDDHNEPVADAVRGILDGHIVMERAIAERG------------  344 (442)
T ss_pred             CCCcchHHHhhHHHHHhcCCC--CCCeeeeeeeeeEccCCCCCCchhhhhhccccEEEEEcHHHHhCC------------
Confidence            999999999999999999864  358999999999999999999999999999999999999999999            


Q ss_pred             EEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhh
Q psy13776        456 VVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLK  534 (539)
Q Consensus       456 ~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~  534 (539)
                                                             +|||||++.|+||+++.++++.| +.+..+|+   +|++|+
T Consensus       345 ---------------------------------------~~PAIDvl~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~  382 (442)
T PRK08927        345 ---------------------------------------RYPAINVLKSVSRTMPGCNDPEENPLVRRARQ---LMATYA  382 (442)
T ss_pred             ---------------------------------------CCCccCCcccccccccccCCHHHHHHHHHHHH---HHHHHH
Confidence                                                   79999999999999999999999 77888888   777777


Q ss_pred             hh
Q psy13776        535 QL  536 (539)
Q Consensus       535 ~~  536 (539)
                      ++
T Consensus       383 e~  384 (442)
T PRK08927        383 DM  384 (442)
T ss_pred             HH
Confidence            75

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=4.8e-90  Score=735.81  Aligned_cols=353  Identities=23%  Similarity=0.343  Sum_probs=318.5

Q ss_pred             hhhcccccccCceeeecCCeeEEccchh----hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEe
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSRLL----ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLET  140 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~~~----~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~t  140 (539)
                      .++.|+++++.|+.+++||.|.+.+...    ...+||++|++              +.+.+++|+++.|++.|+.|++|
T Consensus        32 ~~v~g~~~~~~g~~~~~ge~c~i~~~~~~~~~~~~~eVv~~~~--------------~~~~l~~~~~~~gi~~g~~V~~t   97 (451)
T PRK05688         32 LRMVGLTLEAEGLRAAVGSRCLVINDDSYHPVQVEAEVMGFSG--------------DKVFLMPVGSVAGIAPGARVVPL   97 (451)
T ss_pred             EEEEecEEEEecCCCCCCCEEEEecCCCccccceEEEEEEEcC--------------CEEEEEEccCccCCCCCCEEEEC
Confidence            5688999999999999999999944222    36789999876              66999999999999999999999


Q ss_pred             cccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccC
Q psy13776        141 ELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDR  215 (539)
Q Consensus       141 g~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~  215 (539)
                      +++++||+|++|||||+  +|+|+||++++......+   .++++..|..+++||+|||++||.++||++|||++|||++
T Consensus        98 g~~~~v~vg~~llGRV~d~~G~plD~~~~~~~~~~~~i~~~~~~p~~R~~i~~~l~TGi~aID~l~~I~~GqrigI~G~s  177 (451)
T PRK05688         98 ADTGRLPMGMSMLGRVLDGAGRALDGKGPMKAEDWVPMDGPTINPLNRHPISEPLDVGIRSINGLLTVGRGQRLGLFAGT  177 (451)
T ss_pred             CCccEEEecccccCCEEeccCceecCCCCCCccceecccCCCCCHHHcccccCCcccceeeecceEEecCCcEEEEECCC
Confidence            99999999999999999  999999998775443322   2334434444499999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhH
Q psy13776        216 QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRST  295 (539)
Q Consensus       216 gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~e  295 (539)
                      |+|||||+ .+|+++..                                                ..++|+++||+|++|
T Consensus       178 G~GKSTLl-~~I~g~~~------------------------------------------------~dv~V~g~Ig~rg~e  208 (451)
T PRK05688        178 GVGKSVLL-GMMTRFTE------------------------------------------------ADIIVVGLIGERGRE  208 (451)
T ss_pred             CCCHHHHH-HHHhCCCC------------------------------------------------CCEEEEEEeCcCcHh
Confidence            99999997 66654321                                                125688999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCC
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGRE  375 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~  375 (539)
                      +++|++.+++.+.++|||+|++|+|+||.+|+++||+|+|+||||||+|+|||++||||||||+||||||+++||||+++
T Consensus       209 v~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~~a~aiAEyfrd~G~~VLl~~DslTR~A~A~REisl~~gepP~~~  288 (451)
T PRK05688        209 VKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREIALAIGEPPATK  288 (451)
T ss_pred             HHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecchhHHHHHHHHHHHhcCCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCccc
Q psy13776        376 AYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGV  455 (539)
Q Consensus       376 gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~  455 (539)
                      ||||++|+.||+|+||||+..  .++||||+||||++++||++|||||+++|||||||||||+||++|            
T Consensus       289 GYp~svfs~l~~l~ERag~~~--~~~GSITai~tVl~~gdD~~dpI~d~~~silDGhIvLsr~La~~g------------  354 (451)
T PRK05688        289 GYPPSVFAKLPKLVERAGNAE--PGGGSITAFYTVLSEGDDQQDPIADSARGVLDGHIVLSRRLAEEG------------  354 (451)
T ss_pred             CCCchHHHHhHHHHHHhcCCC--CCCceeeEEEEEEecCCCCCCchHHHHHhhccEEEEEcHHHHhCC------------
Confidence            999999999999999999853  348999999999999999999999999999999999999999999            


Q ss_pred             EEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhh
Q psy13776        456 VVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLK  534 (539)
Q Consensus       456 ~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~  534 (539)
                                                             +|||||++.|+||+|++++++.| +.+.++|+   +|+.|+
T Consensus       355 ---------------------------------------~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~---~la~y~  392 (451)
T PRK05688        355 ---------------------------------------HYPAIDIEASISRVMPQVVDPEHLRRAQRFKQ---LWSRYQ  392 (451)
T ss_pred             ---------------------------------------CCCccCCccccCccchhhCCHHHHHHHHHHHH---HHHHHH
Confidence                                                   69999999999999999999999 67788898   788887


Q ss_pred             hh
Q psy13776        535 QL  536 (539)
Q Consensus       535 ~~  536 (539)
                      +.
T Consensus       393 ~~  394 (451)
T PRK05688        393 QS  394 (451)
T ss_pred             HH
Confidence            53

>PRK06820 type III secretion system ATPase; Validated

Probab=100.00  E-value=2.6e-88  Score=721.72  Aligned_cols=372  Identities=23%  Similarity=0.308  Sum_probs=322.5

Q ss_pred             hHHHHHHHHHHHhcCcchh-hhhhhhcccccccCceeeecCCe---eEEccchhhhhccccccc-CCeEEEEEeccccCC
Q psy13776         43 AAEISSILEERILGSAPKA-VAYRQMSLLLRRPPGREAYPGDV---FYLHSRLLERSAKMSEAH-GGGSLTALPVIETQA  117 (539)
Q Consensus        43 ~~ei~~~l~~~i~~~~~~~-~~~~ei~g~~~e~~G~v~~IGDg---~gL~~~~~~~~gEVV~f~-~g~~G~vl~l~~~~~  117 (539)
                      .++++..++++|..|+.++ ..         ...|.+..|++.   ..+.++   ..+|++.++ ++..|.|+.+++   
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~---------~~~G~v~~v~g~~~~~~~~~~---~~ge~~~i~~~~~~~eVv~~~~---   70 (440)
T PRK06820          6 IARLTPRLQQQLTRPSAPPEGL---------RYRGPIVEIGPTLLRASLPGV---AQGELCRIEPQGMLAEVVSIEQ---   70 (440)
T ss_pred             HHHHHHHHHHHHHhcCCCCCce---------eEeeEEEEEECcEEEEEECCC---CcCCEEEEecCCeEEEEEEEeC---
Confidence            4677899999999998876 33         344555555444   122223   455555553 335566666666   


Q ss_pred             CcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccch--hcccccccccccccccccccc
Q psy13776        118 GDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDT--IINQKRKKRRRLLKYNLLSAG  193 (539)
Q Consensus       118 d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~--~~~~~~~~r~ri~~~epl~TG  193 (539)
                      |++.+++|+++.|++.|++|++|+++++||+|++|||||+  +|+|+|+++++....  +...+|++..|..+++|+.||
T Consensus        71 ~~~~l~~~~~~~gi~~g~~v~~tg~~~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~i~~~~p~p~~R~~~~~~l~TG  150 (440)
T PRK06820         71 EMALLSPFASSDGLRCGQWVTPLGHMHQVQVGADLAGRILDGLGAPIDGGPPLTGQWRELDCPPPSPLTRQPIEQMLTTG  150 (440)
T ss_pred             CeEEEEEccCccCCCCCCEEEECCCCcEEEechhhcCCEECccCCccCCCCCCCcccccccCCCCChhhcCCchhhccCC
Confidence            8899999999999999999999999999999999999999  999999987653221  112234443444459999999


Q ss_pred             ceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHH
Q psy13776        194 IKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVA  273 (539)
Q Consensus       194 IraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~  273 (539)
                      +|+||.|+||++|||++|||++|+|||+|+ .+|+++...                                        
T Consensus       151 i~aID~l~~i~~Gqri~I~G~sG~GKStLl-~~I~~~~~~----------------------------------------  189 (440)
T PRK06820        151 IRAIDGILSCGEGQRIGIFAAAGVGKSTLL-GMLCADSAA----------------------------------------  189 (440)
T ss_pred             CceecceEEecCCCEEEEECCCCCChHHHH-HHHhccCCC----------------------------------------
Confidence            999999999999999999999999999997 677755422                                        


Q ss_pred             hhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecC
Q psy13776        274 YRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  353 (539)
Q Consensus       274 ~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~Ds  353 (539)
                              ..+||++||||++|+.+|++.+...+.++||++|++++|+||.+|+++||+|+|+||||||+|+|||+++||
T Consensus       190 --------dv~V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~Ds  261 (440)
T PRK06820        190 --------DVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGLSTATTIAEYFRDRGKKVLLMADS  261 (440)
T ss_pred             --------CEEEEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEccc
Confidence                    257889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeE
Q psy13776        354 LSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI  433 (539)
Q Consensus       354 lTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqI  433 (539)
                      +||||+|+||||+++||||+++||||++|+.|++|+||||+.    ++||||+||||++++||++|||||+++||+||||
T Consensus       262 ltr~A~A~REisl~~gepP~~~GYP~~vf~~l~~L~ERag~~----~~GSIT~i~tVl~~gdD~~dpI~d~~~~ilDg~i  337 (440)
T PRK06820        262 LTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLLERTGNS----DRGSITAFYTVLVEGDDMNEPVADEVRSLLDGHI  337 (440)
T ss_pred             hhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHHHhhccC----CCcceeEEEEEEccCCCCCCcchhhhccccceEE
Confidence            999999999999999999999999999999999999999984    4899999999999999999999999999999999


Q ss_pred             EeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhh
Q psy13776        434 FLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQ  513 (539)
Q Consensus       434 vLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~  513 (539)
                      ||||+||++|                                                   +|||||++.|+||++++++
T Consensus       338 vLsr~La~~g---------------------------------------------------~yPAIDvl~S~SR~~~~~~  366 (440)
T PRK06820        338 VLSRRLAGAG---------------------------------------------------HYPAIDIAASVSRIMPQIV  366 (440)
T ss_pred             EECHHHHhCC---------------------------------------------------CCCccCCcccccccchhhC
Confidence            9999999999                                                   6999999999999999999


Q ss_pred             hHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        514 TRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       514 ~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                      ++.| +.+..+|+   +|++|+|+
T Consensus       367 ~~~~~~~a~~~r~---~l~~y~e~  387 (440)
T PRK06820        367 SAGQLAMAQKLRR---MLACYQEI  387 (440)
T ss_pred             CHHHHHHHHHHHH---HHHhhhHH
Confidence            9999 77788888   88888875

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=100.00  E-value=1.2e-88  Score=721.82  Aligned_cols=352  Identities=24%  Similarity=0.331  Sum_probs=310.0

Q ss_pred             hhcccccccCceee--ecCCeeEEccchh-hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecc
Q psy13776         66 QMSLLLRRPPGREA--YPGDVFYLHSRLL-ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETEL  142 (539)
Q Consensus        66 ei~g~~~e~~G~v~--~IGDg~gL~~~~~-~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~  142 (539)
                      ++.+.+++..|+..  ++||.|.+.+... +..+||++|++              +.+.+++|+++.||+.|+.|+.|++
T Consensus         5 ~v~g~~~~v~g~~~~~~~ge~~~i~~~~~~~~~~eVv~~~~--------------~~v~l~~~~~~~gi~~G~~V~~tg~   70 (418)
T TIGR03498         5 AVTGLLIEVRGLSRAVRLGDRCAIRARDGRPVLAEVVGFNG--------------DRVLLMPFEPLEGVGLGCAVFAREG   70 (418)
T ss_pred             EEECcEEEEEcCCCccCCCCEEEEEcCCCCEEEEEEEEEcC--------------CeEEEEEccCCcCCCCCCEEEECCC
Confidence            35667778888776  8888888843211 24556666654              7799999999999999999999999


Q ss_pred             cccccCCCcccceeE--eeeccCCCCCcccc-hhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCC
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKTALAID-TIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQ  216 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~-~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~g  216 (539)
                      +++||+|++|||||+  +|+|+||++++... ...+   .++++..|..+++||+||+++||.++|+++|||++|||++|
T Consensus        71 ~~~i~vg~~lLGRViD~lG~plD~~~~~~~~~~~~~i~~~~p~~~~R~~i~~~l~tGi~aiD~~~~i~~Gq~i~I~G~sG  150 (418)
T TIGR03498        71 PLAVRPHPSWLGRVINALGEPIDGKGPLPQGERRYPLRASPPPAMSRARVGEPLDTGVRVIDTFLPLCRGQRLGIFAGSG  150 (418)
T ss_pred             ccEEEeChhhcCCEECCCCCccCCCCCCCCCcceechhhcCCChhhccCcccccCCccEEEeeeccccCCcEEEEECCCC
Confidence            999999999999999  99999999877443 2111   23333334444999999999999999999999999999999


Q ss_pred             CCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHH
Q psy13776        217 TGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTV  296 (539)
Q Consensus       217 tGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev  296 (539)
                      +|||+|+ .+|+++...                                                ...+|+++|||++||
T Consensus       151 ~GKTtLl-~~I~~~~~~------------------------------------------------~~gvi~~iGer~~ev  181 (418)
T TIGR03498       151 VGKSTLL-SMLARNTDA------------------------------------------------DVVVIALVGERGREV  181 (418)
T ss_pred             CChHHHH-HHHhCCCCC------------------------------------------------CEEEEEEEeeechHH
Confidence            9999997 666644321                                                246789999999999


Q ss_pred             HHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCC
Q psy13776        297 AQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREA  376 (539)
Q Consensus       297 ~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~g  376 (539)
                      ++|+++..+.+.|+||++|++|+|+||.+|+++||+|||+||||||+|+|||+++||+||||+|+||||+++||||+++|
T Consensus       182 ~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~a~~iAEyfrd~G~~Vll~~DslTr~A~A~REisl~~gepP~~~g  261 (418)
T TIGR03498       182 REFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYTATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPVARG  261 (418)
T ss_pred             HHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCcccc
Confidence            99999877778899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccE
Q psy13776        377 YPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVV  456 (539)
Q Consensus       377 yPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~  456 (539)
                      |||++|+.||||+||||+..  .++||||+||||++|+||++|||||+++|||||||||||+||++|             
T Consensus       262 yp~~vf~~l~~L~ERag~~~--~~~GSIT~~~tVl~~gdd~~dpi~d~~~si~DG~ivLsr~la~~g-------------  326 (418)
T TIGR03498       262 YTPSVFSELPRLLERAGPGA--EGKGSITGIFTVLVDGDDHNEPVADAVRGILDGHIVLDRAIAERG-------------  326 (418)
T ss_pred             CCchhhhhhhHHHHHhccCC--CCCcceeeeEEEeccCCCCCCcchhhhheeeeeEEEECHHHHhCC-------------
Confidence            99999999999999999853  458999999999999999999999999999999999999999999             


Q ss_pred             EecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhh
Q psy13776        457 VFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQ  535 (539)
Q Consensus       457 ~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~  535 (539)
                                                            +|||||++.|+||+|+.++++.| +.+.++|+   +|++|++
T Consensus       327 --------------------------------------~~PAIDv~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e  365 (418)
T TIGR03498       327 --------------------------------------RYPAINVLASVSRLAPRVWSPEERKLVRRLRA---LLARYEE  365 (418)
T ss_pred             --------------------------------------CCCccCCcccccccchhhcCHHHHHHHHHHHH---HHHhhHH
Confidence                                                  79999999999999999999999 77888999   8888887


Q ss_pred             h
Q psy13776        536 L  536 (539)
Q Consensus       536 ~  536 (539)
                      +
T Consensus       366 ~  366 (418)
T TIGR03498       366 T  366 (418)
T ss_pred             H
Confidence            5

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK09099 type III secretion system ATPase; Provisional

Probab=100.00  E-value=4.4e-88  Score=720.69  Aligned_cols=350  Identities=25%  Similarity=0.342  Sum_probs=309.6

Q ss_pred             hhcccccccCceeeecCCeeEEccchhh--hhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         66 QMSLLLRRPPGREAYPGDVFYLHSRLLE--RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~gL~~~~~~--~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      ++.+.++++.|+.+++||.|.+......  ..+|||+|++              +++.+++|+++.|++.|++|++|+++
T Consensus        30 ~v~g~~i~~~g~~~~~ge~~~i~~~~g~~~~~~eVv~~~~--------------~~~~l~~~~~t~gi~~g~~V~~tg~~   95 (441)
T PRK09099         30 EVIGTLLRVSGLDVTLGELCELRQRDGTLLQRAEVVGFSR--------------DVALLSPFGELGGLSRGTRVIGLGRP   95 (441)
T ss_pred             EEECCEEEEeccCCCCCCEEEEecCCCCeeeEEEEEEEEC--------------CEEEEEEccCCcCCCCCCEEEeCCCc
Confidence            4667777777777777777777321111  3456666655              77999999999999999999999999


Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||+|++|||||+  +|+|+||++++...+..+   .+|++..|..+++||+||+++||.++|+++|||++|||++|+|
T Consensus        96 ~~v~vg~~lLGrV~d~~G~piD~~~~~~~~~~~~i~~~~p~p~~R~~i~e~l~TGi~~ID~l~~i~~Gq~~~I~G~sG~G  175 (441)
T PRK09099         96 LSVPVGPALLGRVIDGLGEPIDGGGPLDCDELVPVIAAPPDPMSRRMVEAPLPTGVRIVDGLMTLGEGQRMGIFAPAGVG  175 (441)
T ss_pred             cEEEeccccccCEEcccCCccCCCCCCccccccccccCCCChhhcCCcccccCCCceeccceeeecCCCEEEEECCCCCC
Confidence            99999999999999  999999998775443322   2344434434599999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||+|+ .+|+.+...                                                ..+||++||||++|+++
T Consensus       176 KTtLl-~~ia~~~~~------------------------------------------------d~~vi~~iGer~~ev~e  206 (441)
T PRK09099        176 KSTLM-GMFARGTQC------------------------------------------------DVNVIALIGERGREVRE  206 (441)
T ss_pred             HHHHH-HHHhCCCCC------------------------------------------------CeEEEEEEccChHHHHH
Confidence            99997 555533211                                                14789999999999999


Q ss_pred             HHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCC
Q psy13776        299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYP  378 (539)
Q Consensus       299 ~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyP  378 (539)
                      |++.+.+.+.|+||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++|||
T Consensus       207 f~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTr~A~A~REisl~~gepP~~~gyP  286 (441)
T PRK09099        207 FIELILGEDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREIGLAAGEPPARRGFP  286 (441)
T ss_pred             HHHHHhhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEe
Q psy13776        379 GDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVF  458 (539)
Q Consensus       379 g~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~  458 (539)
                      |++|+.||||+||||..    ++||||+||||++++||++|||||+++|||||||||||+||++|               
T Consensus       287 ~~vf~~l~~l~ERag~~----~~GSIT~i~tVl~~~dd~~dpI~d~~~~i~DG~ivLsr~La~~g---------------  347 (441)
T PRK09099        287 PSVFAELPRLLERAGMG----ETGSITALYTVLAEDESGSDPIAEEVRGILDGHMILSREIAARN---------------  347 (441)
T ss_pred             ccHHHHhHHHHHhhcCC----CCcchheeEEEEecCCCcCCcchhhhheecceEEEEcHHHHhCC---------------
Confidence            99999999999999952    48999999999999999999999999999999999999999999               


Q ss_pred             cccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        459 GNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       459 ~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                          +|||||++.|+||+|+.++.+.| +.+.++|+   +|+.|+++
T Consensus       348 ------------------------------------~yPAIDvl~S~SR~~~~~~~~~~~~~a~~lr~---~la~y~e~  387 (441)
T PRK09099        348 ------------------------------------QYPAIDVLGSLSRVMPQVVPREHVQAAGRLRQ---LLAKHREV  387 (441)
T ss_pred             ------------------------------------CCCccCCccccCccchhcCCHHHHHHHHHHHH---HHHhhHHH
Confidence                                                79999999999999999999999 77888888   88888876

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=100.00  E-value=2.4e-87  Score=711.20  Aligned_cols=352  Identities=25%  Similarity=0.358  Sum_probs=313.7

Q ss_pred             hhcccccccCceeeecCCeeEEccchh-hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccc
Q psy13776         66 QMSLLLRRPPGREAYPGDVFYLHSRLL-ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFY  144 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~gL~~~~~-~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~  144 (539)
                      ++.+.++++.|..+.+||.|.+....+ ...+||++|++              +.+.+++|+++.|++.|+.|+.|++++
T Consensus         5 ~v~g~~v~v~g~~~~~ge~~~i~~~~~~~~~~eVv~~~~--------------~~v~l~~~~~t~gl~~G~~V~~tg~~~   70 (411)
T TIGR03496         5 RVVGLVLEAVGLRAPVGSRCEIESSDGDPIEAEVVGFRG--------------DRVLLMPLEDVEGLRPGARVFPLEGPL   70 (411)
T ss_pred             EEECcEEEEEeCCCCcCCEEEEEcCCCCeEEEEEEEecC--------------CEEEEEEccCccCCCCCCEEEECCCcc
Confidence            456777788888888888888842111 14566666654              779999999999999999999999999


Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCc
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGK  219 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGK  219 (539)
                      +||+|++|||||+  +|+|+||++++.....++   .++++..|..+++|+.||+++||.++||++|||++|||++|+||
T Consensus        71 ~v~vg~~llGrVid~~G~pld~~~~~~~~~~~~i~~~~~~~~~R~~~~~~~~tGi~~id~l~~i~~Gq~~~I~G~sG~GK  150 (411)
T TIGR03496        71 RLPVGDSLLGRVIDGLGRPLDGKGPLDAGERVPLYAPPINPLKRAPIDEPLDVGVRAINGLLTVGRGQRMGIFAGSGVGK  150 (411)
T ss_pred             EEEcchhhcCCEECCCCCCcCCCCCCCcccccccccCCCCHHhccCcceEeeeeEEeecceEEEecCcEEEEECCCCCCH
Confidence            9999999999999  999999998775443322   23444445445999999999999999999999999999999999


Q ss_pred             hHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHH
Q psy13776        220 TALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI  299 (539)
Q Consensus       220 TtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~  299 (539)
                      |+|+ .+|+++...                                                ...||++||||++|+.+|
T Consensus       151 TtLl-~~I~~~~~~------------------------------------------------~~~vi~~iGer~~ev~e~  181 (411)
T TIGR03496       151 STLL-GMMARYTEA------------------------------------------------DVVVVGLIGERGREVKEF  181 (411)
T ss_pred             HHHH-HHHhcCCCC------------------------------------------------CEEEEEEEecChHHHHHH
Confidence            9997 677754321                                                246789999999999999


Q ss_pred             HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCC
Q psy13776        300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPG  379 (539)
Q Consensus       300 ~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg  379 (539)
                      ++++++.++|+||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||
T Consensus       182 ~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~REisl~~ge~P~~~gyp~  261 (411)
T TIGR03496       182 IEDILGEEGLARSVVVAATADESPLMRLRAAFYATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPP  261 (411)
T ss_pred             HHHHhhCCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHHhcCCCCCccCcCH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEec
Q psy13776        380 DVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFG  459 (539)
Q Consensus       380 ~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~  459 (539)
                      ++|+.|++|+||||+++  .++||||+||+|++++||++|||||+++|||||||+|||+||++|                
T Consensus       262 ~~f~~l~~l~ERag~~~--~~~GSIT~~~tv~~~~dd~~dpi~~~~~~i~dg~ivLsr~la~~g----------------  323 (411)
T TIGR03496       262 SVFAKLPQLVERAGNGE--EGKGSITAFYTVLVEGDDQQDPIADAARAILDGHIVLSRELAEQG----------------  323 (411)
T ss_pred             HHHHHhHHHHHHhcccC--CCCcceeEEEEEEccCCCCCCcchhhhcccccEEEEEchhHHhCC----------------
Confidence            99999999999999974  358999999999999999999999999999999999999999999                


Q ss_pred             ccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        460 NDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       460 ~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                         +|||||++.|+||+++.++++.| +.+.++|+   +|++|+++
T Consensus       324 -----------------------------------~~PAId~~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e~  363 (411)
T TIGR03496       324 -----------------------------------HYPAIDILASISRVMPDVVSPEHRQAARRFKQ---LLSRYQEN  363 (411)
T ss_pred             -----------------------------------CCCccCCCcccccchhhhCCHHHHHHHHHHHH---HHHHhHHH
Confidence                                               79999999999999999999999 77888888   88888875

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=100.00  E-value=6.3e-88  Score=680.24  Aligned_cols=256  Identities=23%  Similarity=0.407  Sum_probs=231.3

Q ss_pred             cccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +++||||++|||||+  +|+|+|+++++..++..+   .++++..|..++|||+||||+||+|+|||||||++|||++|+
T Consensus         1 ~~~Vpvg~~lLGRVvd~lG~piD~~~~~~~~~~~~i~~~ap~~~~R~~i~e~l~TGIkaID~l~pig~GQR~gIfgg~Gv   80 (276)
T cd01135           1 TLKVPVSEDMLGRIFNGSGKPIDGGPEILAEEYLDINGPPINPVARIYPEEMIQTGISAIDGMNTLVRGQKIPIFSGSGL   80 (276)
T ss_pred             CcEEECChhhcCCEECCCCCCCCCCCCCCCCceeeccCCCcCchhcCCcccccccCcEeeecccccccCCEEEeecCCCC
Confidence            368999999999999  999999998775443322   224444444459999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+. +|++|+..                    +.                      .++.++|||++||||+|||+
T Consensus        81 GKt~L~~-~i~~~~~~--------------------~~----------------------~~~~~v~V~~~IGeR~rev~  117 (276)
T cd01135          81 PHNELAA-QIARQAGV--------------------VG----------------------EEENFAVVFAAMGITMEDAR  117 (276)
T ss_pred             ChhHHHH-HHHHhhhc--------------------cc----------------------cCCCCEEEEEEeccccHHHH
Confidence            9999984 68887642                    00                      11246899999999999999


Q ss_pred             HHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcEEEEecChhHHHHHhHHhhhccCCCCCCCC
Q psy13776        298 QIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREA  376 (539)
Q Consensus       298 e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdVLli~DslTr~A~A~Reisl~lgepP~r~g  376 (539)
                      ||+++++++++|+||++|++|+|+||.+|+++||+|||+||||||+ |+|||++|||+||||+||||||+++||||+++|
T Consensus       118 e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rEisl~~gepP~~~g  197 (276)
T cd01135         118 FFKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALREISAAREEVPGRRG  197 (276)
T ss_pred             HHHHHhhhcCCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHHHHhccCCCCCccC
Confidence            9999999999999999999999999999999999999999999998 999999999999999999999999999999999


Q ss_pred             CCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhcc
Q psy13776        377 YPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG  443 (539)
Q Consensus       377 yPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g  443 (539)
                      ||||+|+.||+|+||||+++.  ++||||+||+|++|+||++||||||++|||||||||||+||++|
T Consensus       198 yp~~vf~~~~~l~ERag~~~~--~~GSITa~~~V~~~~dD~~dpi~~~~~si~DG~ivLsr~la~~g  262 (276)
T cd01135         198 YPGYMYTDLATIYERAGRVEG--RNGSITQIPILTMPNDDITHPIPDLTGYITEGQIVLDRQLHNRG  262 (276)
T ss_pred             cCccHHHHhhHHheecccCCC--CCeeEEEEEEEEccCCCcCcchHHHHHhhcceEEEEcHHHHhCC
Confidence            999999999999999999742  37999999999999999999999999999999999999999999

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=3.4e-87  Score=710.20  Aligned_cols=344  Identities=19%  Similarity=0.207  Sum_probs=303.8

Q ss_pred             hhcccccccCceeeecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccccc
Q psy13776         66 QMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK  145 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~  145 (539)
                      ++.|.+++..++.+.+||.|.+........+||++|           ++   +.+.+++|+++.|++.|++|.+||++++
T Consensus        10 ~i~G~~v~v~~~~~~~ge~~~i~~~~~~~~geVi~~-----------~~---~~v~~~~~~~t~Gl~~g~~V~~tg~~~~   75 (436)
T PRK02118         10 DITGNVITVEAEGVGYGELATVERKDGSSLAQVIRL-----------DG---DKVTLQVFGGTRGISTGDEVVFLGRPMQ   75 (436)
T ss_pred             EEECcEEEEEeCCCCCCCEEEEEcCCCCEEEEEEEE-----------cC---CEEEEEEecCCcCCCCCCEEEeCCCceE
Confidence            456777777777788888887742111234455444           44   7899999999999999999999999999


Q ss_pred             ccCCCcccceeE--eeeccCCCCCcccch--hccccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchH
Q psy13776        146 VDRGSINCGQLI--IGDRQTGKTALAIDT--IINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTA  221 (539)
Q Consensus       146 VpVG~~LLGRVv--lG~PiDgk~~i~~~~--~~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTt  221 (539)
                      ||||++|||||+  +|+|+|+++++..+.  +...++++..|..+++||+||||+||+|+|||||||++|||++|+|||+
T Consensus        76 vpvg~~lLGRV~d~~G~PiD~~~~~~~~~~~i~~~~~~p~~R~~~~e~l~TGIkaID~l~pl~rGQkigIF~gaGvgk~~  155 (436)
T PRK02118         76 VTYSESLLGRRFNGSGKPIDGGPELEGEPIEIGGPSVNPVKRIVPREMIRTGIPMIDVFNTLVESQKIPIFSVSGEPYNA  155 (436)
T ss_pred             EEcCccccCCEEccCCcccCCCCCCCcceeecCCCCCChHHcCCcccccccCcEEeecccccccCCEEEEEeCCCCCHHH
Confidence            999999999999  999999987764433  1122344445556699999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHH
Q psy13776        222 LAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVK  301 (539)
Q Consensus       222 La~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~  301 (539)
                      |+ .+|++|+..                                                .++||++||||++|+.+|++
T Consensus       156 L~-~~ia~~~~~------------------------------------------------~v~Vfa~iGeR~rE~~ef~~  186 (436)
T PRK02118        156 LL-ARIALQAEA------------------------------------------------DIIILGGMGLTFDDYLFFKD  186 (436)
T ss_pred             HH-HHHHHhhCC------------------------------------------------CeEEEEEeccchhHHHHHHH
Confidence            96 889988753                                                25899999999999999999


Q ss_pred             HHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCC-CcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCc
Q psy13776        302 RLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNG-KHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGD  380 (539)
Q Consensus       302 ~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~G-kdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~  380 (539)
                      +++++++|+||++|++++|+||.+|+++||+|+|+||||||+| +|||+++|||||||+|+||||+++||||+++||||+
T Consensus       187 ~~~~~~~l~rtvlv~~~adep~~~R~~~~~~AltiAEyfrd~g~~~VLli~DdlTr~a~A~REIsl~~ge~P~r~GYpp~  266 (436)
T PRK02118        187 TFENAGALDRTVMFIHTASDPPVECLLVPDMALAVAEKFALEGKKKVLVLLTDMTNFADALKEISITMDQIPSNRGYPGS  266 (436)
T ss_pred             HHhhCCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCCEEEeccCchHHHHHHHHHHHhcCCCCCCCCcCCc
Confidence            9999999999999999999999999999999999999999997 999999999999999999999999999999999999


Q ss_pred             hhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecc
Q psy13776        381 VFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGN  460 (539)
Q Consensus       381 vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~  460 (539)
                      +|+.+++|+||||+.+   ++||||++|+|++|+||++|||||+++|||||||||||+|                     
T Consensus       267 lfs~L~~l~ERag~~~---~~GSITai~~V~~p~DD~tdPi~d~~~silDGqIvLsR~l---------------------  322 (436)
T PRK02118        267 LYSDLASRYEKAVDFE---DGGSITIIAVTTMPGDDVTHPVPDNTGYITEGQFYLRRGR---------------------  322 (436)
T ss_pred             HHHHHHHHHHhcCCCC---CCeeEEEEEEEEcCCCCcCccHHHHHHHhcCcEEEecccc---------------------
Confidence            9999999999999863   5899999999999999999999999999999999999753                     


Q ss_pred             cccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhh----HHH-HHhhhhhhHHHHHHHhhh
Q psy13776        461 DRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQT----RAM-KQTGKIRSWNGWLSLLKQ  535 (539)
Q Consensus       461 ~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~----~~~-~~~~~~r~~~~~~~~~~~  535 (539)
                                                            ||++.|+||+|+.+++    +.| +.+.++|+   +|++||+
T Consensus       323 --------------------------------------ID~l~S~SRl~~~v~g~~t~~~h~~~a~~l~~---~~a~y~e  361 (436)
T PRK02118        323 --------------------------------------IDPFGSLSRLKQLVIGKKTREDHGDLMNAMIR---LYADSRE  361 (436)
T ss_pred             --------------------------------------ccCccccccccccccCccccHHHHHHHHHHHH---HHHHHHH
Confidence                                                  7999999999999988    588 66778888   9999998


Q ss_pred             hh
Q psy13776        536 LY  537 (539)
Q Consensus       536 ~~  537 (539)
                      +.
T Consensus       362 ~~  363 (436)
T PRK02118        362 AK  363 (436)
T ss_pred             HH
Confidence            63

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=100.00  E-value=2.7e-87  Score=675.46  Aligned_cols=268  Identities=74%  Similarity=1.102  Sum_probs=250.2

Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||||++|||||+  +|+|+|+++++...+.++   .+|+...|..+++||+||||+||+|+|||||||++|||++|+|
T Consensus         2 ~~vpvg~~lLGRvld~~G~piD~~~~~~~~~~~~i~~~~p~~~~R~~i~e~L~TGI~~ID~l~pigrGQr~~Ifg~~g~G   81 (274)
T cd01132           2 ADVPVGEALLGRVVDALGNPIDGKGPIETKERRPIESKAPGIIPRKSVNEPLQTGIKAIDAMIPIGRGQRELIIGDRQTG   81 (274)
T ss_pred             eEEECCHhhCCCEEccCCCCccCCCCcCcCceeeccCCCCChhhcCCcccccccCCEEeeccCCcccCCEEEeeCCCCCC
Confidence            58999999999999  999999998775444322   2344455555699999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||+|++++|+||+..                                               +++|||++||||++||++
T Consensus        82 Kt~L~l~~i~~~~~~-----------------------------------------------~v~~V~~~iGer~~ev~e  114 (274)
T cd01132          82 KTAIAIDTIINQKGK-----------------------------------------------KVYCIYVAIGQKASTVAQ  114 (274)
T ss_pred             ccHHHHHHHHHhcCC-----------------------------------------------CeEEEEEecccchHHHHH
Confidence            999988999988632                                               478999999999999999


Q ss_pred             HHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCC
Q psy13776        299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYP  378 (539)
Q Consensus       299 ~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyP  378 (539)
                      |++++++.++|+||++|++|+|+||.+|+++||+|||+||||||+|+|||+++|||||||+||||||+++||||+++|||
T Consensus       115 ~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEisl~~ge~P~~~gYp  194 (274)
T cd01132         115 VVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYP  194 (274)
T ss_pred             HHHHHHhcCccceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHHHhcCCCCCCcCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEe
Q psy13776        379 GDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVF  458 (539)
Q Consensus       379 g~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~  458 (539)
                      |++|+.|++|+||||+++...++||||+||+|++|+||++|||||+++|||||||+|||+||++|               
T Consensus       195 ~~~f~~~~~L~ERag~~~~~~~~GSIT~i~~V~~~~dD~~~pi~~~~~~i~dg~ivLsr~la~~g---------------  259 (274)
T cd01132         195 GDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDVSAYIPTNVISITDGQIFLETDLFNKG---------------  259 (274)
T ss_pred             chHHHHhHHHHHHhhhccCCCCCcceEEEEEEEcCCCCcCcchHHHHHhhcCeEEEEcHHHHhCC---------------
Confidence            99999999999999998876679999999999999999999999999999999999999999999               


Q ss_pred             cccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC
Q psy13776        459 GNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG  509 (539)
Q Consensus       459 ~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~  509 (539)
                                                          +|||||++.|+||+|
T Consensus       260 ------------------------------------~yPaId~l~S~SR~g  274 (274)
T cd01132         260 ------------------------------------IRPAINVGLSVSRVG  274 (274)
T ss_pred             ------------------------------------CCCCcCCcccccCCC
Confidence                                                799999999999997

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=100.00  E-value=9.8e-87  Score=723.34  Aligned_cols=352  Identities=20%  Similarity=0.238  Sum_probs=299.6

Q ss_pred             hcccccccCcee-eecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccccc
Q psy13776         67 MSLLLRRPPGRE-AYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK  145 (539)
Q Consensus        67 i~g~~~e~~G~v-~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~  145 (539)
                      ++|.+.++.|.. +++||.|.+.             +++..|.|+.+++   |.+.+++|+++.|+++|++|++||++++
T Consensus         7 V~Gpvv~a~g~~~~~~gE~v~v~-------------~~~l~gEVi~~~~---d~a~iqvye~t~Gl~~G~~V~~tg~pls   70 (578)
T TIGR01043         7 VSGPLVVADGMKGAQMYEVVKVG-------------EEGLIGEIIRIEG---DKAFIQVYEETSGIKPGEPVVGTGAPLS   70 (578)
T ss_pred             EECCEEEEecCCCCCcCCEEEEC-------------CCcEEEEEEEEcC---CeEEEEECCCCCCCCCCCEEEECCCccE
Confidence            344455555543 5555555552             1234555666555   8899999999999999999999999999


Q ss_pred             ccCCCcccceeE--eeeccCCCCC----c----------ccchh------------------------------------
Q psy13776        146 VDRGSINCGQLI--IGDRQTGKTA----L----------AIDTI------------------------------------  173 (539)
Q Consensus       146 VpVG~~LLGRVv--lG~PiDgk~~----i----------~~~~~------------------------------------  173 (539)
                      |++|++|||||+  +|+|+|+.+.    .          ..+..                                    
T Consensus        71 V~lGpglLGrV~DgigrPLd~~~~~~g~~i~rg~~~~~l~~~~~w~f~p~~~~gd~v~~g~i~g~v~e~~~i~h~im~pp  150 (578)
T TIGR01043        71 VELGPGLLGSIYDGVQRPLDVLKEKTGDFIARGVDAPGLDRDKKWHFKPTVKEGDKVEGGDIIGVVPETSLIEHKILVPP  150 (578)
T ss_pred             EEcCHHHhcceeccCCccccCcccccccccccCccCCCcCcccccccccccccCccccCCceEEEEecccceeeeeecCC
Confidence            999999999999  9999998732    1          11100                                    


Q ss_pred             -------------------------------------cc--ccccccccccccccccccceeeeeeeeccccceeeeecc
Q psy13776        174 -------------------------------------IN--QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD  214 (539)
Q Consensus       174 -------------------------------------~~--~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~  214 (539)
                                                           ++  .+++...|..+++||.||+|+||+|+|||||||++|||+
T Consensus       151 ~~~g~v~~i~~~g~~~~~~~v~~~~~~g~~~~~~~~~wPvr~p~p~~~R~~~~~pL~TGiRvID~l~Pi~kGqr~~I~gg  230 (578)
T TIGR01043       151 NVEGEIVEIAEEGDYTVEDTIAVVDTDGDEEIKMYQKWPVRIPRPYKEKLPPEVPLITGQRILDTFFPIAKGGTAAIPGP  230 (578)
T ss_pred             CCcceEEEeccCCCceeeeeEEEEecCCceeeeeeeecccccCCCchhcCCCCcchhccchhhhccccccCCCEEEEecC
Confidence                                                 00  011122344569999999999999999999999999999


Q ss_pred             CCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchh
Q psy13776        215 RQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRS  294 (539)
Q Consensus       215 ~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~  294 (539)
                      +|||||+|. .++++..+                                                ..+|||++||||++
T Consensus       231 ~G~GKT~l~-~~lak~~~------------------------------------------------adivVyvg~GERG~  261 (578)
T TIGR01043       231 FGSGKTVTQ-HQLAKWSD------------------------------------------------ADIVVYIGCGERGN  261 (578)
T ss_pred             CCCCHHHHH-HHHHhcCC------------------------------------------------CCEEEEEEeccChH
Confidence            999999996 45553322                                                13899999999999


Q ss_pred             HHHHHHHHH-------hcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhc
Q psy13776        295 TVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLL  367 (539)
Q Consensus       295 ev~e~~~~l-------~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~  367 (539)
                      |+++|++++       .+.+.|+|||+|+||||+|+++|++++|+|+||||||||+|+|||+++||+||||+|+||||++
T Consensus       262 E~~e~le~f~~l~dp~~g~~~m~RTvlVanTSn~p~~aR~~s~ytg~TiAEYfRD~G~~Vllm~DS~sR~AeAlREIs~~  341 (578)
T TIGR01043       262 EMTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEAMREISGR  341 (578)
T ss_pred             HHHHHHHHhHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecChhHHHHHHHHHHHh
Confidence            999999999       5578999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCchhhchhHHHHhhhcccCCCC---CccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccC
Q psy13776        368 LRRPPGREAYPGDVFYLHSRLLERSAKMSEAHG---GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM  444 (539)
Q Consensus       368 lgepP~r~gyPg~vf~~~srLlERag~~~~~~g---~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~  444 (539)
                      +||||+++|||+++|+++++||||||++++..+   +||||++++|++|+||++||||+|+++|+||||+|||+||++| 
T Consensus       342 lgE~P~~eGYP~yl~SrLa~~yERAG~~~~~~~~~r~GSIT~i~aVs~~ggD~sdPVt~~t~~i~dg~i~Ldr~LA~~g-  420 (578)
T TIGR01043       342 LEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEERVGSVTVIGAVSPPGGDFSEPVTQNTLRIVKVFWALDADLAQRR-  420 (578)
T ss_pred             cCCCCCCCCcCccHHHHHHHHHHhhccccccCCCCCCccEeEEEEEECCCCCCCccHHHHHHHHhCcEEEeCHHHHhcC-
Confidence            999999999999999999999999999875433   6999999999999999999999999999999999999999999 


Q ss_pred             cCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh-------hhHHH
Q psy13776        445 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA-------QTRAM  517 (539)
Q Consensus       445 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~-------~~~~~  517 (539)
                                                                        ||||||++.|+||+++.+       .++.|
T Consensus       421 --------------------------------------------------hyPAId~l~S~Sr~~~~~~~~~~~~v~~~~  450 (578)
T TIGR01043       421 --------------------------------------------------HFPAINWLQSYSLYVDLVQDWWHENVDPDW  450 (578)
T ss_pred             --------------------------------------------------CCCCcCcccchhhhccccccccccccCHHH
Confidence                                                              699999999999999997       67777


Q ss_pred             -HHhhhhhhHHHHHHHhhhhh
Q psy13776        518 -KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       518 -~~~~~~r~~~~~~~~~~~~~  537 (539)
                       +....+|+   +|++|+|+.
T Consensus       451 ~~~~~~~~~---lL~~~~el~  468 (578)
T TIGR01043       451 REMRDEAMD---LLQKESELQ  468 (578)
T ss_pred             HHHHHHHHH---HHHHHHHHH
Confidence             66777777   788888864

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=100.00  E-value=3.2e-86  Score=704.49  Aligned_cols=347  Identities=25%  Similarity=0.300  Sum_probs=303.1

Q ss_pred             hcccccccCceeeecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccc
Q psy13776         67 MSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKV  146 (539)
Q Consensus        67 i~g~~~e~~G~v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~V  146 (539)
                      +.+.++++.|+.+.+||.|.+.             .++..|.|+.+++   +++.+++|+++.|++.|++|++|+++++|
T Consensus        28 v~g~~~~~~~~~~~~ge~~~i~-------------~~~~~~eVv~~~~---~~~~l~~~~~~~gi~~g~~V~~tg~~~~v   91 (433)
T PRK07594         28 VSATLLNAWLPGVFMGELCCIK-------------PGEELAEVVGING---SKALLSPFTSTIGLHCGQQVMALRRRHQV   91 (433)
T ss_pred             EECCEEEEEECCcCCCCEEEEe-------------cCCeEEEEEEEcC---CeEEEEEccCCcCCCCCCEEEeCCCccEE
Confidence            4444555555555555555552             2234455555555   88999999999999999999999999999


Q ss_pred             cCCCcccceeE--eeeccCCCCCcccch--hccccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHh
Q psy13776        147 DRGSINCGQLI--IGDRQTGKTALAIDT--IINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTAL  222 (539)
Q Consensus       147 pVG~~LLGRVv--lG~PiDgk~~i~~~~--~~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtL  222 (539)
                      |+|++|||||+  +|+|+|++++.....  +...++++..+..+++|+.||+++||.++||++|||++|||++|+|||||
T Consensus        92 ~vg~~llGrVid~~G~pld~~~~~~~~~~~i~~~~p~~~~r~~v~~~l~tGi~aID~ll~i~~GqrigI~G~sG~GKSTL  171 (433)
T PRK07594         92 PVGEALLGRVIDGFGRPLDGRELPDVCWKDYDAMPPPAMVRQPITQPLMTGIRAIDSVATCGEGQRVGIFSAPGVGKSTL  171 (433)
T ss_pred             EeChhhccCEEcccCCCcCCCCCCcccccccccCCCCceeccCHhheeCCCceeeeeeeecCCCCEEEEECCCCCCccHH
Confidence            99999999999  999999987642211  11123444444444999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHH
Q psy13776        223 AIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKR  302 (539)
Q Consensus       223 a~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~  302 (539)
                      + .+|+++...                                                ..+||++||||++|+++|++.
T Consensus       172 L-~~I~~~~~~------------------------------------------------d~~vi~~iGeRgrEv~efl~~  202 (433)
T PRK07594        172 L-AMLCNAPDA------------------------------------------------DSNVLVLIGERGREVREFIDF  202 (433)
T ss_pred             H-HHhcCCCCC------------------------------------------------CEEEEEEECCCchHHHHHHHH
Confidence            7 667655422                                                248999999999999999999


Q ss_pred             HhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchh
Q psy13776        303 LTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVF  382 (539)
Q Consensus       303 l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf  382 (539)
                      +.+.+.++||++|++++|+|+.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|
T Consensus       203 ~~~~~~~~rtv~vv~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REisl~~ge~P~~~Gyp~svf  282 (433)
T PRK07594        203 TLSEETRKRCVIVVATSDRPALERVRALFVATTIAEFFRDNGKRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVF  282 (433)
T ss_pred             hhccCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCHHHHHHHHHHHHHhcCCCCCCCCcCchhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccc
Q psy13776        383 YLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDR  462 (539)
Q Consensus       383 ~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~  462 (539)
                      +.||+|+||||..    ++||||+||+|++++||++|||||+++||+||||||||+||++|                   
T Consensus       283 ~~l~~l~ERag~~----~~GSIT~~~tVl~~gdD~~dpi~d~~~~ilDG~IvLsr~la~~g-------------------  339 (433)
T PRK07594        283 SALPRLLERTGMG----EKGSITAFYTVLVEGDDMNEPLADEVRSLLDGHIVLSRRLAERG-------------------  339 (433)
T ss_pred             HHhHHHHHhhcCC----CCcchheeeeeeecCCCCCCchHHHhhhhcceEEEEcHHHHhCC-------------------
Confidence            9999999999962    48999999999999999999999999999999999999999999                   


Q ss_pred             cccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        463 LIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       463 ~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                      +|||||++.|+||+|+++++++| +.+.++|+   +|++|+|+
T Consensus       340 --------------------------------~yPAIDvl~S~SR~~~~~~~~~h~~~a~~~r~---~la~y~e~  379 (433)
T PRK07594        340 --------------------------------HYPAIDVLATLSRVFPVVTSHEHRQLAAILRR---CLALYQEV  379 (433)
T ss_pred             --------------------------------CCCccCCcccccccchhhCCHHHHHHHHHHHH---HHHcchHH
Confidence                                            79999999999999999999999 66788888   88888876

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.2e-86  Score=706.39  Aligned_cols=353  Identities=23%  Similarity=0.318  Sum_probs=318.9

Q ss_pred             hhhcccccccCceeeecCCeeEEccchh----hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEe
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSRLL----ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLET  140 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~~~----~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~t  140 (539)
                      .++.|+++++.|+.+++||.|.+.....    +..+|||+|++              +++.+++|+++.|++.|++|+++
T Consensus        32 ~~v~g~~v~~~g~~~~iG~~c~i~~~~~~~~~~~~~eVvg~~~--------------~~~~l~~~~~~~gi~~g~~v~~~   97 (455)
T PRK07960         32 TRATGLVLEATGLQLPLGATCVIERQNGSETHEVESEVVGFNG--------------QRLFLMPLEEVEGILPGARVYAR   97 (455)
T ss_pred             EEEEEEEEEEeCCCCCCCCEEEEEeCCCccccceeeeEEEecC--------------CEEEEEECCCccCCCCCCEEEEC
Confidence            5688999999999999999999932122    26689999988              56999999999999999999999


Q ss_pred             -------cccccccCCCcccceeE--eeeccCCCCCcccchhc---cccccccccccccccccccceeeeeeeeccccce
Q psy13776        141 -------ELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQR  208 (539)
Q Consensus       141 -------g~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR  208 (539)
                             +++++||||++|||||+  +|+|+||++++......   ..++++..|..+++|++||||+||.|+||++|||
T Consensus        98 ~~~~~~~~~~~~v~vg~~llGRvid~~G~piDg~~~~~~~~~~~i~~~~~~p~~R~~i~e~l~TGiraID~ll~I~~Gqr  177 (455)
T PRK07960         98 NISGEGLQSGKQLPLGPALLGRVLDGSGKPLDGLPAPDTGETGALITPPFNPLQRTPIEHVLDTGVRAINALLTVGRGQR  177 (455)
T ss_pred             CcccccCCCceEEECCcccccCEECCCccccCCCCCCCCCccccccCCCcChHHhcccccchhccceeeeecccccCCcE
Confidence                   99999999999999999  99999999887544322   2234444444449999999999999999999999


Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEe
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVA  288 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~  288 (539)
                      ++|||++|+|||||+ .+|+++...                                                ..+|+++
T Consensus       178 i~I~G~sG~GKTTLL-~~Ia~~~~~------------------------------------------------d~iv~g~  208 (455)
T PRK07960        178 MGLFAGSGVGKSVLL-GMMARYTQA------------------------------------------------DVIVVGL  208 (455)
T ss_pred             EEEECCCCCCccHHH-HHHhCCCCC------------------------------------------------CEEEEEE
Confidence            999999999999997 677755422                                                2467789


Q ss_pred             eccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhcc
Q psy13776        289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLL  368 (539)
Q Consensus       289 IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~l  368 (539)
                      ||+|++|+.+|++++.+.+.+++++||++++|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++
T Consensus       209 Igerg~ev~e~~~~~~~~~~~~~tvVv~~~ad~~~~~r~~~~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~rEisl~~  288 (455)
T PRK07960        209 IGERGREVKDFIENILGAEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAI  288 (455)
T ss_pred             EEECCeEHHHHHHhhcCcCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEecchhHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCC
Q psy13776        369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNL  448 (539)
Q Consensus       369 gepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l  448 (539)
                      ||||+++||||++|+.|++|+||||+...  ++||||+||+|++|+||++|||||+++||+||||||||+||++|     
T Consensus       289 ge~P~~~gypp~~f~~l~~l~ERag~~~~--~~GSIT~i~tVlv~~dD~~dpi~d~~~~i~dg~ivLsr~la~~g-----  361 (455)
T PRK07960        289 GEPPATKGYPPSVFAKLPALVERAGNGIS--GGGSITAFYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAG-----  361 (455)
T ss_pred             CCCCccccCCcchhhhhhHHHHHHhcCCC--CCeeeeeEEEEEEcCCCCCcchHHHhhhhcceEEEECHHHHhCC-----
Confidence            99999999999999999999999998542  47999999999999999999999999999999999999999999     


Q ss_pred             CCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHH
Q psy13776        449 EPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWN  527 (539)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~  527 (539)
                                                                    +|||||++.|+||+++.+.++.| +.+..+|+  
T Consensus       362 ----------------------------------------------~yPAID~l~S~SR~~~~~~~~~~~~~~~~~r~--  393 (455)
T PRK07960        362 ----------------------------------------------HYPAIDIEASISRAMTALIDEQHYARVRQFKQ--  393 (455)
T ss_pred             ----------------------------------------------CCCccCcCcccCcCccccCCHHHHHHHHHHHH--
Confidence                                                          79999999999999999999999 78888888  


Q ss_pred             HHHHHhhhh
Q psy13776        528 GWLSLLKQL  536 (539)
Q Consensus       528 ~~~~~~~~~  536 (539)
                       +|+.|++.
T Consensus       394 -~l~~Y~~~  401 (455)
T PRK07960        394 -LLSSFQRN  401 (455)
T ss_pred             -HHHHHHHH
Confidence             78888775

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=100.00  E-value=3e-86  Score=703.21  Aligned_cols=350  Identities=26%  Similarity=0.368  Sum_probs=314.8

Q ss_pred             hhcccccccCceeeecCCeeEEccc-hhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccc
Q psy13776         66 QMSLLLRRPPGREAYPGDVFYLHSR-LLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFY  144 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~gL~~~-~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~  144 (539)
                      ++.|.++++.|+.+.+|+.|.+... .....+||++|.+              +++.+++|+++.|++.|++|.+|++++
T Consensus         5 ~i~G~~i~v~~~~~~ige~~~i~~~~~~~~~~eVi~~~~--------------~~v~l~~~~~t~gl~~G~~V~~tg~~~   70 (413)
T TIGR03497         5 RVIGLTIESKGPKAKIGELCSILTKGGKPVLAEVVGFKE--------------ENVLLMPLGEVEGIGPGSLVIATGRPL   70 (413)
T ss_pred             EEECCEEEEEeCCCCcCCEEEEEeCCCCeEEEEEEEEcC--------------CeEEEEEccCccCCCCCCEEEEcCCee
Confidence            4677888999999999999999421 1225678877775              679999999999999999999999999


Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCc
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGK  219 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGK  219 (539)
                      +||+|++|||||+  +|+|+|+++++.....++   .+|++..|..+++|+.||+++||.++||++|||++|||++|+||
T Consensus        71 ~vpvg~~lLGRVid~~G~plD~~~~~~~~~~~~i~~~~p~~~~R~~~~~~~~tGi~~iD~l~~i~~Gqri~I~G~sG~GK  150 (413)
T TIGR03497        71 AIKVGKGLLGRVLDGLGRPLDGEGPIIGEEPYPLDNPPPNPLKRPRIRDPLETGIKAIDGLLTIGKGQRVGIFAGSGVGK  150 (413)
T ss_pred             EEEcchhhcCCEEcCCCCcccCCCCCCCCccccccCCCcChHHccchhhhccccceeeeeEEEEcCCCEEEEECCCCCCH
Confidence            9999999999999  999999998775433222   23444444455999999999999999999999999999999999


Q ss_pred             hHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHH
Q psy13776        220 TALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI  299 (539)
Q Consensus       220 TtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~  299 (539)
                      |+|+ .+|+++...                                                ...|++++|||++|+++|
T Consensus       151 TtLl-~~i~~~~~~------------------------------------------------~~gvi~~~Ger~~ev~e~  181 (413)
T TIGR03497       151 STLL-GMIARNAKA------------------------------------------------DINVIALIGERGREVRDF  181 (413)
T ss_pred             HHHH-HHHhCCCCC------------------------------------------------CeEEEEEEccchHHHHHH
Confidence            9997 777765432                                                146888999999999999


Q ss_pred             HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCC
Q psy13776        300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPG  379 (539)
Q Consensus       300 ~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg  379 (539)
                      +++..+...++||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++|||||||+|+||||+++||||+++||||
T Consensus       182 ~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~gyp~  261 (413)
T TIGR03497       182 IEKDLGEEGLKRSVVVVATSDQPALMRLKAAFTATAIAEYFRDQGKDVLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTP  261 (413)
T ss_pred             HHHHhcccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEcCcHHHHHHHHHHHHhcCCCCCCCCcCc
Confidence            99977777799999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEec
Q psy13776        380 DVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFG  459 (539)
Q Consensus       380 ~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~  459 (539)
                      ++|+.|++|+||||+    .++||||+||+|++++||++|||||+++||+||||||||+||++|                
T Consensus       262 ~~f~~l~~l~ERag~----~~~GSIT~~~tVl~~gdD~~dpi~~~~~si~dg~ivLsr~la~~g----------------  321 (413)
T TIGR03497       262 SVFSLLPKLLERSGN----SQKGSITGFYTVLVDGDDMNEPIADAVRGILDGHIVLSRELAAKN----------------  321 (413)
T ss_pred             hHHHHhHHHHHHhcC----CCCcceeEEEEEEccCCCCCCcchhhccccccEEEEECHHHHhCC----------------
Confidence            999999999999998    258999999999999999999999999999999999999999999                


Q ss_pred             ccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        460 NDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       460 ~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                         +|||||++.|+||+++.++.+.| +.+.++|+   +|++|+++
T Consensus       322 -----------------------------------~~PAId~~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e~  361 (413)
T TIGR03497       322 -----------------------------------HYPAIDVLASVSRVMNEIVSEEHKELAGKLRE---LLAVYKEA  361 (413)
T ss_pred             -----------------------------------CCCccCCccccccCccccCCHHHHHHHHHHHH---HHHhhHHH
Confidence                                               79999999999999999999999 77888898   88888875

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK08149 ATP synthase SpaL; Validated

Probab=100.00  E-value=3e-86  Score=703.86  Aligned_cols=350  Identities=24%  Similarity=0.277  Sum_probs=313.2

Q ss_pred             hhcccccccCceeeecCCeeEEccc--hhhhh--cccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         66 QMSLLLRRPPGREAYPGDVFYLHSR--LLERS--AKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~gL~~~--~~~~~--gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      ++.|+++++.|+.+.+||.|.+...  .....  +|||+|++              +++.+++|+++.|++.|++|..++
T Consensus        12 ~i~g~~i~~~~~~~~~ge~~~i~~~~~~~~~~~~~evv~~~~--------------~~~~l~~~~~~~gi~~g~~v~~~~   77 (428)
T PRK08149         12 RIQGPIIEAELPDVAIGEICEIRAGWHSNEVIARAQVVGFQR--------------ERTILSLIGNAQGLSRQVVLKPTG   77 (428)
T ss_pred             EEEeeEEEEEECCCCcCCEEEEeecCCCCceeeEEEEEEeeC--------------cEEEEEECCCccCCCCCCEEEEcC
Confidence            4678888999999999999999421  11233  67777766              679999999999999999999999


Q ss_pred             ccccccCCCcccceeE--eeeccCCCC--Cccc--chh---ccccccccccccccccccccceeeeeeeeccccceeeee
Q psy13776        142 LFYKVDRGSINCGQLI--IGDRQTGKT--ALAI--DTI---INQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELII  212 (539)
Q Consensus       142 ~~~~VpVG~~LLGRVv--lG~PiDgk~--~i~~--~~~---~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~  212 (539)
                      ++++||+|++|||||+  +|+|+|+++  +...  .+.   ...++++..|..+++||.||+++||.++||++|||++||
T Consensus        78 ~~~~v~vg~~llGrv~d~~G~piD~~~~~~~~~~~~~~~~i~~~~~~~~~R~~i~e~l~tGi~aid~ll~i~~Gq~i~I~  157 (428)
T PRK08149         78 KPLSVWVGEALLGAVLDPTGKIVERFDAPPTVGPISEERVIDVAPPSYAERRPIREPLITGVRAIDGLLTCGVGQRMGIF  157 (428)
T ss_pred             CcCEEEeChhhcCCeeCCCCCCcCCCCCCcccccccceeehhccCCcchhccCccccccCCcEEEeeeeeEecCCEEEEE
Confidence            9999999999999999  999999986  3321  121   122334434444599999999999999999999999999


Q ss_pred             ccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccc
Q psy13776        213 GDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQK  292 (539)
Q Consensus       213 g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer  292 (539)
                      |++|+|||||+ .+|+++...                                                ..+||++||+|
T Consensus       158 G~sG~GKTTLl-~~i~~~~~~------------------------------------------------dv~v~g~Ig~r  188 (428)
T PRK08149        158 ASAGCGKTSLM-NMLIEHSEA------------------------------------------------DVFVIGLIGER  188 (428)
T ss_pred             CCCCCChhHHH-HHHhcCCCC------------------------------------------------CeEEEEEEeeC
Confidence            99999999997 788766432                                                14678999999


Q ss_pred             hhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCC
Q psy13776        293 RSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP  372 (539)
Q Consensus       293 ~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP  372 (539)
                      ++|+++|++++.+.+.++|+++|++|+|+||.+|+++||+|+|+||||||+|||||+++|||||||+|+||||+++||||
T Consensus       189 g~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~~a~tiAE~fr~~G~~Vll~~DslTr~A~A~rEi~l~~ge~P  268 (428)
T PRK08149        189 GREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALAAGELP  268 (428)
T ss_pred             CccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHHHHHHHHHHHHHcCCCEEEEccchHHHHHHHHHhHhhcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCC
Q psy13776        373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDN  452 (539)
Q Consensus       373 ~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~  452 (539)
                      +++||||++|+.||+|+||||+.+    +||||+||+|++|+||++|||||+++||+||||+|||+||++|         
T Consensus       269 ~~~Gyp~~vfs~l~~l~ERag~~~----~GSIT~~~tVl~~~dD~~dpi~d~~~~ilDg~ivLsr~La~~g---------  335 (428)
T PRK08149        269 ARRGYPASVFDSLPRLLERPGATL----AGSITAFYTVLLESEEEPDPIGDEIRSILDGHIYLSRKLAAKG---------  335 (428)
T ss_pred             cccccCccHHHHHHHHHHhccCCC----CCCceEEEEEEecCCCCCCCchhhhheeccEEEEEcHHHHhCC---------
Confidence            999999999999999999999863    6999999999999999999999999999999999999999999         


Q ss_pred             cccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHH
Q psy13776        453 VGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLS  531 (539)
Q Consensus       453 ~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~  531 (539)
                                                                +|||||++.|+||+|++++++.| +.+.++|+   +|+
T Consensus       336 ------------------------------------------~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~---~l~  370 (428)
T PRK08149        336 ------------------------------------------HYPAIDVLKSVSRVFGQVTDPKHRQLAAAFRK---LLT  370 (428)
T ss_pred             ------------------------------------------CCCcccCccccccchhhhcCHHHHHHHHHHHH---HHH
Confidence                                                      79999999999999999999999 77888999   888


Q ss_pred             Hhhhh
Q psy13776        532 LLKQL  536 (539)
Q Consensus       532 ~~~~~  536 (539)
                      +|+|+
T Consensus       371 ~y~e~  375 (428)
T PRK08149        371 RLEEL  375 (428)
T ss_pred             HHHHH
Confidence            88875

>PRK05922 type III secretion system ATPase; Validated

Probab=100.00  E-value=3.2e-86  Score=704.14  Aligned_cols=349  Identities=22%  Similarity=0.289  Sum_probs=310.8

Q ss_pred             hhhcccccccCceeeecCCeeEEccc-hhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSR-LLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~-~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      .++.+.++++.|..+++||.|.+... .....+|||+|++              +++.+++|+++.|++.|++|..++++
T Consensus        24 ~~v~g~~i~~~g~~~~~ge~~~i~~~~~~~~~~eVv~~~~--------------~~~~l~~~~~~~gi~~G~~V~~~~~~   89 (434)
T PRK05922         24 SRVSGNLLEAQGLSACLGELCQISLSKSPPILAEVIGFHN--------------RTTLLMSLSPIHYVALGAEVLPLRRP   89 (434)
T ss_pred             EEEEccEEEEEeCCCCCCCEEEEecCCCCeeEEEEEEEeC--------------CeEEEEEccCCCCCCCCCEEEeCCCC
Confidence            34677788888888888888888421 1124567766665              77999999999999999999999999


Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchh---ccccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTI---INQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~---~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||+|++|||||+  +|+|+|+++++..+..   ...++++..|..+++||+||||+||.++||++|||++|||++|+|
T Consensus        90 ~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~pi~~~~~~~~~R~~i~e~l~TGIr~ID~ll~I~~GqrigI~G~nG~G  169 (434)
T PRK05922         90 PSLHLSDHLLGRVLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSRQPIQEIFPTGIKAIDAFLTLGKGQRIGVFSEPGSG  169 (434)
T ss_pred             cEEEcChhhcCCEeCCCCCccCCCCCCCccceeecccCCCChhhcCCcceecCCCceeecceEEEcCCcEEEEECCCCCC
Confidence            99999999999999  9999999987754432   222344444444499999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||||+ .+|+++...                                                ..++|++||+|++|+.+
T Consensus       170 KSTLL-~~Ia~~~~~------------------------------------------------d~gvi~liGerg~ev~e  200 (434)
T PRK05922        170 KSSLL-STIAKGSKS------------------------------------------------TINVIALIGERGREVRE  200 (434)
T ss_pred             hHHHH-HHHhccCCC------------------------------------------------CceEEEEeCCCCchHHH
Confidence            99996 788766432                                                36899999999999999


Q ss_pred             HHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCC
Q psy13776        299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYP  378 (539)
Q Consensus       299 ~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyP  378 (539)
                      |++.+.+...+++|++|+||||+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++|||
T Consensus       201 yl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTR~A~A~REisl~~ge~P~~~gyp  280 (434)
T PRK05922        201 YIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETLSAHHYA  280 (434)
T ss_pred             HHHHHHhhccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCCcCCcC
Confidence            99999988999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEe
Q psy13776        379 GDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVF  458 (539)
Q Consensus       379 g~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~  458 (539)
                      |++|+.|++|+||||+.    ++||||+||+|++++| +.|||+|+++|||||||||||+|+++|               
T Consensus       281 ~svfs~l~~l~ERag~~----~~GSIT~~~tVl~~~~-~~dpi~d~~rsilDGhIvLsr~la~~~---------------  340 (434)
T PRK05922        281 ASVFHHVSEFTERAGNN----DKGSITALYAILHYPN-HPDIFTDYLKSLLDGHFFLTPQGKALA---------------  340 (434)
T ss_pred             chHHHHhHHHHHhhcCC----CCcceeEEEEEEecCC-CCCccccchhhhcCcEEEEcHHHHhCC---------------
Confidence            99999999999999983    4799999999999988 789999999999999999999997766               


Q ss_pred             cccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        459 GNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       459 ~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                           |||||++.|+||+|+++++++| +.+.++|+   +|++|+|+
T Consensus       341 -------------------------------------~PAIDvl~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e~  379 (434)
T PRK05922        341 -------------------------------------SPPIDILTSLSRSARQLALPHHYAAAEELRS---LLKAYHEA  379 (434)
T ss_pred             -------------------------------------CCCcCCccccccCCccccCHHHHHHHHHHHH---HHHHHHHH
Confidence                                                 9999999999999999999999 77888888   88888886

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=9.2e-86  Score=701.18  Aligned_cols=351  Identities=25%  Similarity=0.355  Sum_probs=312.0

Q ss_pred             hhhcccccccCceeeecCCeeEEccch--hhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecc
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSRL--LERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETEL  142 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~~--~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~  142 (539)
                      .++.+.++++.|..+.+||.|.+.+..  ....+||++|++              +++.+++|+++.|++.|++|++|++
T Consensus        23 ~~v~g~~v~~~g~~~~~ge~~~i~~~~~~~~~~~eVv~~~~--------------~~~~l~~~~~t~gl~~G~~V~~tg~   88 (434)
T PRK08472         23 TKISPTIIEADGLNPSVGDIVKIESSDNGKECLGMVVVIEK--------------EQFGISPFSFIEGFKIGDKVFISKE   88 (434)
T ss_pred             EEEEccEEEEEecCCCCCCEEEEecCCCCCceEEEEEEEeC--------------CeEEEEEccCCCCCCCCCEEEeCCC
Confidence            356777888888888888888884321  124566666655              7799999999999999999999999


Q ss_pred             cccccCCCcccceeE--eeeccCCCCCcccchhc---cccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +++||+|++|||||+  +|+|+||++++...+..   ..++++..|..+++++.||+++||.++|+++|||.+|||++|+
T Consensus        89 ~~~v~vg~~llGRViD~~G~plD~~g~~~~~~~~~i~~~~~~~~~R~~i~~~l~tgi~aid~l~~i~~Gq~~~i~G~sG~  168 (434)
T PRK08472         89 GLNIPVGRNLLGRVVDPLGRPIDGKGAIDYERYAPIMKAPIAAMKRGLIDEVFSVGVKSIDGLLTCGKGQKLGIFAGSGV  168 (434)
T ss_pred             ceEEEcChhhcCCEECCCCCcccCCCCCCcccccccccCCCCHHHcCCcceeccchhHHhhhcceecCCCEEEEECCCCC
Confidence            999999999999999  99999999877543322   2234444444459999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||||+ .+|+++...                                                ..+||++||||++|++
T Consensus       169 GKStLl-~~i~~~~~~------------------------------------------------~v~vi~~iGergrev~  199 (434)
T PRK08472        169 GKSTLM-GMIVKGCLA------------------------------------------------PIKVVALIGERGREIP  199 (434)
T ss_pred             CHHHHH-HHHhhccCC------------------------------------------------CEEEEEeeCccchhHH
Confidence            999997 777755432                                                2689999999999999


Q ss_pred             HHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCC
Q psy13776        298 QIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY  377 (539)
Q Consensus       298 e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gy  377 (539)
                      +|++.... +.+++|++|++|+||||.+|+++||+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||
T Consensus       200 e~~~~~l~-~~l~~tvvV~atsddsp~~R~~~~~~a~~iAEyFrd~G~~Vll~~DslTr~A~A~REi~l~~ge~P~~~Gy  278 (434)
T PRK08472        200 EFIEKNLG-GDLENTVIVVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIGLALGEPPTSKGY  278 (434)
T ss_pred             HHHHHHhc-CcccceEEEEECCCCCHHHhhHHHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHHHhcCCCCCccCc
Confidence            99987664 45999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEE
Q psy13776        378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVV  457 (539)
Q Consensus       378 Pg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~  457 (539)
                      ||++|+.|++|+||||+.   .|+||||+||+|++|+||++|||||+++||+||||||||+||++|              
T Consensus       279 p~~vf~~l~~l~ERag~~---~g~GSIT~~~tVlv~gdD~~dpi~d~~~~i~Dg~ivLsr~la~~g--------------  341 (434)
T PRK08472        279 PPSVLSLLPQLMERAGKE---EGKGSITAFFTVLVEGDDMSDPIADQSRSILDGHIVLSRELTDFG--------------  341 (434)
T ss_pred             CchHHHHHHHHHHHhccC---CCCceeeEeEEEEecCCCCCCCchHHhhhhcceEEEEcHHHHhCC--------------
Confidence            999999999999999995   358999999999999999999999999999999999999999999              


Q ss_pred             ecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        458 FGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       458 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                           +|||||++.|+||+|+.++++.| +.+.++|+   +|++|+|+
T Consensus       342 -------------------------------------~~PAIDvl~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e~  381 (434)
T PRK08472        342 -------------------------------------IYPPINILNSASRVMNDIISPEHKLAARKFKR---LYSLLKEN  381 (434)
T ss_pred             -------------------------------------CCCccCCccccCccchhcCCHHHHHHHHHHHH---HHHhchhH
Confidence                                                 79999999999999999999999 77888999   88888875

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=100.00  E-value=1.5e-85  Score=711.82  Aligned_cols=352  Identities=20%  Similarity=0.234  Sum_probs=301.4

Q ss_pred             hcccccccCce-eeecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccccc
Q psy13776         67 MSLLLRRPPGR-EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK  145 (539)
Q Consensus        67 i~g~~~e~~G~-v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~  145 (539)
                      ++|.+.++.|. .+++||.|.+.+.  ...|||++|           ++   |.+.+++|+++.|+++|++|++|+++++
T Consensus         8 v~G~vV~a~g~~~~~~gE~v~v~~~--~l~gEVI~l-----------~~---d~a~iq~ye~t~Gl~~G~~V~~tg~~ls   71 (591)
T TIGR01042         8 VSGPVVVAENMAGAAMYELVRVGHD--ELVGEIIRL-----------EG---DKATIQVYEETSGLTVGDPVLRTGKPLS   71 (591)
T ss_pred             EECCEEEEecCCCCCcCCEEEECCC--ceEEEEEEE-----------cC---CeEEEEEccCccCCCCCCEEEeCCCccE
Confidence            45556666665 5666666666311  134455554           44   8899999999999999999999999999


Q ss_pred             ccCCCcccceeE--eeeccCCCC----C-----------cccch------------------------------------
Q psy13776        146 VDRGSINCGQLI--IGDRQTGKT----A-----------LAIDT------------------------------------  172 (539)
Q Consensus       146 VpVG~~LLGRVv--lG~PiDgk~----~-----------i~~~~------------------------------------  172 (539)
                      |++|++|||||+  +|+|+|+.+    +           +..+.                                    
T Consensus        72 v~lGpglLG~V~DgigrPLd~~~~~~~~~fi~rG~~~~~ld~~~~w~f~p~~~k~gd~v~~G~i~g~v~e~~~~~h~imv  151 (591)
T TIGR01042        72 VELGPGILGNIFDGIQRPLKAIAEQSQSIYIPRGVNVPALDRDKKWEFTPKKLRVGDHITGGDIYGTVFENSLIKHKIML  151 (591)
T ss_pred             EEcCHHHhhcccCcCCCchHHHHhhccCccccCCCCCCCCCccccceeeccccccCCCccCCCeEEEEecCCceeeeeec
Confidence            999999999999  999999864    2           11000                                    


Q ss_pred             ---------------------------------------hcc--ccccccccccccccccccceeeeeeeeccccceeee
Q psy13776        173 ---------------------------------------IIN--QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI  211 (539)
Q Consensus       173 ---------------------------------------~~~--~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI  211 (539)
                                                             .++  .+++...|..+++||.||+|+||+|+|||||||++|
T Consensus       152 pp~~~g~v~~i~~~g~ytv~~~i~~~~~~g~~~~~~m~~~wPvr~p~p~~~R~~~~~PL~TG~RvID~lfPi~kGqr~~I  231 (591)
T TIGR01042       152 PPRARGTITYIAPAGNYTVDDTVLEVEFQGVKKKFSMLQTWPVRSPRPVTEKLPANTPLLTGQRVLDALFPCVQGGTTAI  231 (591)
T ss_pred             CCCCceEEEEEccCCCceeeeEEEEEeeCCceeeeccceeeecccCCChhhccCCCCccccchhhhhhccchhcCCeEEE
Confidence                                                   001  012222333459999999999999999999999999


Q ss_pred             eccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeecc
Q psy13776        212 IGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQ  291 (539)
Q Consensus       212 ~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGe  291 (539)
                      ||++|||||+|+ .+|+++.++                     |                           +|||++|||
T Consensus       232 ~gg~G~GKT~l~-~~lak~s~a---------------------D---------------------------viVyvg~GE  262 (591)
T TIGR01042       232 PGAFGCGKTVIS-QSLSKYSNS---------------------D---------------------------AIVYVGCGE  262 (591)
T ss_pred             EcCCCcCHHHHH-HHHHhccCc---------------------C---------------------------EEEEEEEee
Confidence            999999999998 456554332                     2                           699999999


Q ss_pred             chhHHHHHHHHH---------hcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhH
Q psy13776        292 KRSTVAQIVKRL---------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR  362 (539)
Q Consensus       292 r~~ev~e~~~~l---------~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~R  362 (539)
                      |++|++||++++         ++.+.|+||++|+||||+|+++|++++|+|+||||||||+|+|||+++||+||||+|+|
T Consensus       263 RG~Em~evle~fp~l~dp~~g~~~~~m~rtvlVa~tsd~p~~~R~~s~ytg~tiAEYfRD~G~~Vll~~DS~tR~AeAlR  342 (591)
T TIGR01042       263 RGNEMAEVLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYTGITLAEYFRDMGYNVSMMADSTSRWAEALR  342 (591)
T ss_pred             chHHHHHHHHHhHhhcccccccccccccceEEEEEcCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHHHHHHHH
Confidence            999999999997         45688999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCC---CCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhH
Q psy13776        363 QMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEA---HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETEL  439 (539)
Q Consensus       363 eisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~---~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~L  439 (539)
                      |||+++||||+++|||+++|+.+|+||||||++.+.   .++||||++++|++|+||++|||++|+++|+||||+|||+|
T Consensus       343 EIsl~lgE~P~~eGYPayl~SrLa~l~ERAG~~~~~~~~~~~GSIT~i~aVs~~ggD~sePVt~~t~~i~~~f~~Ldr~L  422 (591)
T TIGR01042       343 EISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPEREGSVSIVGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKL  422 (591)
T ss_pred             HHHhccCCCCCCCCcCccHHHHHHHHHHhccCCccCCCCCCCccEEEEEEEECCCCCCCCchHHHHHHHhcceeeeCHHH
Confidence            999999999999999999999999999999998642   34799999999999999999999999999999999999999


Q ss_pred             HhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhh------
Q psy13776        440 FYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQ------  513 (539)
Q Consensus       440 a~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~------  513 (539)
                      |++|                                                   ||||||++.|+||++..+.      
T Consensus       423 A~~g---------------------------------------------------hyPAId~l~S~Sr~~~~l~~~~~~~  451 (591)
T TIGR01042       423 AQRK---------------------------------------------------HFPSVNWLISYSKYMRALEEFYEKF  451 (591)
T ss_pred             HhCC---------------------------------------------------CCCCcCCchhhhhhhhhcccccccC
Confidence            9999                                                   6999999999999999988      


Q ss_pred             hHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        514 TRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       514 ~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      ++.+ +...++|+   +|++|+++.
T Consensus       452 ~~~~~~~~~~~~~---lL~~~~el~  473 (591)
T TIGR01042       452 YPEFVPLRTKAKE---ILQEEEDLN  473 (591)
T ss_pred             CHHHHHHHHHHHH---HHHHHHHHH
Confidence            7777 77888888   888888763

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=8.9e-85  Score=693.63  Aligned_cols=353  Identities=22%  Similarity=0.297  Sum_probs=317.6

Q ss_pred             hhhcccccccCceeeecCCeeEEccchh-hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSRLL-ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~~~-~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      .++.|+++++.|+.+++||.|.+..... ...+|||+|++              +.+.+++|+++.|++.|++|.+|+++
T Consensus        22 ~~v~g~~~~~~~~~~~~ge~~~i~~~~~~~~~~eVv~~~~--------------~~~~l~~~~~~~gi~~g~~v~~~~~~   87 (434)
T PRK07196         22 VRVTGLLLESVGCRLAIGQRCRIESVDETFIEAQVVGFDR--------------DITYLMPFKHPGGVLGGARVFPSEQD   87 (434)
T ss_pred             EEEEcCEEEEecCCCCcCCEEEEEeCCCceEEEEEEEecC--------------CEEEEEECCCccCCCCCCEEEECCCc
Confidence            4578999999999999999999943223 37789999988              66999999999999999999999999


Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||+|++|||||+  +|+|+||++++..+...+   .++++..|..+++||+||+++||.++||++|||++|||++|+|
T Consensus        88 ~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~~~~~~~~~p~~R~~~~~~l~TGi~aID~ll~I~~GQ~igI~G~sGaG  167 (434)
T PRK07196         88 GELLIGDSWLGRVINGLGEPLDGKGQLGGSTPLQQQLPQIHPLQRRAVDTPLDVGVNAINGLLTIGKGQRVGLMAGSGVG  167 (434)
T ss_pred             cEEEcCccccCCeeCcCCCCcCCCCCCCCCceeeccCCCCChHHhcccccccccceeeccceEeEecceEEEEECCCCCC
Confidence            99999999999999  999999998775443221   2333333334499999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||||+ ++|+++...                                                ..+|+++||++++|+++
T Consensus       168 KSTLl-~~I~g~~~~------------------------------------------------dv~vig~IGerg~ev~e  198 (434)
T PRK07196        168 KSVLL-GMITRYTQA------------------------------------------------DVVVVGLIGERGREVKE  198 (434)
T ss_pred             ccHHH-HHHhcccCC------------------------------------------------CeEEEEEEeeecHHHHH
Confidence            99997 777765432                                                14567899999999999


Q ss_pred             HHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCC
Q psy13776        299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYP  378 (539)
Q Consensus       299 ~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyP  378 (539)
                      |.++......+.|++++++++|+|+.+|+.++++++++|||||++|+|||+++||+||||+|+||||+++||||+++|||
T Consensus       199 f~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a~e~a~~iAEyfr~~g~~Vll~~Dsltr~a~A~REisl~~ge~P~~~Gyp  278 (434)
T PRK07196        199 FIEHSLQAAGMAKSVVVAAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIALSLGEPPATKGYP  278 (434)
T ss_pred             HHHHHhhhcccceEEEEEecCCCChhhhHHHHHHHHHHHHHhhhccCCEEEeecchhHHHhhhhHHHHhcCCCCcccCcC
Confidence            99886666779999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEe
Q psy13776        379 GDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVF  458 (539)
Q Consensus       379 g~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~  458 (539)
                      |++|+.|++|+||||+..   ++||||+||+|++|+||++|||||+++|||||||||||+||++|               
T Consensus       279 ~svf~~l~~l~ERag~~~---~~GSIT~~~tVl~~~dD~~dpi~d~~~~ilDG~ivLsr~la~~g---------------  340 (434)
T PRK07196        279 PSAFSIIPRLAESAGNSS---GNGTMTAIYTVLAEGDDQQDPIVDCARAVLDGHIVLSRKLAEAG---------------  340 (434)
T ss_pred             HHHHHHhHHHHHHhhcCC---CCEEeeeeeEEEccCCCCCCchhHhhhhhcceEEEEcHHHHhCC---------------
Confidence            999999999999999863   57999999999999999999999999999999999999999999               


Q ss_pred             cccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        459 GNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       459 ~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                                                          +|||||++.|+||+|++++++.| +.+.++|+   +|++|+|+.
T Consensus       341 ------------------------------------~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~---~~a~y~e~~  381 (434)
T PRK07196        341 ------------------------------------HYPAIDISQSISRCMSQVIGSQQAKAASLLKQ---CYADYMAIK  381 (434)
T ss_pred             ------------------------------------CCCccCCccccCccchhccCHHHHHHHHHHHH---HHHHHHHHH
Confidence                                                79999999999999999999999 67888888   888888863

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=3e-84  Score=690.52  Aligned_cols=373  Identities=22%  Similarity=0.311  Sum_probs=313.5

Q ss_pred             hHHHHHHHHHHHhcCc-chhhh-----hhhhcccccccCce--eeecCCeeEEccchhhhhcccccccCCeEEEEEeccc
Q psy13776         43 AAEISSILEERILGSA-PKAVA-----YRQMSLLLRRPPGR--EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIE  114 (539)
Q Consensus        43 ~~ei~~~l~~~i~~~~-~~~~~-----~~ei~g~~~e~~G~--v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~  114 (539)
                      ++.....+++.++.|. +....     ..++.+.++++.|+  .+.+||.|.+.....+..+|||+|+           +
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~G~v~~v~g~~~~~~g~~~~~~iGe~~~i~~~~~~~~~eVv~~~-----------~   71 (450)
T PRK06002          3 PDNALARLAALVERYAAPEPLVRIGGTVSEVTASHYRVRGLSRFVRLGDFVAIRADGGTHLGEVVRVD-----------P   71 (450)
T ss_pred             cccHHHHHHHHHHhcccccCccceeEEEEEEeceEEEEEcCccCCCCCCEEEEECCCCcEEEEEEEEe-----------C
Confidence            4556667888888887 33222     12455666666666  5666666666321112344555554           4


Q ss_pred             cCCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccch-hcc---ccccccccccccc
Q psy13776        115 TQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDT-IIN---QKRKKRRRLLKYN  188 (539)
Q Consensus       115 ~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~-~~~---~~~~~r~ri~~~e  188 (539)
                         +++.+++|+++.||+.|++|.+ ++.+++|+|++|||||+  +|+|+||++++...+ ..+   .++++..+...++
T Consensus        72 ---~~~~l~~~~~~~gi~~g~~v~~-~~~~~v~vg~~llGRV~d~~G~piDg~~~~~~~~~~~~i~~~~p~~~~r~~v~~  147 (450)
T PRK06002         72 ---DGVTVKPFEPRIEIGLGDAVFR-KGPLRIRPDPSWKGRVINALGEPIDGLGPLAPGTRPMSIDATAPPAMTRARVET  147 (450)
T ss_pred             ---CeEEEEEccCCcCCCCCCEEEe-CCCceeecCcccccCEECCCCcCCCCCCCCCCCcceeeccCCCCCCeEeecceE
Confidence               7899999999999999999999 66889999999999999  999999998775432 112   2233333333499


Q ss_pred             cccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhh
Q psy13776        189 LLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLS  268 (539)
Q Consensus       189 pl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~  268 (539)
                      ++.||+++||.+.||++|||++|||++|+|||||+ .+|+....                                    
T Consensus       148 ~l~TGi~aID~L~~I~~Gqri~I~G~SGsGKTTLL-~~Ia~l~~------------------------------------  190 (450)
T PRK06002        148 GLRTGVRVIDIFTPLCAGQRIGIFAGSGVGKSTLL-AMLARADA------------------------------------  190 (450)
T ss_pred             EcCCCcEEeeeeceecCCcEEEEECCCCCCHHHHH-HHHhCCCC------------------------------------
Confidence            99999999999999999999999999999999997 44442211                                    


Q ss_pred             hHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEE
Q psy13776        269 KQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHAL  348 (539)
Q Consensus       269 ~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVL  348 (539)
                                  ...++|+++|||++|+.+|.+...... ++|+++|++++|+||.+|+++||+|||+||||||+|+|||
T Consensus       191 ------------pd~gvv~liGergrev~e~~~~~l~~~-r~rtI~vV~qsd~~~~~r~~~~~~a~~iAEyfrd~G~~Vl  257 (450)
T PRK06002        191 ------------FDTVVIALVGERGREVREFLEDTLADN-LKKAVAVVATSDESPMMRRLAPLTATAIAEYFRDRGENVL  257 (450)
T ss_pred             ------------CCeeeeeecccCCccHHHHhHHHHHHh-hCCeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHcCCCEE
Confidence                        125789999999999999998766543 8899999999999999999999999999999999999999


Q ss_pred             EEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccc
Q psy13776        349 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI  428 (539)
Q Consensus       349 li~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~si  428 (539)
                      +++||+||||+|+||||+++||||+++||||++|+.||+|+||||+..  .++||||+||||++|+||++|||||+++||
T Consensus       258 l~~DslTr~A~A~rEisl~~ge~P~~~gyp~~vf~~l~~l~ERag~~~--~~~GSIT~~~tvl~~~dd~~dpI~d~~~~i  335 (450)
T PRK06002        258 LIVDSVTRFAHAAREVALAAGEPPVARGYPPSVFSELPRLLERAGPGA--EGGGSITGIFSVLVDGDDHNDPVADSIRGT  335 (450)
T ss_pred             EeccchHHHHHHHHHHHHhcCCCCccccCCccHHHHhhHHHHHhccCC--CCCeeeeEEEEEEecCCCCCCccHHHHHhh
Confidence            999999999999999999999999999999999999999999999853  358999999999999999999999999999


Q ss_pred             cceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccccccccccc
Q psy13776        429 TDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRV  508 (539)
Q Consensus       429 tDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~  508 (539)
                      +||||||||+||++|                                                   +|||||++.|+||+
T Consensus       336 ~Dg~ivLsr~la~~g---------------------------------------------------~~PAIDv~~S~SR~  364 (450)
T PRK06002        336 LDGHIVLDRAIAEQG---------------------------------------------------RYPAVDPLASISRL  364 (450)
T ss_pred             cceEEEEcHHHHhCC---------------------------------------------------CCCccCCccccCcc
Confidence            999999999999999                                                   79999999999999


Q ss_pred             CchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        509 GSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       509 ~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                      |+.+++++| +.+.++|+   +|++|+|+
T Consensus       365 ~~~~~~~~~~~~a~~~r~---~la~y~e~  390 (450)
T PRK06002        365 ARHAWTPEQRKLVSRLKS---MIARFEET  390 (450)
T ss_pred             cccccCHHHHHHHHHHHH---HHHHHHHH
Confidence            999999999 66788888   77888775

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=8.1e-84  Score=701.44  Aligned_cols=338  Identities=21%  Similarity=0.261  Sum_probs=296.8

Q ss_pred             hhccccccc-CCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCc--
Q psy13776         94 RSAKMSEAH-GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTAL--  168 (539)
Q Consensus        94 ~~gEVV~f~-~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i--  168 (539)
                      ..+|+|.+. ++..|.|+.++.   |.+.+++|+++.|+++|++|++||++++|++|++|||||+  +|+|+|+.+..  
T Consensus        24 ~~~E~v~v~~~~l~gEVi~~~~---d~a~iqv~e~T~Gl~~G~~V~~tg~plsv~lGpglLGrv~Dg~grPLd~~~~~~~  100 (586)
T PRK04192         24 RMYEVVRVGEEGLIGEIIRIEG---DKATIQVYEETSGIKPGEPVEFTGEPLSVELGPGLLGSIFDGIQRPLDELAEKSG  100 (586)
T ss_pred             CccCEEEECCCcEEEEEEEEeC---CceEEEEecCCcCCCCCCEEEeCCCccEEEcCHHhcCCeecCCCCcccccchhcc
Confidence            556666553 246677777777   9999999999999999999999999999999999999999  99999987521  


Q ss_pred             ------------ccc--------------------------h--------------------------------------
Q psy13776        169 ------------AID--------------------------T--------------------------------------  172 (539)
Q Consensus       169 ------------~~~--------------------------~--------------------------------------  172 (539)
                                  ..+                          .                                      
T Consensus       101 ~~i~rG~~~~~l~~~~~w~f~p~~k~gd~v~~gdi~g~v~e~~~~~h~imvp~~~~g~~~~i~~~G~ytv~~~i~~~~~~  180 (586)
T PRK04192        101 DFLERGVYVPALDREKKWEFTPTVKVGDKVEAGDILGTVQETPSIEHKIMVPPGVSGTVKEIVSEGDYTVDDTIAVLEDE  180 (586)
T ss_pred             cccccCCCCCCCCcccccceecccccCCEecCCceEEEEecCCceeeeeecCCCCceEEEEEccCCCceeeeEEEEEEcc
Confidence                        100                          0                                      


Q ss_pred             -----------hcc--ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhcccccc
Q psy13776        173 -----------IIN--QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQ  239 (539)
Q Consensus       173 -----------~~~--~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~  239 (539)
                                 .++  .+++...|..+++||.||+|+||+|+||+||||++|||++|+|||+|+ .+|+++.+.      
T Consensus       181 ~G~~~~~~~~~~wPvr~~~p~~~R~~~~~pL~TGirvID~l~Pi~kGq~~~Ipg~~G~GKTvl~-~~iak~a~a------  253 (586)
T PRK04192        181 DGEGVELTMMQKWPVRRPRPYKEKLPPVEPLITGQRVIDTFFPVAKGGTAAIPGPFGSGKTVTQ-HQLAKWADA------  253 (586)
T ss_pred             CCceeeeccccccccccCCcccccCCCCCccccCchhhhcccccccCCeEEEecCCCCCHHHHH-HHHHhcCCC------
Confidence                       001  011113455679999999999999999999999999999999999998 567665432      


Q ss_pred             ccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhc-------CCCCceE
Q psy13776        240 YLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTD-------SGAMGYT  312 (539)
Q Consensus       240 ~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~-------~~~~~~t  312 (539)
                                                                .+|||++||||++|++||++++.+       .+.|+||
T Consensus       254 ------------------------------------------divVyvg~GERg~E~~e~l~ef~~l~dp~~g~~~m~RT  291 (586)
T PRK04192        254 ------------------------------------------DIVIYVGCGERGNEMTEVLEEFPELIDPKTGRPLMERT  291 (586)
T ss_pred             ------------------------------------------CEEEEEEcCcChHHHHHHHHHHHhhcccccccccceeE
Confidence                                                      379999999999999999999764       6799999


Q ss_pred             EEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhh
Q psy13776        313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERS  392 (539)
Q Consensus       313 vvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERa  392 (539)
                      ++|+||||+|+++|++++|+|+|+||||||+|+|||+++||+||||+|+||||++++|||+++|||+++|+.+|+|||||
T Consensus       292 vlVanTSn~Pv~aR~~s~ytgiTiAEYfRd~G~~Vllm~DStSR~AeAlREIS~~l~E~P~~eGYP~yL~S~La~~yERA  371 (586)
T PRK04192        292 VLIANTSNMPVAAREASIYTGITIAEYYRDMGYDVLLMADSTSRWAEALREISGRLEEMPGEEGYPAYLASRLAEFYERA  371 (586)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecChHHHHHHHHHHHHhcCCCCccCCcCccHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcccCCCC-CccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceee
Q psy13776        393 AKMSEAHG-GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVK  471 (539)
Q Consensus       393 g~~~~~~g-~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~  471 (539)
                      |++++..+ +||||++++|++|+||++||||+++++|+||||+|||+||++|                            
T Consensus       372 G~v~~~~~~~GSIT~i~aVs~pggD~sePVt~~t~~i~dg~i~Ldr~LA~~g----------------------------  423 (586)
T PRK04192        372 GRVKTLGGEEGSVTIIGAVSPPGGDFSEPVTQNTLRIVKVFWALDAELADRR----------------------------  423 (586)
T ss_pred             cccccCCCCCcceEEEEEEECCCCCCCcchHHHHHHHhCceEEEcHHHHhCC----------------------------
Confidence            99875333 7999999999999999999999999999999999999999999                            


Q ss_pred             eccceeecccccccchhhccccCCCccccccccccccCchhhh-------HHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        472 RTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQT-------RAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       472 ~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~-------~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                                             ||||||++.|+||.++..+.       +.| +...++|+   +|++|+++.
T Consensus       424 -----------------------hyPAId~l~S~Sr~~~~~~~~~~~~v~~~~~~~~~~~~~---~L~~~~el~  471 (586)
T PRK04192        424 -----------------------HFPAINWLTSYSLYLDQVAPWWEENVDPDWRELRDEAMD---LLQREAELQ  471 (586)
T ss_pred             -----------------------cCCccCCccchhhhhhcccchhhcccCHHHHHHHHHHHH---HHHHHHHHH
Confidence                                   69999999999999999876       666 77777777   888888763

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=100.00  E-value=4.4e-84  Score=652.93  Aligned_cols=267  Identities=22%  Similarity=0.348  Sum_probs=244.0

Q ss_pred             cccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +++||||++|||||+  +|+|+||++++...+.++   .++++..|..+++||+||||+||+|+|||||||++|||++|+
T Consensus         1 ~~~vpvg~~llGRv~d~~G~piD~~~~~~~~~~~~i~~~~p~~~~R~~~~e~L~TGIr~ID~l~pig~GQr~~If~~~G~   80 (274)
T cd01133           1 PISVPVGPETLGRIFNVLGEPIDERGPIKTKKTWPIHREAPEFVEQSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGV   80 (274)
T ss_pred             CcEEecChhhcCCEECCCCCccCCCCCCCccccccccCCCCCchhhcCcCcccccCceeeeccCCcccCCEEEEecCCCC
Confidence            468999999999999  999999998775443322   234555555669999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+.+.+.|++..                                              ...+|||++||||++||+
T Consensus        81 GKTtLa~~i~~~i~~~----------------------------------------------~~~~~V~~~iGer~~Ev~  114 (274)
T cd01133          81 GKTVLIMELINNIAKA----------------------------------------------HGGYSVFAGVGERTREGN  114 (274)
T ss_pred             ChhHHHHHHHHHHHhc----------------------------------------------CCCEEEEEEeccCcHHHH
Confidence            9999995544444321                                              023799999999999999


Q ss_pred             HHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcEEEEecChhHHHHHhHHhhhccCCCCCCCC
Q psy13776        298 QIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREA  376 (539)
Q Consensus       298 e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdVLli~DslTr~A~A~Reisl~lgepP~r~g  376 (539)
                      +|++++++.++|+||++|++|+|+||.+|+++||+|+++||||||+ |+|||+++||+||||+|+||||+++||||+++|
T Consensus       115 e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~A~reis~~~ge~p~~~g  194 (274)
T cd01133         115 DLYHEMKESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVG  194 (274)
T ss_pred             HHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeChhHHHHHHHHHHHHcCCCCCCcC
Confidence            9999999999999999999999999999999999999999999998 999999999999999999999999999999999


Q ss_pred             CCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccE
Q psy13776        377 YPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVV  456 (539)
Q Consensus       377 yPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~  456 (539)
                      |||++|+.|++|+||||+    .++||||+||+|++++||++|||||++++|+||||+|||+||++|             
T Consensus       195 yp~~~f~~~~~l~ERag~----~~~GSiT~~~~v~~~~dD~~dpi~~~~~~i~dg~ivLsr~la~~g-------------  257 (274)
T cd01133         195 YQPTLATEMGALQERITS----TKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRAIAELG-------------  257 (274)
T ss_pred             cCccHHHHHHHHHHHhcC----CCCcccceEEEEEecCCCCCCchHHHHHHhcceEEEEcHHHHhCC-------------
Confidence            999999999999999997    358999999999999999999999999999999999999999999             


Q ss_pred             EecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCc
Q psy13776        457 VFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGS  510 (539)
Q Consensus       457 ~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~  510 (539)
                                                            +|||||++.|+||++.
T Consensus       258 --------------------------------------~~PAId~~~S~SR~~~  273 (274)
T cd01133         258 --------------------------------------IYPAVDPLDSTSRILD  273 (274)
T ss_pred             --------------------------------------CCCCcCCccchhcccC
Confidence                                                  7999999999999985

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=100.00  E-value=4.7e-83  Score=681.08  Aligned_cols=350  Identities=27%  Similarity=0.353  Sum_probs=309.6

Q ss_pred             hhcccccccCceeeecCCeeEEccc-hhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccc
Q psy13776         66 QMSLLLRRPPGREAYPGDVFYLHSR-LLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFY  144 (539)
Q Consensus        66 ei~g~~~e~~G~v~~IGDg~gL~~~-~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~  144 (539)
                      +|.+.++++.++.+++||.|.+.+. .....+||++|+           +   |++.+++|+++.|++.|++|++||+++
T Consensus        11 ~v~g~~v~v~~~~~~~ge~~~i~~~~~~~~~~eVi~~~-----------~---~~~~l~~~~~~~gl~~G~~V~~tg~~~   76 (422)
T TIGR02546        11 EVSGTLLKAVLPGARVGELCLIRRRDPSQLLAEVVGFT-----------G---DEALLSPLGELHGISPGSEVIPTGRPL   76 (422)
T ss_pred             EEECcEEEEEECCCCCCCEEEEeeCCCCeEEEEEEEEc-----------C---CcEEEEEccCccCCCCCCEEEECCCCc
Confidence            3455666666666777777777421 111444555554           4   789999999999999999999999999


Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccch--h---ccccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDT--I---INQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~--~---~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +||+|++|||||+  +|+|+|+++++....  .   ...++++..|..+++|+.||+++||.++|+++|||++|+|++|+
T Consensus        77 ~v~vg~~lLGrViD~~G~plD~~~~~~~~~~~~~pi~~~~~~~~~R~~i~~~l~tG~~~id~l~~i~~Gq~~~I~G~sG~  156 (422)
T TIGR02546        77 SIRVGEALLGRVLDGFGRPLDGKGELPAGEIETRPLDADPPPPMSRQPIDQPLPTGVRAIDGLLTCGEGQRIGIFAGAGV  156 (422)
T ss_pred             eEEeChhhccCEeCCCCCcccCCCCCCCCCceeeeccCCCcCHHHccCcccccCCCceeehhhccccCCCEEEEECCCCC
Confidence            9999999999999  999999998775442  1   12334444444559999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+ .+|+++...                                                ..++|++||+|++|++
T Consensus       157 GKStLl-~~I~~~~~~------------------------------------------------~~~vi~~iG~~~~ev~  187 (422)
T TIGR02546       157 GKSTLL-GMIARGASA------------------------------------------------DVNVIALIGERGREVR  187 (422)
T ss_pred             ChHHHH-HHHhCCCCC------------------------------------------------CEEEEEEEccCCcCHH
Confidence            999996 777765432                                                2689999999999999


Q ss_pred             HHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCC
Q psy13776        298 QIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY  377 (539)
Q Consensus       298 e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gy  377 (539)
                      +|++...+.+++++|++|++++|+|+.+|+++||+|+++|||||++|+|||+++||+||||+|+||||+++||||+++||
T Consensus       188 ~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~~~a~~~AE~f~~~g~~Vl~~~Dsltr~a~A~rei~l~~ge~P~~~gy  267 (422)
T TIGR02546       188 EFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAAYTATAIAEYFRDQGKRVLLMMDSLTRFARALREIGLAAGEPPARGGY  267 (422)
T ss_pred             HHHHHHhccccccceEEEeccccCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCchHHHHHHHHHHHhcCCCCccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEE
Q psy13776        378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVV  457 (539)
Q Consensus       378 Pg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~  457 (539)
                      ||++|+.||+|+||||+    .++||||+||+|++++||++|||||+++||+||||+|||+||++|              
T Consensus       268 p~~~f~~l~~l~ERag~----~~~GSIT~~~tv~~~~dd~~~pi~~~~~~i~dg~i~Lsr~la~~g--------------  329 (422)
T TIGR02546       268 PPSVFSSLPRLLERAGN----GEKGSITALYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAERN--------------  329 (422)
T ss_pred             ChhHHHHhHHHHHHhcC----CCCCceeEEEEEeccCCCCCCCchhhhhccccEEEEEcHHHHhCC--------------
Confidence            99999999999999998    358999999999999999999999999999999999999999999              


Q ss_pred             ecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        458 FGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       458 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                           +|||||++.|+||++++++++.| +.+.++|+   +|++|+++
T Consensus       330 -------------------------------------~yPAId~~~S~SR~~~~~~~~~~~~~a~~~~~---~l~~y~e~  369 (422)
T TIGR02546       330 -------------------------------------HYPAIDVLASLSRVMSQVVSTEHRRAAGKLRR---LLATYKEV  369 (422)
T ss_pred             -------------------------------------CCCccCCccccccchhhhCCHHHHHHHHHHHH---HHHhhHHH
Confidence                                                 79999999999999999999999 77888888   88888875

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=100.00  E-value=1e-80  Score=665.48  Aligned_cols=350  Identities=27%  Similarity=0.374  Sum_probs=304.8

Q ss_pred             hcccccccCceeeecCCeeEEccchhhhhcccccccCC-eEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccccc
Q psy13776         67 MSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGG-GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK  145 (539)
Q Consensus        67 i~g~~~e~~G~v~~IGDg~gL~~~~~~~~gEVV~f~~g-~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~  145 (539)
                      |.|.++++.|..+.+||.|.+....          .++ ..|.|+.++.   +.+.+++|+++.|++.|++|++||++++
T Consensus        30 i~G~~v~~~~~~~~~ge~~~i~~~~----------~~~~~~~eVi~~~~---~~v~l~~~~~t~gl~~G~~V~~tg~~~~   96 (440)
T TIGR01026        30 VKGLLIEAVGPQASVGDLCLIERRG----------SEGRLVAEVVGFNG---EFVFLMPYEEVEGVRPGSKVLATGEGLS   96 (440)
T ss_pred             EEeeEEEEEcCCCCcCCEEEEeecC----------CCCcEEEEEEEecC---CEEEEEEccCCcCCCCCCEEEeCCCccE
Confidence            4455555555555555555552110          011 4455555555   8899999999999999999999999999


Q ss_pred             ccCCCcccceeE--eeeccCCCC-Ccccch---hccccccccccccccccccccceeeeeeeeccccceeeeeccCCCCc
Q psy13776        146 VDRGSINCGQLI--IGDRQTGKT-ALAIDT---IINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGK  219 (539)
Q Consensus       146 VpVG~~LLGRVv--lG~PiDgk~-~i~~~~---~~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGK  219 (539)
                      ||+|++|||||+  +|+|+||++ ++....   +...++++..|..+++|+.||+++||.++||++|||++|||++|+||
T Consensus        97 v~vg~~llGRVid~~G~plD~~~~~~~~~~~~~i~~~~~~p~~R~~~~e~l~TGi~~iD~l~~i~~Gq~~~I~G~sG~GK  176 (440)
T TIGR01026        97 IKVGDGLLGRVLDGLGKPIDGKGKFLDNVETEGLITAPINPLKRAPIREILSTGVRSIDGLLTVGKGQRIGIFAGSGVGK  176 (440)
T ss_pred             EEcChhhhhceecCCCcccCCCCCCCCCccccccccCCCChHHccCccccccceeeeeeeccccCCCcEEEEECCCCCCH
Confidence            999999999999  999999987 554322   11223444444445999999999999999999999999999999999


Q ss_pred             hHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHH
Q psy13776        220 TALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI  299 (539)
Q Consensus       220 TtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~  299 (539)
                      |+|+ .+|+++...                                                ...+|++||+|++|+.+|
T Consensus       177 StLl-~~I~~~~~~------------------------------------------------~~~vi~~iG~r~~ev~~~  207 (440)
T TIGR01026       177 STLL-GMIARNTEA------------------------------------------------DVNVIALIGERGREVREF  207 (440)
T ss_pred             HHHH-HHHhCCCCC------------------------------------------------CEEEEEEEeecchHHHHH
Confidence            9997 777755421                                                246889999999999999


Q ss_pred             HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCC
Q psy13776        300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPG  379 (539)
Q Consensus       300 ~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg  379 (539)
                      ++++.+.+.|+||++|++++|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||
T Consensus       208 ~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~~~a~t~AE~frd~G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gypp  287 (440)
T TIGR01026       208 IEHDLGEEGLKRSVVVVATSDQSPLLRLKGAYVATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPATKGYTP  287 (440)
T ss_pred             HHHHhcccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHHhcCCCCcccccCh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEec
Q psy13776        380 DVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFG  459 (539)
Q Consensus       380 ~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~  459 (539)
                      ++|+.+++|+|||+.    .++||||+||+|+++++|++|||+|++++|+||||+|||+||++|                
T Consensus       288 ~~~~~l~~l~ERag~----~~~GSIT~i~tVl~~~~d~~dpi~d~~~~i~dG~ivLsr~la~~~----------------  347 (440)
T TIGR01026       288 SVFSTLPRLLERAGA----SGKGSITAFYTVLVEGDDMNEPIADSVRGILDGHIVLSRALAQRG----------------  347 (440)
T ss_pred             hHHHHHHHHHHHhcc----CCCCeeeEEEEEEccCcCCCcchhhhhccccceEEEEecchhhCC----------------
Confidence            999999999999995    358999999999999999999999999999999999999999999                


Q ss_pred             ccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        460 NDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       460 ~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                         +|||||++.|+||+++.++++.| +.+.++|+   +|++|+++
T Consensus       348 -----------------------------------~~PAId~~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e~  387 (440)
T TIGR01026       348 -----------------------------------HYPAIDVLASISRLMTAIVSEEHRRAARKFRE---LLSKYKDN  387 (440)
T ss_pred             -----------------------------------ccCccCCCcccccCccccCCHHHHHHHHHHHH---HHHhhHHH
Confidence                                               79999999999999999999999 77888898   88888876

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=5.4e-81  Score=664.34  Aligned_cols=346  Identities=22%  Similarity=0.271  Sum_probs=309.0

Q ss_pred             hhhcccccccCceeeecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccc
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFY  144 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~  144 (539)
                      .++.|+++++.|+.+.+||.|.+.  .....+||++|++              +++.+++|+++.|++.|+.|++|++++
T Consensus        26 ~~~~g~~~~~~g~~~~ige~~~i~--~~~~~~eV~~~~~--------------~~~~~~~~~~~~gi~~g~~v~~~~~~~   89 (432)
T PRK06793         26 HSVQEQFFVAKGPKAKIGDVCFVG--EHNVLCEVIAIEK--------------ENNMLLPFEQTEKVCYGDSVTLIAEDV   89 (432)
T ss_pred             EEEEEEEEEEEcCCCCcCCEEEEC--CCCEEEEEEEecC--------------CcEEEEEccCccCCCCCCEEEECCCcc
Confidence            467899999999999999999993  1226677777776              669999999999999999999999999


Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccchhc---ccc--ccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDTII---NQK--RKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~---~~~--~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +||||++|||||+  +|+|+||++++...+..   ..+  +..|.++  ++|+.||+++||.++|+++|||++|||++|+
T Consensus        90 ~v~vg~~~lGrV~d~~G~piD~~~~~~~~~~~~i~~~~~~~~~r~~i--~~~l~TGiraID~ll~I~~Gqri~I~G~sG~  167 (432)
T PRK06793         90 VIPRGNHLLGKVLSANGEVLNEEAENIPLQKIKLDAPPIHAFEREEI--TDVFETGIKSIDSMLTIGIGQKIGIFAGSGV  167 (432)
T ss_pred             EEEcCHhhccCEECcCCccCCCCCCCCCcccccccCCCCCchheech--hhccCCCCEEEeccceecCCcEEEEECCCCC
Confidence            9999999999999  99999998765433221   122  3334444  8999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+ .+|+++...                                                ...++++||||++||+
T Consensus       168 GKTtLl-~~Ia~~~~~------------------------------------------------~~gvI~~iGerg~ev~  198 (432)
T PRK06793        168 GKSTLL-GMIAKNAKA------------------------------------------------DINVISLVGERGREVK  198 (432)
T ss_pred             ChHHHH-HHHhccCCC------------------------------------------------CeEEEEeCCCCcccHH
Confidence            999997 666644321                                                1346789999999999


Q ss_pred             HHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCC
Q psy13776        298 QIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY  377 (539)
Q Consensus       298 e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gy  377 (539)
                      +|++...+...|+||++|++|+|+|+.+|+++|++|+++||||||+|+|||+++||+||||+|+|||+++++|||+. ||
T Consensus       199 e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~~a~~iAEyfr~~G~~VLlilDslTr~a~A~reisl~~~e~p~~-G~  277 (432)
T PRK06793        199 DFIRKELGEEGMRKSVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFADARRSVDIAVKELPIG-GK  277 (432)
T ss_pred             HHHHHHhhhcccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEecchHHHHHHHHHHHHHhcCCCCC-Ce
Confidence            99986666566999999999999999999999999999999999999999999999999999999999999999996 99


Q ss_pred             CCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEE
Q psy13776        378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVV  457 (539)
Q Consensus       378 Pg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~  457 (539)
                      |+++|+.|++|+||||+.    ++||||++|+|++|+||++|||||+++|||||||||||+||++|              
T Consensus       278 ~~~~~s~l~~L~ERag~~----~~GSiT~~~tvlv~~dD~~dpI~d~~~si~DG~ivLsr~la~~g--------------  339 (432)
T PRK06793        278 TLLMESYMKKLLERSGKT----QKGSITGIYTVLVDGDDLNGPVPDLARGILDGHIVLKRELATLS--------------  339 (432)
T ss_pred             eeeeeccchhHHHHhccC----CCcceEEEEEEEecCCCCCCcchHHhhhhcceEEEEcHHHHhCC--------------
Confidence            999999999999999985    37999999999999999999999999999999999999999999              


Q ss_pred             ecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        458 FGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       458 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                           +|||||++.|+||+|+.++++.| +.+..+|+   +|+.|+++
T Consensus       340 -------------------------------------~~PAIDv~~S~SR~~~~~~~~~~~~~a~~~r~---~la~y~e~  379 (432)
T PRK06793        340 -------------------------------------HYPAISVLDSVSRIMEEIVSPNHWQLANEMRK---ILSIYKEN  379 (432)
T ss_pred             -------------------------------------CCCccCCCcccCcCccccCCHHHHHHHHHHHH---HHHhChHH
Confidence                                                 79999999999999999999999 77888898   88888875

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.9e-78  Score=646.22  Aligned_cols=351  Identities=27%  Similarity=0.381  Sum_probs=313.1

Q ss_pred             hhhcccccccCceeeecCCeeEEccc-hh--hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSR-LL--ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~-~~--~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      .++.|.++++.|+.+++||.|.+... ..  +..+||++|.+              +++.+++|+++.|++.|++|++||
T Consensus        23 ~~i~G~~i~~~~~~~~ige~~~i~~~~~~~~~~~~EVi~~~~--------------~~~~l~~~~~~~gl~~g~~V~~tg   88 (438)
T PRK07721         23 SRVIGLMIESKGPESSIGDVCYIHTKGGGDKAIKAEVVGFKD--------------EHVLLMPYTEVAEIAPGCLVEATG   88 (438)
T ss_pred             EEEECcEEEEEECCCCchheEEEEecCCCCceEEEEEEEEcC--------------CEEEEEEccCccCCCCCCEEEECC
Confidence            45788899999999999999999422 11  26788988887              669999999999999999999999


Q ss_pred             ccccccCCCcccceeE--eeeccCCCCCcccch---hccccccccccccccccccccceeeeeeeeccccceeeeeccCC
Q psy13776        142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDT---IINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQ  216 (539)
Q Consensus       142 ~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~---~~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~g  216 (539)
                      ++++||||++|||||+  +|+|+||++......   +...++++..|..+++||.||+++||.++|+++||+++|+|++|
T Consensus        89 ~~~~v~vg~~llGRv~d~~G~plD~~~~~~~~~~~~i~~~~p~p~~R~~i~~~l~tg~~vid~l~~i~~Gq~i~I~G~sG  168 (438)
T PRK07721         89 KPLEVKVGSGLIGQVLDALGEPLDGSALPKGLAPVSTDQDPPNPLKRPPIREPMEVGVRAIDSLLTVGKGQRVGIFAGSG  168 (438)
T ss_pred             CccEEEechhhcCCEECcCCCccCCCCCCCccccCCccCCCCChhhccCcccccccchhhhheeeeecCCcEEEEECCCC
Confidence            9999999999999999  999999987433322   11223444444455999999999999999999999999999999


Q ss_pred             CCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHH
Q psy13776        217 TGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTV  296 (539)
Q Consensus       217 tGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev  296 (539)
                      +|||+|+ .+|+++...                                                ...++.++|||++|+
T Consensus       169 ~GKStLl-~~I~~~~~~------------------------------------------------~~gvI~~~Gerg~ev  199 (438)
T PRK07721        169 VGKSTLM-GMIARNTSA------------------------------------------------DLNVIALIGERGREV  199 (438)
T ss_pred             CCHHHHH-HHHhcccCC------------------------------------------------CeEEEEEEecCCccH
Confidence            9999997 677654321                                                136788999999999


Q ss_pred             HHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCC
Q psy13776        297 AQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREA  376 (539)
Q Consensus       297 ~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~g  376 (539)
                      ++|+++..+...++|+++|++|+|+||.+|+++||+|||+||||||+|+|||+++||+||||+||||||+++||||+++|
T Consensus       200 ~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~G  279 (438)
T PRK07721        200 REFIERDLGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIGLAVGEPPTTKG  279 (438)
T ss_pred             HHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHHHHhcCCCCcccc
Confidence            99999977777799999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccE
Q psy13776        377 YPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVV  456 (539)
Q Consensus       377 yPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~  456 (539)
                      |||++|+.+++|+||+++.    ++||||+|+||+++++|+++||+|++++|+||||+||++|+++|             
T Consensus       280 ~dp~~~~~l~~ller~~~~----~~GsIT~~~TVlv~~hdm~e~i~d~v~~i~dG~Ivls~~la~~g-------------  342 (438)
T PRK07721        280 YTPSVFAILPKLLERTGTN----ASGSITAFYTVLVDGDDMNEPIADTVRGILDGHFVLDRQLANKG-------------  342 (438)
T ss_pred             CCHHHHHHHHHHHHHhcCC----CCCCeeeEEEEEEECCCCCchhhhhEEEecCEEEEEeccHHHCC-------------
Confidence            9999999999999999862    47999999999999999999999999999999999999999999             


Q ss_pred             EecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhh
Q psy13776        457 VFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQ  535 (539)
Q Consensus       457 ~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~  535 (539)
                                                            +|||||++.|+||+++.++++.| +.+.++|+   +|++|++
T Consensus       343 --------------------------------------~~PAIdv~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e  381 (438)
T PRK07721        343 --------------------------------------QYPAINVLKSVSRVMNHIVSPEHKEAANRFRE---LLSTYQN  381 (438)
T ss_pred             --------------------------------------CCCccCCcccccccccccCCHHHHHHHHHHHH---HHHHhHH
Confidence                                                  79999999999999999999999 67788899   8888887


Q ss_pred             h
Q psy13776        536 L  536 (539)
Q Consensus       536 ~  536 (539)
                      +
T Consensus       382 ~  382 (438)
T PRK07721        382 S  382 (438)
T ss_pred             H
Confidence            5

>PRK06315 type III secretion system ATPase; Provisional

Probab=100.00  E-value=9.1e-78  Score=641.17  Aligned_cols=352  Identities=24%  Similarity=0.343  Sum_probs=312.4

Q ss_pred             hhhcccccccCceeeecCCeeEEccchh-hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         65 RQMSLLLRRPPGREAYPGDVFYLHSRLL-ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        65 ~ei~g~~~e~~G~v~~IGDg~gL~~~~~-~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      .++.|+++++.|+.+++||.|.+..... ...+||++|++              +.+.+++|+++.|++.|++|.+++++
T Consensus        28 ~~i~g~~~~~~~~~~~~ge~~~i~~~~~~~~~~eVv~~~~--------------~~~~l~~~~~~~gi~~g~~V~~~g~~   93 (442)
T PRK06315         28 TEVVGMLIKAVVPDVRVGEVCLVKRHGMEPLVTEVVGFTQ--------------NFVFLSPLGELTGVSPSSEVIPTGLP   93 (442)
T ss_pred             EEEECCEEEEEECCcccCCEEEEecCCCCEEEEEEEEEcC--------------CeEEEEEccCCcCCCCCCEEEeCCCc
Confidence            5688999999999999999999943211 25678888776              67999999999999999999999999


Q ss_pred             ccccCCCcccceeE--eeeccCC--CCCcc-cch---hccccccccccccccccccccceeeeeeeeccccceeeeeccC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTG--KTALA-IDT---IINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDR  215 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDg--k~~i~-~~~---~~~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~  215 (539)
                      ++||||++|||||+  +|+|+|+  ++++. .++   +...++++..|..+++||+||||+||.++||++|||++|||++
T Consensus        94 ~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~~~~~i~~~~~~~~~R~~~~e~l~TGi~aID~~l~i~~Gq~i~I~G~s  173 (442)
T PRK06315         94 LHIRAGNGLLGRVLNGLGEPIDTETKGPLENVDETYPIFRAPPDPLHRAKLRTILSTGVRCIDGMLTVARGQRIGIFAGA  173 (442)
T ss_pred             cEEEecccccCCEEeccCcccccccCCCcccccceeeeecCCCChHHcccccccccceEEEEeccccccCCcEEEEECCC
Confidence            99999999999999  9999998  76654 222   2223344444545599999999999999999999999999999


Q ss_pred             CCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhH
Q psy13776        216 QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRST  295 (539)
Q Consensus       216 gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~e  295 (539)
                      |+|||+|+ .+|+++...                                               ....|+++||||++|
T Consensus       174 G~GKStLl-~~I~~~~~~-----------------------------------------------~~~~vi~liGerg~e  205 (442)
T PRK06315        174 GVGKSSLL-GMIARNAEE-----------------------------------------------ADVNVIALIGERGRE  205 (442)
T ss_pred             CCCcchHH-HHhhccccc-----------------------------------------------CCceEEEEECCCchH
Confidence            99999998 667643311                                               012577999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCC
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGRE  375 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~  375 (539)
                      +.+|.++......++++++|++||+++|..|+.++++|+++|||||++|++||+++||+||||+|+||+++++||||+++
T Consensus       206 v~~~~~~~l~~~g~~~svvvvats~q~p~~rlnp~~va~~IAE~~r~~g~~Vl~~~Ds~tR~a~alreV~L~~gepp~~~  285 (442)
T PRK06315        206 VREFIEGDLGEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQGKTVVLMMDSVTRFARALREVGLAAGEPPARA  285 (442)
T ss_pred             HHHHHHHHHHhcCCceEEEEEeCCCCCHHHHhhHHHHHHHHHHHHHHcCCCcchhhhHHHHHHHHHHHhCcCCCCCcccc
Confidence            99999886555669999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCccc
Q psy13776        376 AYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGV  455 (539)
Q Consensus       376 gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~  455 (539)
                      +|||++|+.||+|+||||+.    ++||||+||+|++++||++|||||+++||+||||||||+||++|            
T Consensus       286 gypP~~fS~l~~llERag~~----~~GSITai~tVl~~gdD~~dpi~d~~~~i~dg~ivLsr~la~~g------------  349 (442)
T PRK06315        286 GYTPSVFSTLPKLLERSGAS----DKGTITAFYTVLVAGDDMNEPVADEVKSILDGHIVLSNALAQAY------------  349 (442)
T ss_pred             CCCCchhhHhHHHHHHhcCC----CCcceeeeEEEEecCCCCCcccHHHhhhhcceEEEEeccHHHcC------------
Confidence            99999999999999999984    48999999999999999999999999999999999999999999            


Q ss_pred             EEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhh
Q psy13776        456 VVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLK  534 (539)
Q Consensus       456 ~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~  534 (539)
                                                             +|||||++.|+||+|+++++++| +.+.++|+   +|++|+
T Consensus       350 ---------------------------------------~~Paidv~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~  387 (442)
T PRK06315        350 ---------------------------------------HYPAIDVLASISRLLTAIVPEEQRRIIGKARE---VLAKYK  387 (442)
T ss_pred             ---------------------------------------CCCCccchhhhcccchhcCCHHHHHHHHHHHH---HHHhhh
Confidence                                                   79999999999999999999999 66788888   888888


Q ss_pred             hh
Q psy13776        535 QL  536 (539)
Q Consensus       535 ~~  536 (539)
                      |+
T Consensus       388 e~  389 (442)
T PRK06315        388 AN  389 (442)
T ss_pred             hh
Confidence            75

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=100.00  E-value=2.1e-76  Score=610.62  Aligned_cols=288  Identities=30%  Similarity=0.448  Sum_probs=263.6

Q ss_pred             cccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                      +++||||++|||||+  +|+||||++++...+..+   .++++..|..+++|+.||+++||.++|+++|||++|||++|+
T Consensus         1 ~~~v~vg~~~lGrv~d~~G~pid~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~tGi~aiD~l~~i~~Gqri~I~G~sG~   80 (326)
T cd01136           1 PLSVPVGDALLGRVLDAFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLPTGVRAIDGLLTVGKGQRLGIFAGSGV   80 (326)
T ss_pred             CceeeCCcccccCEECCCCcccCCCCCCCCCccccccCCCcCHHHhccceeEcCCCcEEEeeeeEEcCCcEEEEECCCCC
Confidence            468999999999999  999999998764433222   234444555559999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+ .+|+++...                                                ..++|++||||++|+.
T Consensus        81 GKTtLl-~~Ia~~~~~------------------------------------------------~~~vi~~iGer~~ev~  111 (326)
T cd01136          81 GKSTLL-GMIARGTTA------------------------------------------------DVNVIALIGERGREVR  111 (326)
T ss_pred             ChHHHH-HHHhCCCCC------------------------------------------------CEEEEEEEecCCccHH
Confidence            999996 777755421                                                2589999999999999


Q ss_pred             HHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCC
Q psy13776        298 QIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY  377 (539)
Q Consensus       298 e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gy  377 (539)
                      +|.+...+.+.++||++|++|+|+||.+|+++||+|+++||||||+|||||+++||+||||+|+||+|+++||||+++||
T Consensus       112 ~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~g~~Vll~~Dsltr~a~A~rei~~~~ge~p~~~gy  191 (326)
T cd01136         112 EFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGY  191 (326)
T ss_pred             HHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEeccchHHHHHHHHHHHhcCCCCCcCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEE
Q psy13776        378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVV  457 (539)
Q Consensus       378 Pg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~  457 (539)
                      ||++|+.|++|+||||+.+    +||||+||+|++|+||++|||||++++|+||||+|||+||++|              
T Consensus       192 p~~~~~~~~~l~ERag~~~----~GSIT~i~tv~~~gdd~~dpi~~~~~~~~dg~ivL~r~la~~g--------------  253 (326)
T cd01136         192 PPSVFALLPRLLERAGNSD----KGSITAFYTVLVEGDDLNEPIADAVRSILDGHIVLSRALAAAG--------------  253 (326)
T ss_pred             ChHHHHHhHHHHHHhcCCC----CCCeeeeeeeeecCCCCCcchHHhhhhccceEEEEcCcHHHcC--------------
Confidence            9999999999999999863    5999999999999999999999999999999999999999999              


Q ss_pred             ecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        458 FGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       458 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                                                           +|||||++.|+||+++.++.+.| +.+.++|+   +|++|+|+
T Consensus       254 -------------------------------------~~PAid~~~S~SR~~~~~~~~~~~~~a~~~r~---~l~~y~e~  293 (326)
T cd01136         254 -------------------------------------HYPAIDVLKSISRLMNAVVTPEHKEAARKLRE---LLSAYQEV  293 (326)
T ss_pred             -------------------------------------CCCCcccccccccCccccCCHHHHHHHHHHHH---HHHHhHHH
Confidence                                                 79999999999999999999999 77889999   88888886


Q ss_pred             h
Q psy13776        537 Y  537 (539)
Q Consensus       537 ~  537 (539)
                      .
T Consensus       294 ~  294 (326)
T cd01136         294 E  294 (326)
T ss_pred             H
Confidence            3

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=100.00  E-value=1.9e-71  Score=574.75  Aligned_cols=213  Identities=23%  Similarity=0.360  Sum_probs=201.3

Q ss_pred             ccccccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchh
Q psy13776        182 RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHAL  261 (539)
Q Consensus       182 ~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~  261 (539)
                      .+..+++||.||||+||+|+||+||||++|||++|+|||+|+ .+|++|++.                            
T Consensus       133 ~r~~~~~pL~TGirvID~l~Pi~kGqr~~I~G~~G~GKT~L~-~~Iak~~~~----------------------------  183 (369)
T cd01134         133 EKLPPNEPLLTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVIQ-QSLSKYSNS----------------------------  183 (369)
T ss_pred             ccCCCCCchhccchhhhccccccCCCEEEEECCCCCChHHHH-HHHHhCCCC----------------------------
Confidence            455669999999999999999999999999999999999998 678877643                            


Q ss_pred             hhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHh-------cCCCCceEEEEEecCCCChhhhhhhhHHHH
Q psy13776        262 IIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLT-------DSGAMGYTIIVSATASDAAPLQYLAPYSGC  334 (539)
Q Consensus       262 ~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~-------~~~~~~~tvvV~atad~~a~~r~~ap~~a~  334 (539)
                                          .+|||++||||++|+++|++++.       +.+.|+||++|+||||+|+.+|++++|+|+
T Consensus       184 --------------------dvvVyv~iGERg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~~R~~s~yta~  243 (369)
T cd01134         184 --------------------DIVIYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTGI  243 (369)
T ss_pred             --------------------CEEEEEEeCCChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCHHHHHHHHHHHH
Confidence                                26999999999999999999975       578899999999999999999999999999


Q ss_pred             HHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCC---CCCccceeeeEEE
Q psy13776        335 AMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEA---HGGGSLTALPVIE  411 (539)
Q Consensus       335 tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~---~g~GSITal~~v~  411 (539)
                      |+||||||+|+|||+++||+||||+|+||||++++|||+++|||+++|+.+++||||||++++.   .++||||++++|+
T Consensus       244 tiAEYfrd~G~dVll~~Ds~tR~A~A~REIs~~l~E~P~~~GYP~yl~s~La~~yERAG~~~~~~~~~~~GSIT~i~~V~  323 (369)
T cd01134         244 TIAEYFRDMGYNVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREGSVTIVGAVS  323 (369)
T ss_pred             HHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhcCCCCCccCcCccHHHHHHHHHHhcccccccCCCCCCccEEEEEEEE
Confidence            9999999999999999999999999999999999999999999999999999999999998643   3579999999999


Q ss_pred             eeCCCcCCccccccccccceeEEeehhHHhcc
Q psy13776        412 TQAGDVSAYIPTNVISITDGQIFLETELFYKG  443 (539)
Q Consensus       412 ~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g  443 (539)
                      +++||++||||+++++|+||||+|||+||++|
T Consensus       324 ~~g~D~sdPV~~~t~~i~dg~i~Lsr~La~~g  355 (369)
T cd01134         324 PPGGDFSEPVTQATLRIVQVFWGLDKKLAQRR  355 (369)
T ss_pred             ccCCCcCcchHHhhHhhcceEEEECHHHHhCC
Confidence            99999999999999999999999999999999

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>PRK14698 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=5.4e-71  Score=634.43  Aligned_cols=202  Identities=23%  Similarity=0.310  Sum_probs=188.4

Q ss_pred             eEEEEEeeccchhHHHHHHHHH-------hcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecCh
Q psy13776        282 LYCIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDL  354 (539)
Q Consensus       282 ~~~Vy~~IGer~~ev~e~~~~l-------~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~Dsl  354 (539)
                      .+|||++||||++||+||++++       .+.++|+|||+|+||||+|+++|+++||+|+||||||||||+|||+++||+
T Consensus       683 di~V~~~iGERg~Ev~e~l~~~~~l~~~~~g~~~m~rtvlv~~ts~~p~~~R~~s~y~a~tiAEyfrd~G~~Vll~~Ds~  762 (1017)
T PRK14698        683 QVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADST  762 (1017)
T ss_pred             CEEEEEeeccchHHHHHHHHHHHhhcccccCccccccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEeccc
Confidence            6899999999999999999999       458999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhccc---CCCCCccceeeeEEEeeCCCcCCccccccccccce
Q psy13776        355 SKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMS---EAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG  431 (539)
Q Consensus       355 Tr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~---~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDG  431 (539)
                      ||||+|+||||+++||||+++||||++|+.+|+||||||++.   ...++||||++|+|++|+||++|||||++++|+||
T Consensus       763 sR~A~A~REis~~l~e~P~~~gyP~~l~s~L~~~~ERaG~~~~l~~~~~~GSIT~i~~V~~~g~D~s~Pv~~~~~~i~dg  842 (1017)
T PRK14698        763 SRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVKV  842 (1017)
T ss_pred             hHHHHHHHHHHHhcCCCCCCCCcCccHHHHHHHHHHhccCCcccCCCCCCcceEEEEEEECCCCCCCCcHHHHHHHHhCc
Confidence            999999999999999999999999999999999999999864   22357999999999999999999999999999999


Q ss_pred             eEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCch
Q psy13776        432 QIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSA  511 (539)
Q Consensus       432 qIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~  511 (539)
                      ||+|||+||++|                                                   +|||||++.|+||+++.
T Consensus       843 ~i~L~~~La~~g---------------------------------------------------~~PAId~l~S~Sr~~~~  871 (1017)
T PRK14698        843 FWALDADLARRR---------------------------------------------------HFPAINWLTSYSLYVDA  871 (1017)
T ss_pred             EEecCHHHHhCC---------------------------------------------------CCCCcCcccchhhhccc
Confidence            999999999999                                                   69999999999999987


Q ss_pred             h-------hhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        512 A-------QTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       512 ~-------~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +       .++.+ +.....|+   +|++|+|+.
T Consensus       872 ~~~~~~~~~~~~~~~~~~~~~~---~l~~~~el~  902 (1017)
T PRK14698        872 VKDWWHKNVDPEWKAMRDKAME---LLQKEAELQ  902 (1017)
T ss_pred             ccchhccccCHHHHHHHHHHHH---HHHHHHHHH
Confidence            7       45666 55666677   788888864

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=100.00  E-value=4e-69  Score=528.47  Aligned_cols=203  Identities=42%  Similarity=0.722  Sum_probs=190.8

Q ss_pred             ccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHH
Q psy13776        192 AGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA  271 (539)
Q Consensus       192 TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a  271 (539)
                      ||||+||+|+|||||||++|||++|+|||+|+.+.+.|+. .                     |                
T Consensus         1 TGir~ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~-~---------------------d----------------   42 (215)
T PF00006_consen    1 TGIRAIDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQD-A---------------------D----------------   42 (215)
T ss_dssp             -SHHHHHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHCT-T---------------------T----------------
T ss_pred             CCCceeccccccccCCEEEEEcCcccccchhhHHHHhccc-c---------------------c----------------
Confidence            8999999999999999999999999999999965444443 2                     1                


Q ss_pred             HHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEe
Q psy13776        272 VAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  351 (539)
Q Consensus       272 ~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~  351 (539)
                                 ..||++||||++|+.+|++++++.++++||++|++|+|+||.+|+++||+||++||||||+|+|||+++
T Consensus        43 -----------~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~  111 (215)
T PF00006_consen   43 -----------VVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPYTALTIAEYFRDQGKDVLLII  111 (215)
T ss_dssp             -----------EEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHHHHHHHHHHHHHTTSEEEEEE
T ss_pred             -----------ceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhccchhhhHHHhhcCCceeehh
Confidence                       349999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccce
Q psy13776        352 DDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDG  431 (539)
Q Consensus       352 DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDG  431 (539)
                      ||+||||+|+||||+++||||+++|||+++|+.|++|+||||+++...++||||++++|++|+||++||||+++++|+||
T Consensus       112 Dsltr~a~A~reis~~~g~~p~~~Gyp~~~~~~l~~l~ERag~~~~~~~~GSIT~~~~v~~~~~d~~~pi~~~~~~~~dg  191 (215)
T PF00006_consen  112 DSLTRWAQAYREISLLLGEPPGREGYPPSLFSDLASLYERAGKVNSEEGGGSITAIPTVLVPGDDITDPIPDNTKSILDG  191 (215)
T ss_dssp             ETHHHHHHHHHHHHHHTTSSBBGGGSBTTHHHHHHHHHTTSEEBSTTTTSEEEEEEEEEEESTTBTTSHHHHHHHTTSSE
T ss_pred             hhhHHHHHHHHhhhcccccccccccccchhccchhhHHHHhhccccccCCceeeeecccccccccccchHHHHHHhhcce
Confidence            99999999999999999999999999999999999999999999666679999999999999999999999999999999


Q ss_pred             eEEeehhHHhcc
Q psy13776        432 QIFLETELFYKG  443 (539)
Q Consensus       432 qIvLsr~La~~g  443 (539)
                      ||+|||+||++|
T Consensus       192 ~i~L~r~la~~~  203 (215)
T PF00006_consen  192 HIVLSRKLAERG  203 (215)
T ss_dssp             EEEB-HHHHHTT
T ss_pred             EEEeCHHHHhCC
Confidence            999999999999

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK12608 transcription termination factor Rho; Provisional

Probab=100.00  E-value=3e-66  Score=541.24  Aligned_cols=294  Identities=18%  Similarity=0.218  Sum_probs=261.8

Q ss_pred             CcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcc-cchhccccccccccccccccc-cccceeeeeeeec
Q psy13776        128 VISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALA-IDTIINQKRKKRRRLLKYNLL-SAGIKAVDSLVPI  203 (539)
Q Consensus       128 ~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~-~~~~~~~~~~~r~ri~~~epl-~TGIraID~l~pI  203 (539)
                      ..+|+.|+.|..++++   ++|+.+||||+  +|+|+|+..... .+...+..|..|.++  .++. .+|+|+||+|+||
T Consensus        56 ~~~l~~Gd~V~~~~r~---~~~~~~LgrV~~~~G~p~d~~~~~~~~~~~~pi~p~~R~~i--e~~~~~~~~RvID~l~Pi  130 (380)
T PRK12608         56 RFNLRTGDVVEGVARP---RERYRVLVRVDSVNGTDPEKLARRPHFDDLTPLHPRERLRL--ETGSDDLSMRVVDLVAPI  130 (380)
T ss_pred             HhCCCCCCEEEeccCC---CCChhheEEEeccCCcCchhcccccCcCcCCCCCccccccc--cccCcchhHhhhhheeec
Confidence            5789999999999998   99999999999  999999863211 121222235566666  6777 8999999999999


Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceE
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLY  283 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~  283 (539)
                      |||||++|+|++|+|||||+ .+|++....                                            +++++.
T Consensus       131 GkGQR~LIvG~pGtGKTTLl-~~la~~i~~--------------------------------------------~~~dv~  165 (380)
T PRK12608        131 GKGQRGLIVAPPRAGKTVLL-QQIAAAVAA--------------------------------------------NHPEVH  165 (380)
T ss_pred             CCCceEEEECCCCCCHHHHH-HHHHHHHHh--------------------------------------------cCCCce
Confidence            99999999999999999998 456655432                                            124578


Q ss_pred             EEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHH
Q psy13776        284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  363 (539)
Q Consensus       284 ~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Re  363 (539)
                      |+|++||||++||++|++.+..       +++++++|+|+..+..+.++++++||||+++|+||+|++||+||||+||||
T Consensus       166 ~vv~lIgER~~EV~df~~~i~~-------~Vvast~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A~A~re  238 (380)
T PRK12608        166 LMVLLIDERPEEVTDMRRSVKG-------EVYASTFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNN  238 (380)
T ss_pred             EEEEEecCCCCCHHHHHHHHhh-------hEEeecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHHHHHHHh
Confidence            9999999999999999999975       788889999998888899999999999999999999999999999999999


Q ss_pred             hhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCccccccccccceeEEeehhHHhc
Q psy13776        364 MSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNVISITDGQIFLETELFYK  442 (539)
Q Consensus       364 isl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~~sitDGqIvLsr~La~~  442 (539)
                      +++..||||+ .|||+++|+.++||+|||++..   ++||||+|+||+++ ++||+|||+++++|++||||+|||+||++
T Consensus       239 i~~~~G~~~s-~G~~~s~~~~~~rl~~~A~~~~---~~GSiT~i~TvLvetg~~mdd~I~ee~kg~~dg~ivLsR~lA~~  314 (380)
T PRK12608        239 EVESSGRTLS-GGVDARALQRPKRLFGAARNIE---EGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADK  314 (380)
T ss_pred             hhcccCCCCC-CCcChHHHhhhHHHHHhcCCCC---CCcchhheEEEEEecCCCCCcchHHHhcccCCCeEEECHHHHhC
Confidence            9999999999 9999999999999999999863   58999999999999 88999999999999999999999999999


Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhh
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTG  521 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~  521 (539)
                      |                                                   +|||||+..|+||+++...++++ +++.
T Consensus       315 ~---------------------------------------------------~fPAIDi~~S~sR~~~~l~~~~~~~~~~  343 (380)
T PRK12608        315 R---------------------------------------------------VFPAIDIAKSGTRREELLLDSKELEKVR  343 (380)
T ss_pred             C---------------------------------------------------CCCccCcccccCcchhhcCCHHHHHHHH
Confidence            9                                                   79999999999999999999999 8899


Q ss_pred             hhhhHHHHHHHhhhh
Q psy13776        522 KIRSWNGWLSLLKQL  536 (539)
Q Consensus       522 ~~r~~~~~~~~~~~~  536 (539)
                      .+|+   +|+.|++.
T Consensus       344 ~~R~---~l~~~~~~  355 (380)
T PRK12608        344 RLRR---ALASRKPV  355 (380)
T ss_pred             HHHH---HHHccCHH
Confidence            9999   77777653

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=6.4e-64  Score=515.16  Aligned_cols=318  Identities=22%  Similarity=0.313  Sum_probs=290.4

Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccc--hhc--cccccccccc-cccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAID--TII--NQKRKKRRRL-LKYN  188 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~--~~~--~~~~~~r~ri-~~~e  188 (539)
                      +++.|..+.++.++|+..|+.|..||++.+||||+..|||++  +|+|+|+.+|+...  +.+  +.+++..... ..+|
T Consensus        50 g~~~VR~Iam~~t~gl~rg~~v~dtg~pi~VPVG~~~lgri~nvlG~~iD~~~~~~~~~~~~~~Ih~~~p~~~e~~~~~E  129 (468)
T COG0055          50 GDNVVRTIAMGSTDGLVRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPIKAEDFEKWPIHRKAPSFEELSTKTE  129 (468)
T ss_pred             CCCeEEEEEecCccCcccCcEEecCCCceEEecchhhcccchhccCCcccccCCCCccccceeeccCCCCchhhcccchh
Confidence            348899999999999999999999999999999999999999  99999999998754  222  2333333333 4599


Q ss_pred             cccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhh
Q psy13776        189 LLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLS  268 (539)
Q Consensus       189 pl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~  268 (539)
                      .|+||||+||.|.|+-||.|+|+||++|+|||.|+++.|.|-+..                                   
T Consensus       130 IleTGIKVIDll~P~~kGgKiGLFGGAGVGKTVl~~ELI~Nia~~-----------------------------------  174 (468)
T COG0055         130 ILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNIAKE-----------------------------------  174 (468)
T ss_pred             hhhhCceEEEEecccccCceeeeeccCCccceeeHHHHHHHHHHH-----------------------------------
Confidence            999999999999999999999999999999999998777665432                                   


Q ss_pred             hHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcE
Q psy13776        269 KQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHA  347 (539)
Q Consensus       269 ~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdV  347 (539)
                                 ++.+.||+++|||.||..+++.++++++.+++|++|...+|+||+.|.+.+.+|+||||||||+ |+||
T Consensus       175 -----------h~g~SVFaGvGERtREGndLy~Em~es~vl~ktalv~gQMNEpPGaR~RValtGlT~AEyfRD~~gqdV  243 (468)
T COG0055         175 -----------HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRVALTGLTMAEYFRDEEGQDV  243 (468)
T ss_pred             -----------cCCeEEEEeccccccchHHHHHHHHhcCCCCceeEEEeecCCCCcceeeehhhhhhHHHHhhcccCCeE
Confidence                       2358999999999999999999999999999999999999999999999999999999999996 9999


Q ss_pred             EEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCcccccccc
Q psy13776        348 LIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVIS  427 (539)
Q Consensus       348 Lli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~s  427 (539)
                      |+++|++.||.+|-+|+|.+|||+|+.-||+|.+-..+..|.||...    +..||||++.+|++|+||++||-|..+++
T Consensus       244 LlFIDNIfRftQAGsEVSalLGr~PSavGYQpTLatemg~lQERIts----tk~GSITSiQavyvPaDDlTDPapattFa  319 (468)
T COG0055         244 LLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITS----TKKGSITSVQAVYVPADDLTDPAPATTFA  319 (468)
T ss_pred             EEEehhhhHHhhcchHHHHHhccCccccccCchhHHHHHHHHHHHhc----CCCCceEEEEEEEeccccCCCcchhhhhh
Confidence            99999999999999999999999999999999999999999999987    34799999999999999999999999999


Q ss_pred             ccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccc
Q psy13776        428 ITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSR  507 (539)
Q Consensus       428 itDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr  507 (539)
                      ++|..++|||++|+.|                                                   +|||||++.|.||
T Consensus       320 HLDat~vLsR~ia~~G---------------------------------------------------IyPAvDPL~StSr  348 (468)
T COG0055         320 HLDATTVLSRQIAALG---------------------------------------------------IYPAVDPLDSTSR  348 (468)
T ss_pred             hcccceeeeHhHHhcC---------------------------------------------------CCcccCccccccc
Confidence            9999999999999999                                                   7999999999999


Q ss_pred             cCch-hhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        508 VGSA-AQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       508 ~~~~-~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      ..+. ...+.| +.+.++++   .|++||+|+
T Consensus       349 ~l~p~ivGe~Hy~va~~vq~---iLqrYkeLq  377 (468)
T COG0055         349 ALDPKIVGEEHYEVAREVQS---ILQRYKELQ  377 (468)
T ss_pred             ccCcccccHHHHHHHHHHHH---HHHHHHHHH
Confidence            9877 688888 66666666   999999986

>COG1156 NtpB Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

Probab=100.00  E-value=1.1e-63  Score=517.06  Aligned_cols=323  Identities=22%  Similarity=0.342  Sum_probs=298.9

Q ss_pred             hhccccccc--CC--eEEEEEeccccCCCcEEEEcccCCcCCCCCCE-EEEecccccccCCCcccceeE--eeeccCCCC
Q psy13776         94 RSAKMSEAH--GG--GSLTALPVIETQAGDVSAYIPTNVISITDGQI-FLETELFYKVDRGSINCGQLI--IGDRQTGKT  166 (539)
Q Consensus        94 ~~gEVV~f~--~g--~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~-V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~  166 (539)
                      .++|+|+.+  +|  ..|.|+++..   +.+.+++|+.+.|+...+. |+++|+++.+|++++||||++  +|+||||.+
T Consensus        27 ~y~E~v~i~~~~G~~r~gqVle~~~---~~a~vQVfegT~Gl~~~~t~vrF~g~~l~i~vs~dllGRifnG~G~PiDggp  103 (463)
T COG1156          27 SYGELVEIETPDGEVRRGQVLEVRG---DKAVVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPIDGGP  103 (463)
T ss_pred             CcceEEEEECCCCCeeeeeEeeccC---ceEEEEEeecccCCCCCCceEEEeCceEEEeecHHhhhhhhcCCCCcCCCCC
Confidence            788998874  23  6899999999   9999999999999998765 999999999999999999999  999999999


Q ss_pred             Ccccchhc---cccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhcccccccccc
Q psy13776        167 ALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAP  243 (539)
Q Consensus       167 ~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~  243 (539)
                      .+..++..   ..+.++..|+.|.++++|||++||+|+++.||||.+||.++|-..+.|| .+|+.|+..          
T Consensus       104 ~i~~e~~~dI~g~~~NP~aR~yP~efIqTgIsaIDg~NtLvrgQKlPIFSgSGlphN~La-aqIarQA~v----------  172 (463)
T COG1156         104 EIVPEDRLDINGAPINPYARIYPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNELA-AQIARQATV----------  172 (463)
T ss_pred             cCCCCcccccCCCCCCchhhhChhhHhhcCccHHhhhhhhhcccccccccCCCCchHHHH-HHHHHhccc----------
Confidence            88766543   2457888899999999999999999999999999999999999999999 788888764          


Q ss_pred             ccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCCh
Q psy13776        244 YSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAA  323 (539)
Q Consensus       244 ~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a  323 (539)
                                 +                     .+.+++.+||+++|-+..|...|.+.+++.|+++|++++.+.+|||+
T Consensus       173 -----------~---------------------~~~e~favVfaamGit~eea~fF~~~fe~tGal~r~vlflnlA~dp~  220 (463)
T COG1156         173 -----------D---------------------GEEEEFAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPA  220 (463)
T ss_pred             -----------C---------------------CCccceeEEEeecCccHHHHHHHHHHHHhhhhhhhhHhhhhccCCCc
Confidence                       1                     11246789999999999999999999999999999999999999999


Q ss_pred             hhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCc
Q psy13776        324 PLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG  402 (539)
Q Consensus       324 ~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~G  402 (539)
                      .+|.++|.+|+|.||||+. +++|||+|+.|||.||+|+||||.+.+|.|+|+||||++|+.++.+|||||++..  .+|
T Consensus       221 vEri~tPr~aLt~AEylA~e~~~hVLVilTDMTnyceALREIsaareeVPgrRGYPGymYTdLatiYErAg~i~g--~~G  298 (463)
T COG1156         221 VERIITPRMALTVAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIRG--RKG  298 (463)
T ss_pred             eeEecchhHHHHHHHHHhccCCceEEEEEcchhHHHHHHHHHHhhhccCCCcCCCcchHHHHHHHHHHhhceecc--CCC
Confidence            9999999999999999985 6999999999999999999999999999999999999999999999999999875  389


Q ss_pred             cceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccc
Q psy13776        403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVG  482 (539)
Q Consensus       403 SITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~  482 (539)
                      |||.+|+.++|+||++|||||++.+||+|||+|||+|..+|                                       
T Consensus       299 SiTqipIlTMP~DDITHPIPDlTGYITEGQivl~r~l~~~g---------------------------------------  339 (463)
T COG1156         299 SITQIPILTMPGDDITHPIPDLTGYITEGQIVLSRDLHRKG---------------------------------------  339 (463)
T ss_pred             ceEEEEeeecCCCCcCCCCCcccceeccceEEEEhhcccCC---------------------------------------
Confidence            99999999999999999999999999999999999999999                                       


Q ss_pred             cccchhhccccCCCccccccccccccCchhhhH
Q psy13776        483 EDLLGRVVDALGIRPAINVGLSVSRVGSAAQTR  515 (539)
Q Consensus       483 ~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~  515 (539)
                                  +||.|||..|.||.|.....+
T Consensus       340 ------------IyPpi~vlpSLSRL~~~giG~  360 (463)
T COG1156         340 ------------IYPPINVLPSLSRLMKDGIGE  360 (463)
T ss_pred             ------------cCCCccccccHHHHhhcccCC
Confidence                        799999999999999886554

>KOG1353|consensus

Probab=100.00  E-value=4.3e-64  Score=494.06  Aligned_cols=285  Identities=53%  Similarity=0.701  Sum_probs=261.5

Q ss_pred             HHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCCCcEE
Q psy13776         46 ISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVS  121 (539)
Q Consensus        46 i~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~  121 (539)
                      +++++||||.++.+.+++         ++.|++++||||    +||.|.   +++|||+|++|.+||++||+.   ++++
T Consensus         1 ~SsI~EErI~~~~~~a~l---------eEtgrVLsIGdGIArV~GL~nv---QAeEmvEFssGlKgmalnle~---~~vg   65 (340)
T KOG1353|consen    1 MSSIFEERIVGDNTSADL---------EETGRVLSIGDGIARVYGLTNV---QAEEMVEFSSGLKGMALNLEG---ENVG   65 (340)
T ss_pred             CchHHHHHhhccccccch---------hhccceEEEcCceeeeeccccc---chHHHHhhhccccchhccccC---CceE
Confidence            478999999999999999         999999999999    999999   999999999999999999999   9999


Q ss_pred             EEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhccccccccccccccccccccceeeee
Q psy13776        122 AYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDS  199 (539)
Q Consensus       122 l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~~~~~~r~ri~~~epl~TGIraID~  199 (539)
                      +++|++..-+++|+.|++|+....||+|+.|+|||+  +|+|+||++++...+.   ...+|..+  .+|++||+|++|+
T Consensus        66 ~v~~g~d~~ikeg~~VkrTgaIvDVpvg~~LlgrvvdAlGn~idgkG~i~~~~~---~ii~r~Sv--~epmqtg~KAvds  140 (340)
T KOG1353|consen   66 VVVFGEDSLIKEGDTVKRTAAISDVPPLKALLGRVGCALGEPIDGNGKISAKER---RIIPRASV--DEPMQTGLKAVDS  140 (340)
T ss_pred             EEEEcCcceeccCceEEeeeeeeccCchHHHhhhhhhhhcCeecCCCCcccccc---ccccceee--echhhhhhhHhhc
Confidence            999999999999999999999999999999999999  9999999999854321   12334444  9999999999999


Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhccc
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEK  279 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~  279 (539)
                      ++|||||||++|+|+++||||+|++|+|+||+..                    |+                   ..+++
T Consensus       141 lVpigRgqrELiIgdRqTGkTsla~dTI~nqk~~--------------------N~-------------------~~~ek  181 (340)
T KOG1353|consen  141 LVPIGRGQRELIIGDRQTGKTSLAIDTILNQKRG--------------------NE-------------------CLDEK  181 (340)
T ss_pred             eeeeccCceEEEeccccCCceeeeehhhhhhhhh--------------------cc-------------------ccccc
Confidence            9999999999999999999999999999999964                    22                   23477


Q ss_pred             CceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHH
Q psy13776        280 KKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV  359 (539)
Q Consensus       280 ~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~  359 (539)
                      ++++|||++||||.++|++++++|.++++|+||++|++|++                                       
T Consensus       182 kKiyCvyvaigqkrStvaqlv~~l~~~~a~~y~ivv~atas---------------------------------------  222 (340)
T KOG1353|consen  182 KKIYCVYVAIGQKRSTVAQLVQRLEEADAMEYSIVVAATAS---------------------------------------  222 (340)
T ss_pred             ceEEEEEEecccchhHHHHHHHHHHhcCCceEEEEEEeecc---------------------------------------
Confidence            89999999999999999999999999999999999999997                                       


Q ss_pred             HhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhH
Q psy13776        360 AYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETEL  439 (539)
Q Consensus       360 A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~L  439 (539)
                                                                           ++||+++|||+|++|| ||||||+.+|
T Consensus       223 -----------------------------------------------------q~gdvsayiptnvisi-dgqi~l~t~l  248 (340)
T KOG1353|consen  223 -----------------------------------------------------QAGDVSAYIPTNVISI-DGQIFLETEL  248 (340)
T ss_pred             -----------------------------------------------------cccceeeecccceeee-cchhHHHHHH
Confidence                                                                 8999999999999999 9999999999


Q ss_pred             HhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHHHH
Q psy13776        440 FYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ  519 (539)
Q Consensus       440 a~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~~~  519 (539)
                      |++|                                                   ++|||||++||||||+++|+++||+
T Consensus       249 fy~g---------------------------------------------------irpainvg~svsrvgsaaq~kamkq  277 (340)
T KOG1353|consen  249 FYKG---------------------------------------------------IRPAINVGLSVSRVGSAAQTKAMKQ  277 (340)
T ss_pred             HHhc---------------------------------------------------cchhheeeeEeeeccchHHHHHHHH
Confidence            9999                                                   7999999999999999999999999


Q ss_pred             hhhhhhHHHHHHHhhh
Q psy13776        520 TGKIRSWNGWLSLLKQ  535 (539)
Q Consensus       520 ~~~~r~~~~~~~~~~~  535 (539)
                      +++.-+  --|+.|.|
T Consensus       278 vag~~k--lelaq~re  291 (340)
T KOG1353|consen  278 VAGSLK--LELAQYRE  291 (340)
T ss_pred             Hhhhhh--hHHHHHHH
Confidence            887644  24555544

>PRK12678 transcription termination factor Rho; Provisional

Probab=100.00  E-value=3.3e-61  Score=520.18  Aligned_cols=287  Identities=20%  Similarity=0.259  Sum_probs=241.9

Q ss_pred             CcCCCCCCEEEEecccccccCCC--------cccceeEeeeccCCCCCc------ccchhcccccccccccccccccccc
Q psy13776        128 VISITDGQIFLETELFYKVDRGS--------INCGQLIIGDRQTGKTAL------AIDTIINQKRKKRRRLLKYNLLSAG  193 (539)
Q Consensus       128 ~~gi~~G~~V~~tg~~~~VpVG~--------~LLGRVvlG~PiDgk~~i------~~~~~~~~~~~~r~ri~~~epl~TG  193 (539)
                      ..+|+.||.|...-+..+  -|+        .-|-||   +.++|..+-      .++.+.+..|+.|.++ .++|+.||
T Consensus       330 r~~Lr~Gd~v~G~vr~p~--~~e~~~~r~k~~~l~~v---~~vNg~~~e~~~~r~~F~~Ltp~~P~~R~~l-e~e~~~~g  403 (672)
T PRK12678        330 KNGLRKGDAVTGAVRAPR--EGEQGNQRQKFNPLVRL---DSVNGMSPEEAKKRPEFGKLTPLYPNERLRL-ETEPKKLT  403 (672)
T ss_pred             HcCCCCCCEEEEeecCCC--CCccccccceeeeeeeE---eeeCCCChHHhccCCCcccCCCCChHHhccc-ccCccccc
Confidence            568899999986433322  233        112232   445554332      2333444445666666 24999999


Q ss_pred             ceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHH
Q psy13776        194 IKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVA  273 (539)
Q Consensus       194 IraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~  273 (539)
                      +|+||+|+|||||||+||||++++|||+|+ .+|+||...                                        
T Consensus       404 iRvIDll~PIGkGQR~LIvgpp~aGKTtLL-~~IAn~i~~----------------------------------------  442 (672)
T PRK12678        404 TRVIDLIMPIGKGQRGLIVSPPKAGKTTIL-QNIANAITT----------------------------------------  442 (672)
T ss_pred             ceeeeeecccccCCEeEEeCCCCCCHHHHH-HHHHHHHhh----------------------------------------
Confidence            999999999999999999999999999998 569988753                                        


Q ss_pred             hhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecC
Q psy13776        274 YRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  353 (539)
Q Consensus       274 ~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~Ds  353 (539)
                          +++++.|||++||||++||.+|.+.++.       .||++|+|+||.+|++++|+||++||||+++|+||||||||
T Consensus       443 ----n~~~~~~ivvLIgERpeEVtdm~rsVkg-------eVVasT~D~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDS  511 (672)
T PRK12678        443 ----NNPECHLMVVLVDERPEEVTDMQRSVKG-------EVIASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDS  511 (672)
T ss_pred             ----cCCCeEEEEEEEeCchhhHHHHHHhccc-------eEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeC
Confidence                2345789999999999999998544321       39999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhHHhhhccCC-----CCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCcccccccc
Q psy13776        354 LSKQAVAYRQMSLLLRR-----PPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNVIS  427 (539)
Q Consensus       354 lTr~A~A~Reisl~lge-----pP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~~s  427 (539)
                      |||||+||||+++..||     ||+..+|||++||.++|++|+         +||||+|+||+++ +++|++||++++++
T Consensus       512 lTR~ArAyrev~~~sGr~lSGG~d~~a~ypP~~F~~~AR~iE~---------gGSLTii~TvLVETGS~mDd~Ifeefkg  582 (672)
T PRK12678        512 ITRLGRAYNLAAPASGRILSGGVDSTALYPPKRFFGAARNIEN---------GGSLTIIATALVETGSKMDEVIFEEFKG  582 (672)
T ss_pred             chHHHHHHHHhhcCCCCccCCCCchhhccCccHHHHHHHhhcc---------CccceeeEEEEeccCCccCcchHHHHhh
Confidence            99999999999999999     788999999999999999992         7999999999999 67999999999999


Q ss_pred             ccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccc
Q psy13776        428 ITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSR  507 (539)
Q Consensus       428 itDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr  507 (539)
                      ++||||+|||+|+++|                                                   +||||||+.|+||
T Consensus       583 tgn~elvLsR~LAerr---------------------------------------------------ifPAIDv~~S~SR  611 (672)
T PRK12678        583 TGNMELKLDRKLADKR---------------------------------------------------IFPAVDVNASGTR  611 (672)
T ss_pred             ccCceeeECHHHHhCC---------------------------------------------------CCCccCCCcCccc
Confidence            9999999999999999                                                   7999999999999


Q ss_pred             cCchhhhHHH-HHhhhhhhHHHHHHHhhh
Q psy13776        508 VGSAAQTRAM-KQTGKIRSWNGWLSLLKQ  535 (539)
Q Consensus       508 ~~~~~~~~~~-~~~~~~r~~~~~~~~~~~  535 (539)
                      ++..+.++.+ +.+.++|+   +|+.|..
T Consensus       612 ~ee~l~~~~e~~~~~~lRr---~l~~~~~  637 (672)
T PRK12678        612 KEELLLSPDELAIVHKLRR---VLSGLDS  637 (672)
T ss_pred             cchhhCCHHHHHHHHHHHH---HHHcCCH
Confidence            9999999998 88999999   5555543

>KOG1351|consensus

Probab=100.00  E-value=7.3e-61  Score=479.89  Aligned_cols=343  Identities=22%  Similarity=0.314  Sum_probs=309.7

Q ss_pred             eEEccchhhhhcccccc--cCC--eEEEEEeccccCCCcEEEEcccCCcCCCC-CCEEEEecccccccCCCcccceeE--
Q psy13776         85 FYLHSRLLERSAKMSEA--HGG--GSLTALPVIETQAGDVSAYIPTNVISITD-GQIFLETELFYKVDRGSINCGQLI--  157 (539)
Q Consensus        85 ~gL~~~~~~~~gEVV~f--~~g--~~G~vl~l~~~~~d~v~l~~~g~~~gi~~-G~~V~~tg~~~~VpVG~~LLGRVv--  157 (539)
                      .-|.+..-.+++|+|.+  .+|  ..|.||.+..   +++.+++|+.+.|+-. -+.|.+||..++.||++++||||+  
T Consensus        35 vild~vkfp~y~eiv~ltlpdgt~r~gqvlev~g---~kavvqvfegtsgid~k~t~~eftg~~lr~pvsedmlgrifng  111 (489)
T KOG1351|consen   35 VILDKVKFPKYAEIVNLTLPDGSVRSGQVLEVSG---EKAVVQVFEGTSGIDAKKTTVEFTGEILRTPVSEDMLGRIFNG  111 (489)
T ss_pred             EEEecccccchhhheEEecCCCCeecceEEEecC---CeeEEEEeccccccccccceEEEecccccccccHHHhhhhhcC
Confidence            34444433489999887  444  5799999888   9999999999999984 689999999999999999999999  


Q ss_pred             eeeccCCCCCcccchhc---cccccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhc
Q psy13776        158 IGDRQTGKTALAIDTII---NQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIY  234 (539)
Q Consensus       158 lG~PiDgk~~i~~~~~~---~~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~  234 (539)
                      .|+|||.++++-.+.++   .++.+++.|+.|.|.++|||.+||.|..|.|||+++||..+|.....+| .+|++|+...
T Consensus       112 sgkpid~gp~vl~edyldi~gqpinp~~riypeemiqtgis~idvmnsiargqkipifsaaglphneia-aqicrqaglv  190 (489)
T KOG1351|consen  112 SGKPIDKGPPVLAEDYLDINGQPINPYARIYPEEMIQTGISAIDVMNSIARGQKIPIFSAAGLPHNEIA-AQICRQAGLV  190 (489)
T ss_pred             CCCccCCCCCcChHHhhccCCCcCCcccccChHHHHHhCchHHhhhhHHhccCccceeecCCCChhHHH-HHHHHhcCcc
Confidence            99999999988777653   3578899999999999999999999999999999999999999999999 7899998642


Q ss_pred             cccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEE
Q psy13776        235 AAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTII  314 (539)
Q Consensus       235 ~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvv  314 (539)
                      +        ..           ++++           .   ..+..++.+||+++|-.-++.+.|.+.++++|.|+++++
T Consensus       191 k--------~~-----------~k~~-----------~---d~~~dnfaivfaamgvnmetarffk~dfeengsm~~v~l  237 (489)
T KOG1351|consen  191 K--------RP-----------EKDV-----------H---DGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCL  237 (489)
T ss_pred             c--------cC-----------Cccc-----------c---cccccceeeeehhhcccHHHHHHHHhhHHhcCCccceEE
Confidence            1        11           1111           1   112346899999999999999999999999999999999


Q ss_pred             EEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhh
Q psy13776        315 VSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSA  393 (539)
Q Consensus       315 V~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag  393 (539)
                      +.+-++||..+|.+.|..|+|.|||+++| +||||+|+.|++.||+|+||+|.+..|.|||+||||+||..++-+|||||
T Consensus       238 flnlandptieriitprlalt~aeflayq~ekhvlviltdmssya~alrevsaareevpgrrg~pgymytdlatiyerag  317 (489)
T KOG1351|consen  238 FLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLATIYERAG  317 (489)
T ss_pred             EEecCCCCchhhhcchhhhHhHHHHHHHhhcCeEEEEEeccHHHHHHHHHHHHhhhhCCCcCCCCceehhhHHHHHHHhc
Confidence            99999999999999999999999999986 99999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeec
Q psy13776        394 KMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRT  473 (539)
Q Consensus       394 ~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t  473 (539)
                      ++..+  +||||.+|+.++|.||++|||||.+.+||+||||.||+|+++.                              
T Consensus       318 rvegr--~gsitqipiltmpnddithpipdltgyitegqiyvdrqlhnr~------------------------------  365 (489)
T KOG1351|consen  318 RVEGR--NGSITQIPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQ------------------------------  365 (489)
T ss_pred             ccccC--CCceeeeeeEecCCcccCCCCCcccceeecceEEEehhhhccc------------------------------
Confidence            99864  7999999999999999999999999999999999999999999                              


Q ss_pred             cceeecccccccchhhccccCCCccccccccccccCchhhhHHH
Q psy13776        474 GAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM  517 (539)
Q Consensus       474 ~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~  517 (539)
                                           +||.|||+-|.||+|.++..+.|
T Consensus       366 ---------------------iyppinvlpslsrlmksaigegm  388 (489)
T KOG1351|consen  366 ---------------------IYPPINVLPSLSRLMKSAIGEGM  388 (489)
T ss_pred             ---------------------CCCCcccchhHHHHHHHHhcCCc
Confidence                                 79999999999999999887776

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=100.00  E-value=1.4e-59  Score=492.62  Aligned_cols=296  Identities=19%  Similarity=0.235  Sum_probs=252.9

Q ss_pred             CcCCCCCCEEEEecccccccCCCc--ccceeE--eeeccCC-CCCcccchhccccccccccccccccccccceeeeeeee
Q psy13776        128 VISITDGQIFLETELFYKVDRGSI--NCGQLI--IGDRQTG-KTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVP  202 (539)
Q Consensus       128 ~~gi~~G~~V~~tg~~~~VpVG~~--LLGRVv--lG~PiDg-k~~i~~~~~~~~~~~~r~ri~~~epl~TGIraID~l~p  202 (539)
                      ..+++.||.|...-++.+  -|+.  -|-+|-  .|.+.+. +....++.+.+..|..|.++....|+.||+|+||+|+|
T Consensus        88 ~~~lr~gd~v~g~~r~~~--~~e~~~~l~~v~~vng~~~~~~~~r~~f~~l~p~~p~~R~~le~~~~~~~~~rvID~l~P  165 (416)
T PRK09376         88 RFNLRTGDTVEGKIRPPK--EGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETGNPEDLSTRIIDLIAP  165 (416)
T ss_pred             hcCCCCCCEEEEEeeCCC--CCCCccceEEEeeeCCCCHHHhcCCCCcccCCCCChhhcccccCCCCcccceeeeeeecc
Confidence            568999999988766532  2333  233443  4443322 22233444445456667777322389999999999999


Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCce
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKL  282 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~  282 (539)
                      ||||||++||||+|+|||||+ .+|.|+...                                            ++.++
T Consensus       166 IGkGQR~lIvgppGvGKTTLa-K~Ian~I~~--------------------------------------------nhFDv  200 (416)
T PRK09376        166 IGKGQRGLIVAPPKAGKTVLL-QNIANSITT--------------------------------------------NHPEV  200 (416)
T ss_pred             cccCceEEEeCCCCCChhHHH-HHHHHHHHh--------------------------------------------hcCCe
Confidence            999999999999999999998 567776643                                            12357


Q ss_pred             EEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhH
Q psy13776        283 YCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR  362 (539)
Q Consensus       283 ~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~R  362 (539)
                      .|+|++||||++||.++.+.+..       +||++|+|+||..|++++|+++++||||+++|+||||++||+||||+|||
T Consensus       201 ~~~VvLIgER~~EVtdiqrsIlg-------~vv~st~d~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~arAqr  273 (416)
T PRK09376        201 HLIVLLIDERPEEVTDMQRSVKG-------EVVASTFDEPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYN  273 (416)
T ss_pred             EEEEEEeCCchhHHHHHHHHhcC-------cEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHHHHHHHH
Confidence            89999999999999999999973       79999999999999999999999999999999999999999999999999


Q ss_pred             HhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCccccccccccceeEEeehhHHh
Q psy13776        363 QMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNVISITDGQIFLETELFY  441 (539)
Q Consensus       363 eisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~~sitDGqIvLsr~La~  441 (539)
                      |+++++||||+ .|||+++|+..+||+|||++..   ++||||+|+|++++ ++||+|||++++++++||||+|||+||+
T Consensus       274 ev~~~sG~~~s-gG~~~~~~~~~~r~f~~Arn~e---~~GSlT~i~T~LvetGs~mdd~I~ee~kg~~n~~ivLdR~lA~  349 (416)
T PRK09376        274 TVVPSSGKVLS-GGVDANALHRPKRFFGAARNIE---EGGSLTIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLAE  349 (416)
T ss_pred             hhhhccCCCCC-CCCChhHhhhhHHHHHhhcCCC---CCcceEEEEEEEecCCCCCCccHHHHHhhhcCceEeECHHHHh
Confidence            99999999999 9999999999999999999864   38999999999999 7899999999999999999999999999


Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHh
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQT  520 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~  520 (539)
                      +|                                                   +|||||+..|.||++....++.+ +.+
T Consensus       350 ~r---------------------------------------------------~fPAIDi~~S~sR~~~~l~~~~~~~~~  378 (416)
T PRK09376        350 KR---------------------------------------------------IFPAIDINRSGTRKEELLLSPEELQKV  378 (416)
T ss_pred             cC---------------------------------------------------CCCccCccccccccccccCCHHHHHHH
Confidence            99                                                   79999999999999999999999 889


Q ss_pred             hhhhhHHHHHHHhhh
Q psy13776        521 GKIRSWNGWLSLLKQ  535 (539)
Q Consensus       521 ~~~r~~~~~~~~~~~  535 (539)
                      ..+|+   +|+.|++
T Consensus       379 ~~lR~---~l~~~~~  390 (416)
T PRK09376        379 WILRK---ILSPMDE  390 (416)
T ss_pred             HHHHH---HHHccCc
Confidence            99999   7777765

>KOG1350|consensus

Probab=100.00  E-value=3e-56  Score=450.32  Aligned_cols=316  Identities=21%  Similarity=0.309  Sum_probs=287.2

Q ss_pred             CcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc--ccccccccc-cccccccc
Q psy13776        118 GDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN--QKRKKRRRL-LKYNLLSA  192 (539)
Q Consensus       118 d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~--~~~~~r~ri-~~~epl~T  192 (539)
                      +.|.++.++.++|+..|+.|..||.+.+||||++.|||++  +|+|+|..+|+....+.+  ..++..... ...|.|.|
T Consensus        98 n~VR~iAMdgTEGLvRG~~VlDtG~Pi~ipVG~~tLGRI~NViGePiDerGpi~s~~~~~IHaeaP~f~e~s~~~eIl~T  177 (521)
T KOG1350|consen   98 NTVRTIAMDGTEGLVRGQKVLDTGYPISIPVGPETLGRIMNVIGEPIDERGPIKSKKYSPIHAEAPEFVEMSVEQEILVT  177 (521)
T ss_pred             CeEEEEEecCchhhhcCcccccCCCceeeecCHHHHhhHHHhcCCcccccCCcccccccccccCChhHhhhcccHHHHhh
Confidence            8899999999999999999999999999999999999999  999999999998765433  222222222 34789999


Q ss_pred             cceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHH
Q psy13776        193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV  272 (539)
Q Consensus       193 GIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~  272 (539)
                      |||++|.|.|..||.++++||++|+|||.|.++.|.|-+.+                                       
T Consensus       178 GIKVvDLLAPYakGGKIGLFGGAGVGKTVlImELINNiAKa---------------------------------------  218 (521)
T KOG1350|consen  178 GIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNIAKA---------------------------------------  218 (521)
T ss_pred             cceeeeeecccccCCeeeeeccCCccceeeHHHHHHHHHHh---------------------------------------
Confidence            99999999999999999999999999999998766665443                                       


Q ss_pred             HhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCC------ceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CC
Q psy13776        273 AYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM------GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GK  345 (539)
Q Consensus       273 ~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~------~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-Gk  345 (539)
                             ++-|.||+.+|||.||..++++++.+.|.+      ++..+|...+++||..|.+.+.+++|+||||||+ |+
T Consensus       219 -------HGGySVF~GvGERTREGNDLY~EM~E~gVI~l~~~~SKvaLV~GQMNePPGARaRV~LTgLTvAEYFRD~egQ  291 (521)
T KOG1350|consen  219 -------HGGYSVFAGVGERTREGNDLYHEMIESGVINLEGETSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQ  291 (521)
T ss_pred             -------cCCeEEeeccccccccccHHHHHHHhcCeeeccCCcceEEEEeeccCCCCCceeeeeeecccHHHHhhccccc
Confidence                   245899999999999999999999987765      7889999999999999999999999999999996 99


Q ss_pred             cEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCcccccc
Q psy13776        346 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNV  425 (539)
Q Consensus       346 dVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~  425 (539)
                      |||+++|++.||.+|..|+|.+|||+|+.-||+|.+-..+..+.||....    .+||||.+..|++|+||++||-|..+
T Consensus       292 DVLLFIDNIFRFtQAGSEVSALLGRiPSAVGYQPTLaTdMG~mQERITtT----kkGSiTSvQAvYVPADDLtDPaPatt  367 (521)
T KOG1350|consen  292 DVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT----KKGSITSVQAVYVPADDLTDPAPATT  367 (521)
T ss_pred             eEEEeehhhhhhhccchHHHHHhccCccccccCcccccchhhhhHhhhcc----ccCceeEEEEEEeehhccCCCCccce
Confidence            99999999999999999999999999999999999999999999999874    47999999999999999999999999


Q ss_pred             ccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccc
Q psy13776        426 ISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSV  505 (539)
Q Consensus       426 ~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~  505 (539)
                      ++++|..-+|||.+++.|                                                   +|||+|++.|.
T Consensus       368 FaHLDAttVLSR~iaelg---------------------------------------------------IYPAVDPLDSt  396 (521)
T KOG1350|consen  368 FAHLDATTVLSRGIAELG---------------------------------------------------IYPAVDPLDST  396 (521)
T ss_pred             eeccchhhhhhhhhHhcC---------------------------------------------------CccccCCcccc
Confidence            999999999999999999                                                   79999999999


Q ss_pred             cccCch-hhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        506 SRVGSA-AQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       506 sr~~~~-~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      ||++.. +..++| ..+.++.+   .|+.||.|+
T Consensus       397 Srimdp~ivG~eHY~vA~~Vqk---~LQ~YKsLQ  427 (521)
T KOG1350|consen  397 SRIMDPNIVGEEHYNVARGVQK---TLQDYKSLQ  427 (521)
T ss_pred             ccccCccccchHHHHHHHHHHH---HHHHHHHHH
Confidence            999988 688888 66666666   999999886

>TIGR00767 rho transcription termination factor Rho

Probab=100.00  E-value=3.1e-54  Score=453.85  Aligned_cols=239  Identities=18%  Similarity=0.254  Sum_probs=219.8

Q ss_pred             cccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhh
Q psy13776        187 YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  266 (539)
Q Consensus       187 ~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~  266 (539)
                      +.|=..|+|+||.++|||+|||++|+|++|+|||||+ ..|.|....                                 
T Consensus       149 ~~~~~~~~R~id~~~pig~Gq~~~IvG~~g~GKTtL~-~~i~~~I~~---------------------------------  194 (415)
T TIGR00767       149 TSTEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVLL-QKIAQAITR---------------------------------  194 (415)
T ss_pred             cCccccceeeeeeEEEeCCCCEEEEECCCCCChhHHH-HHHHHhhcc---------------------------------
Confidence            4566679999999999999999999999999999998 566655432                                 


Q ss_pred             hhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCc
Q psy13776        267 LSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKH  346 (539)
Q Consensus       267 ~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~Gkd  346 (539)
                                 ++.+..|++++||||++||.+|++.+..       .||++|+|+||..|..+++.++++||||+++|+|
T Consensus       195 -----------nhfdv~v~VlLIgER~~EVtDLqrsIlg-------~Vvast~d~p~~~~~~va~~v~e~Ae~~~~~Gkd  256 (415)
T TIGR00767       195 -----------NHPEVELIVLLIDERPEEVTDMQRSVKG-------EVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKD  256 (415)
T ss_pred             -----------cCCceEEEEEEcCCCCccHHHHHHHhhc-------eEEEecCCCChHHHHHHHHHHHHHHHHHHHcCCC
Confidence                       1234688999999999999999999863       8999999999999999999999999999999999


Q ss_pred             EEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCcccccc
Q psy13776        347 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNV  425 (539)
Q Consensus       347 VLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~  425 (539)
                      |+|++|++||||+||||+++++||||+ +||||++|+.++||+|||++..   ++||||+|+||+++ ++||+|||++++
T Consensus       257 VVLlIDEitR~arAqrei~~~~G~~~s-~G~~~~~~~~~~~~~~~a~~~~---~~GSiT~~~TvLvetg~~mdd~i~~e~  332 (415)
T TIGR00767       257 VVILLDSITRLARAYNTVTPASGKVLS-GGVDANALHRPKRFFGAARNIE---EGGSLTIIATALIDTGSRMDEVIFEEF  332 (415)
T ss_pred             eEEEEEChhHHHHHHHHhHhhcCCCCC-CCcChhhhcccHHHHhhcCCCC---CCcchhheEEEEeccCCCCCcchHHHh
Confidence            999999999999999999999999999 9999999999999999999864   48999999999999 789999999999


Q ss_pred             ccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccc
Q psy13776        426 ISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSV  505 (539)
Q Consensus       426 ~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~  505 (539)
                      ++++||||+|||+||++|                                                   +|||||+..|.
T Consensus       333 kg~~~~~ivL~r~la~~~---------------------------------------------------~fPAidi~~S~  361 (415)
T TIGR00767       333 KGTGNMELHLDRKLADRR---------------------------------------------------IFPAIDIKKSG  361 (415)
T ss_pred             ccccCCeEEECHHHHhCC---------------------------------------------------CCCCcCccccc
Confidence            999999999999999999                                                   79999999999


Q ss_pred             cccCchhhhHHH-HHhhhhhhHHHHHHHhhh
Q psy13776        506 SRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQ  535 (539)
Q Consensus       506 sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~  535 (539)
                      ||+++...++.+ +.+..+|+   +|+.|++
T Consensus       362 sR~~~~l~~~~~~~~~~~~r~---~l~~~~~  389 (415)
T TIGR00767       362 TRKEELLLTPEELQKIWVLRK---IISPMDS  389 (415)
T ss_pred             ccchhhcCCHHHHHHHHHHHH---HHHcCCc
Confidence            999999999998 88999999   6776654

Members of this family differ in the specificity of RNA binding.

>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

Probab=100.00  E-value=4e-52  Score=441.38  Aligned_cols=341  Identities=20%  Similarity=0.251  Sum_probs=282.9

Q ss_pred             ccccCceeeecCCeeEEccchhhhhcccccc-cCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCC
Q psy13776         71 LRRPPGREAYPGDVFYLHSRLLERSAKMSEA-HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRG  149 (539)
Q Consensus        71 ~~e~~G~v~~IGDg~gL~~~~~~~~gEVV~f-~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG  149 (539)
                      +.+..|+++- .  +|+.++   ...|+|.. +.+..|.++.++.   |++.+++|++|.|+++|++|.+||++++|..|
T Consensus         5 i~~isGp~V~-a--~gm~~~---~my~~v~Vg~~~L~gEiI~i~g---d~a~iQVyE~T~Gi~~Ge~V~~Tg~pLsvELG   75 (588)
T COG1155           5 IIRISGPVVV-A--EGMEGA---KMYDVVKVGEMGLIGEIIRIEG---NRATIQVYEDTAGIRPGEKVENTGRPLSVELG   75 (588)
T ss_pred             EEEEECCEEE-E--ecCcCC---ceEEEEEEcCCceeEEEEEEeC---CeEEEEEEeecCCCCCCCeeecCCCceEEEeC
Confidence            4455665542 2  334444   55666666 3478899999888   99999999999999999999999999999999


Q ss_pred             CcccceeE--eeeccCCC--------------CCcccch---------------------------hccc---cc-----
Q psy13776        150 SINCGQLI--IGDRQTGK--------------TALAIDT---------------------------IINQ---KR-----  178 (539)
Q Consensus       150 ~~LLGRVv--lG~PiDgk--------------~~i~~~~---------------------------~~~~---~~-----  178 (539)
                      +.||+.++  +.||++-.              +++.-+.                           .++.   +|     
T Consensus        76 PGll~~IyDGiQrPL~~i~e~sg~Fi~RGv~~p~Ldr~~kW~F~P~~~~Gd~V~~GdvlGtV~Et~~i~~imvpp~~~~~  155 (588)
T COG1155          76 PGLLKSIYDGIQRPLDVIKETSGDFIARGLNPPALDRKKKWDFVPAVKKGDTVYPGDVLGTVQETSLITHRIMVPPGVSG  155 (588)
T ss_pred             ccHHhhhhhhccChHHHHHHHhhhHhhcCCCCCCCCcccccccccccccCCEeccCceEEEeccCCceEEEEeCCCCCce
Confidence            99999999  98987431              0010000                           0000   00     


Q ss_pred             -----------------------------------------cccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        179 -----------------------------------------KKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       179 -----------------------------------------~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                                                               +..+++.|++||.||+|+||+|+|+.||...+|.|+.|+
T Consensus       156 ~v~~i~~~G~ytv~d~ia~v~~~~g~~~~~m~~~WPVR~~rp~~eKl~p~~Pl~TGqRviDt~FPvaKGGTaaiPGpFGs  235 (588)
T COG1155         156 KVTWIAEEGEYTVEDVIATVSTEGGEVDVQMMTTWPVRKARPVKRKLPPEIPLVTGQRVIDTLFPVAKGGTAAVPGPFGS  235 (588)
T ss_pred             EEEEEecCCCceeeEEEEEEecCCCeEEEEEEEeccccCCccccccCCCCCcccccceeehhhcccccCccccccCCCCC
Confidence                                                     001223569999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||.+- .                                        .++|++++        .++||++||||+.|++
T Consensus       236 GKTV~q-h----------------------------------------~laK~sda--------diVVyigCGERGNEmt  266 (588)
T COG1155         236 GKTVSQ-H----------------------------------------TLSKLADG--------DIVIYVGCGERGNEMT  266 (588)
T ss_pred             CcEehh-h----------------------------------------hhhhhccC--------CEEEEEecCCccchHH
Confidence            999984 1                                        12333333        3899999999999999


Q ss_pred             HHHHHHhc-------CCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCC
Q psy13776        298 QIVKRLTD-------SGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRR  370 (539)
Q Consensus       298 e~~~~l~~-------~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lge  370 (539)
                      |++.++.+       ...|+||++|++||++|.+.|+.+.|+|.|+||||||+|+||+++.||.+|||+|.||||..|+|
T Consensus       267 evL~eFPeL~Dp~tg~~lm~RT~liaNTSnMPVAAREasIYtGiTiaEY~RDmGy~v~lmADSTSRWAEAlREisgRleE  346 (588)
T COG1155         267 EVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIAEYYRDMGYDVALMADSTSRWAEALREISGRLEE  346 (588)
T ss_pred             HHHHhCccccCCCCCCcccceeeEeecCccchHHHhhhhhhhhhhHHHHHHhhhhhhHHhhchHHHHHHHHHHHhccccc
Confidence            99999754       56799999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCchhhchhHHHHhhhcccCCCC-C--ccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCC
Q psy13776        371 PPGREAYPGDVFYLHSRLLERSAKMSEAHG-G--GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALN  447 (539)
Q Consensus       371 pP~r~gyPg~vf~~~srLlERag~~~~~~g-~--GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~  447 (539)
                      +|+.+|||.++-+.++++|||||+.....+ .  ||+|.++.|..++||+|+|+..|+..+.--.+-||++||++.    
T Consensus       347 mPgeegyPaYL~srlA~fYERaG~v~~~~~~~r~GsvtV~gaVSPpGGdfSEPVtq~Tlriv~vFw~Ld~~la~~r----  422 (588)
T COG1155         347 MPGEEGYPAYLGSRLAEFYERAGRVRLVSPEERFGSITVIGAVSPPGGDFSEPVTQNTLRVVRVFWALDAALANRR----  422 (588)
T ss_pred             CCcccccchHHHHHHHHHHHhcCeeeecCCCcceEEEEEecCCCCCCCCcCcccchheeeeeeeecccchhhhhcc----
Confidence            999999999999999999999999886422 3  999999999999999999999999999999999999999999    


Q ss_pred             CCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHHHHh
Q psy13776        448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQT  520 (539)
Q Consensus       448 l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~~~~  520 (539)
                                                                     ||||||.+.|.|..-+....--.+.+
T Consensus       423 -----------------------------------------------hfPaInwl~syS~Y~~~~~~~~~~~v  448 (588)
T COG1155         423 -----------------------------------------------HFPSINWLNSYSLYTEDLRSWYDENV  448 (588)
T ss_pred             -----------------------------------------------cCcccChHHHHHHHHHHHHHHhhccc
Confidence                                                           69999999999987765543333333

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=100.00  E-value=2.5e-50  Score=403.53  Aligned_cols=233  Identities=20%  Similarity=0.279  Sum_probs=214.0

Q ss_pred             ceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHH
Q psy13776        194 IKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVA  273 (539)
Q Consensus       194 IraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~  273 (539)
                      .|+||+|+|||+|||++|||++|+|||||+ .+|+|+...                                        
T Consensus         4 ~~~id~~~~i~~Gqr~~I~G~~G~GKTTLl-r~I~n~l~~----------------------------------------   42 (249)
T cd01128           4 TRVVDLFAPIGKGQRGLIVAPPKAGKTTLL-QSIANAITK----------------------------------------   42 (249)
T ss_pred             hhheeeecccCCCCEEEEECCCCCCHHHHH-HHHHhcccc----------------------------------------
Confidence            599999999999999999999999999998 677766532                                        


Q ss_pred             hhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecC
Q psy13776        274 YRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  353 (539)
Q Consensus       274 ~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~Ds  353 (539)
                          ++.+++|+++.||+|++++.+|++.+       ++++|++++++|+..|+.+++.++++||||+++|++|++++|+
T Consensus        43 ----~~fdv~~~v~vI~er~~ev~el~~~I-------~~~~v~~~~~~~~~~~~~~~~~~~~~a~~~~~~G~~vll~iDe  111 (249)
T cd01128          43 ----NHPEVYLIVLLIDERPEEVTDMQRSV-------KGEVIASTFDEPPERHVQVAEMVLEKAKRLVEHGKDVVILLDS  111 (249)
T ss_pred             ----ccCCeEEEEEEccCCCccHHHHHHHh-------ccEEEEecCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEC
Confidence                01246778888999999999999998       6799999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCcccccccccccee
Q psy13776        354 LSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNVISITDGQ  432 (539)
Q Consensus       354 lTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~~sitDGq  432 (539)
                      +||||+||||+++..|+|| ..||||++|+.+++++|||+.+.   ++||||+|||++++ +++++|||++++++++|||
T Consensus       112 i~r~a~a~~ev~~~~G~~~-sgG~~~~~~~~~~q~~~~Ar~~~---~~gsIt~l~T~~~d~~~~~~~~i~~~~~~~~~~~  187 (249)
T cd01128         112 ITRLARAYNTVVPPSGKIL-SGGVDANALHKPKRFFGAARNIE---EGGSLTIIATALVDTGSRMDDVIFEEFKGTGNME  187 (249)
T ss_pred             HHHhhhhhhhccccCCCCC-CCCcChhhhhhhHHHHHHhcCCC---CCCceEEeeeheecCCCcccchHHHHHhcCCCcE
Confidence            9999999999999999999 69999999999999999999853   37999999999999 6788889999999999999


Q ss_pred             EEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh
Q psy13776        433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA  512 (539)
Q Consensus       433 IvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~  512 (539)
                      |+|||+|+..|                                                   +||||||..|.||+++..
T Consensus       188 ivls~~la~~~---------------------------------------------------~~paI~vl~s~sr~~~ll  216 (249)
T cd01128         188 LVLDRRLAERR---------------------------------------------------IFPAIDILKSGTRKEELL  216 (249)
T ss_pred             EEEchHHhhCC---------------------------------------------------CCCeEEEcCCCCccchhh
Confidence            99999999999                                                   799999999999999998


Q ss_pred             hhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        513 QTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       513 ~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                      +.+.+ +.+..+|+   +|+.|++.
T Consensus       217 ~~~~~~~~~~~~r~---~~~~~~~~  238 (249)
T cd01128         217 LDPEELQRMWLLRR---VLSDMDPI  238 (249)
T ss_pred             CCHHHHHHHHHHHH---HHHccChH
Confidence            77866 88888888   89999875

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>KOG1352|consensus

Probab=100.00  E-value=2.4e-51  Score=422.76  Aligned_cols=318  Identities=22%  Similarity=0.274  Sum_probs=274.1

Q ss_pred             hhcccccc-cCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCc--
Q psy13776         94 RSAKMSEA-HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTAL--  168 (539)
Q Consensus        94 ~~gEVV~f-~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i--  168 (539)
                      ...|+|.. +++..|.++.|+.   |.+.+++++++.|+..||+|.+||++++|..|++++|.++  +.+|+..-..+  
T Consensus        41 aMYELVrVGh~~LvGEiIrleg---D~aTIQVYEeTsG~tVgDpvlrTgkPLsvELGPGimgsIfDGIQRPLk~I~~~s~  117 (618)
T KOG1352|consen   41 AMYELVRVGHDELVGEIIRLEG---DMATIQVYEETSGLTVGDPVLRTGKPLSVELGPGIMGSIFDGIQRPLKDISELSQ  117 (618)
T ss_pred             HHHHHHHcchHhhhhheeEecC---ceeEEEEEeccCCcccCCchhhcCCcceEeeCcchhhhhhhhhhhhHHHHHHhcC
Confidence            56677766 4567889999999   9999999999999999999999999999999999999999  88887321110  


Q ss_pred             -------------c-------------------c---------chhcc----ccccc-----------------------
Q psy13776        169 -------------A-------------------I---------DTIIN----QKRKK-----------------------  180 (539)
Q Consensus       169 -------------~-------------------~---------~~~~~----~~~~~-----------------------  180 (539)
                                   .                   +         +.+++    .+|..                       
T Consensus       118 siyiPkGv~~~aL~r~~~weF~p~k~~vg~hitGGDiyg~V~ENsli~hki~lpPr~~Gtvt~iAp~G~Y~~~d~vlE~E  197 (618)
T KOG1352|consen  118 SIYIPKGVNTPALDREIKWEFTPGKLRVGDHITGGDIYGSVFENSLIKHKILLPPRARGTVTYIAPAGNYTLDDVVLELE  197 (618)
T ss_pred             cEeccCCCCccccCccceeecccceeeecceeecCceEEEeeccchhhceeecCCccCceEEEEecCCccccccEEEEEe
Confidence                         0                   0         00000    00100                       


Q ss_pred             ----------------c--ccc----cccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccc
Q psy13776        181 ----------------R--RRL----LKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPL  238 (539)
Q Consensus       181 ----------------r--~ri----~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~  238 (539)
                                      |  +|+    .-+.||.||.|++|+|+||..|....|.|..|||||.|.      |        
T Consensus       198 f~g~k~~~tmlq~WPVR~pRPv~ekl~an~PLltGQRvLDalfPcVqGGTtaIPGAFGCGKTVIS------Q--------  263 (618)
T KOG1352|consen  198 FDGEKTKFTMLQTWPVRQPRPVTEKLPANHPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVIS------Q--------  263 (618)
T ss_pred             ecCceeeEEEEEecccCCCcchhhccCCCCcccccchHHHhhcchhcCCccccCcccccchHHHH------H--------
Confidence                            0  111    128999999999999999999999999999999999996      2        


Q ss_pred             cccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhc---------CCCC
Q psy13776        239 QYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTD---------SGAM  309 (539)
Q Consensus       239 ~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~---------~~~~  309 (539)
                       .|.+|++.                                  ..+|||.||||+.|+.|++.++.+         ...|
T Consensus       264 -sLSKYSNS----------------------------------D~iiYVGCGERGNEMsEVL~dFPeLt~ev~G~~esiM  308 (618)
T KOG1352|consen  264 -SLSKYSNS----------------------------------DAIIYVGCGERGNEMSEVLMDFPELTMEVDGKTESIM  308 (618)
T ss_pred             -HHhhccCC----------------------------------CeEEEEcccccchhHHHHHHhChhhEEecCCcchhhh
Confidence             23345443                                  378999999999999999998754         5679


Q ss_pred             ceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHH
Q psy13776        310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLL  389 (539)
Q Consensus       310 ~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLl  389 (539)
                      +||.+|++|+++|.+.|..+.|++.|++|||||+|+||-.+.||.+|||+|+||||..|.|+|.-.|||.++-.+++.+|
T Consensus       309 KRT~LVANTSNMPVAAREASIYTGITlsEYfRDmG~nVsMmADStSRWAEALREISGRLaEMPADsGyPAYLgArLAsFY  388 (618)
T KOG1352|consen  309 KRTALVANTSNMPVAAREASIYTGITLSEYFRDMGYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFY  388 (618)
T ss_pred             hhhhhhhcCCCCchhhhhhhhhhcccHHHHHHhcCcceeeeecchhHHHHHHHHhhhhhhcCcCcCCCcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcccCC---CCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccc
Q psy13776        390 ERSAKMSEA---HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKE  466 (539)
Q Consensus       390 ERag~~~~~---~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~  466 (539)
                      ||||++.+.   ...||+|++..|..|+||++||+...+.+|..-.|-||.+||++.                       
T Consensus       389 ERAG~vkcLGsP~ReGsVsIVgAVSPpGGDFsDPVTsATLgIvQVFWGLDKKLAQRK-----------------------  445 (618)
T KOG1352|consen  389 ERAGRVKCLGSPDREGSVSIVGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRK-----------------------  445 (618)
T ss_pred             HhcCceeecCCCCcCceeEEEEeecCCCCCcCCcchhhhhheeeehhcccHHHHhhc-----------------------
Confidence            999999863   237999999999999999999999999999999999999999999                       


Q ss_pred             cceeeeccceeecccccccchhhccccCCCccccccccccccCchhhh
Q psy13776        467 GDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQT  514 (539)
Q Consensus       467 ~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~  514 (539)
                                                  |||.||.+.|.|.-+.+.+.
T Consensus       446 ----------------------------HFPSiNwliSYSkY~~aL~~  465 (618)
T KOG1352|consen  446 ----------------------------HFPSINWLISYSKYMRALDP  465 (618)
T ss_pred             ----------------------------cCCccchhhhHHHHHHHHHH
Confidence                                        69999999999998887654

>COG1158 Rho Transcription termination factor [Transcription]

Probab=100.00  E-value=4.3e-37  Score=313.44  Aligned_cols=302  Identities=18%  Similarity=0.237  Sum_probs=231.4

Q ss_pred             CcEEEEccc-CCcCCCCCCEEEEecccccccCCCcccc--eeE--eeeccC-CCCCcccchhccccccccccc-cccccc
Q psy13776        118 GDVSAYIPT-NVISITDGQIFLETELFYKVDRGSINCG--QLI--IGDRQT-GKTALAIDTIINQKRKKRRRL-LKYNLL  190 (539)
Q Consensus       118 d~v~l~~~g-~~~gi~~G~~V~~tg~~~~VpVG~~LLG--RVv--lG~PiD-gk~~i~~~~~~~~~~~~r~ri-~~~epl  190 (539)
                      +.+.+.+-. -..+++.||.|...-+..+  -|+.+.+  +|-  .|+|.+ -+..+.++.+.+.-|+.+-.+ .....-
T Consensus        80 ~DiYvSpSQIRrf~LrtGD~v~G~vR~Pk--e~Ery~aLl~ve~vN~~~pe~~~~R~~F~~LTPlyP~erl~LE~~~~~~  157 (422)
T COG1158          80 DDIYVSPSQIRRFNLRTGDTVEGKVRPPK--EGERYFALLKVEAVNGDDPEKAKNRVLFENLTPLYPNERLKLERENGST  157 (422)
T ss_pred             CceEECHHHHhhccCccCCEEeeeecCCC--cccceeeeEEEeecCCCCHHHhhccCCcccCCCCCCcceeeeecCCCcc
Confidence            335554432 2457889999877655433  3444332  221  333321 112222333333223333333 112221


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      .---|+||.+.|||+|||.+|.+|+.+|||+|+ ..|+|....                                     
T Consensus       158 ~ls~RviDL~~PIGkGQR~LIVAPPkaGKT~lL-q~IA~aIt~-------------------------------------  199 (422)
T COG1158         158 DLSTRVIDLISPIGKGQRGLIVAPPKAGKTTLL-QNIANAITT-------------------------------------  199 (422)
T ss_pred             cchhHHHhhhcccCCCceeeEecCCCCCchHHH-HHHHHHHhc-------------------------------------
Confidence            223489999999999999999999999999998 567765532                                     


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                             |+++++.++++|+||++||+++.+..++       .||++|.|+||..|...+.+.+.-|..+.++|+||+|+
T Consensus       200 -------N~Pe~~LiVLLIDERPEEVTdmqrsV~g-------eViaSTFDepp~~HvqVAE~viEkAKRlVE~~kDVVIL  265 (422)
T COG1158         200 -------NHPECELIVLLIDERPEEVTDMQRSVKG-------EVVASTFDEPPSRHVQVAEMVIEKAKRLVEHGKDVVIL  265 (422)
T ss_pred             -------CCCceEEEEEEecCCchHHHHHHHhhcc-------eEEeecCCCcchhhHHHHHHHHHHHHHHHHcCCcEEEE
Confidence                   5678899999999999999999999863       79999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCC-CcCCcccccccccc
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAG-DVSAYIPTNVISIT  429 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~-D~s~pIp~~~~sit  429 (539)
                      +||+||+|+||+.+.-..|+..+ .|--+.-++.-.|++--|.++.   .|||+|+++|.+++.| .|++.|.++++++.
T Consensus       266 LDSITRLaRAYN~v~P~SGkvLs-GGvD~nAL~~PKrFFGAARNIE---eGGSLTIiATALVdTGSrMDeVIfEEFKGTG  341 (422)
T COG1158         266 LDSITRLARAYNTVVPSSGKVLS-GGVDANALHRPKRFFGAARNIE---EGGSLTIIATALVDTGSRMDEVIFEEFKGTG  341 (422)
T ss_pred             ehhHHHHHHHhcccCCCCCCeec-CCcChhhhcCchhhhhhhhccc---cCcchhhhhhhhhhcCCccchhhhhhhcCCC
Confidence            99999999999999988888776 3433344455555555555543   4999999999999976 99999999999999


Q ss_pred             ceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC
Q psy13776        430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG  509 (539)
Q Consensus       430 DGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~  509 (539)
                      +.+|+|||+|++++                                                   +|||||+.+|.+|-.
T Consensus       342 NmEl~LdR~laerR---------------------------------------------------ifPAIdi~kSGTRKE  370 (422)
T COG1158         342 NMELHLDRKLAERR---------------------------------------------------IFPAIDINKSGTRKE  370 (422)
T ss_pred             ceEEEEhhhhhhcc---------------------------------------------------cccceecccCCcchH
Confidence            99999999999999                                                   799999999999999


Q ss_pred             chhhhHHH-HHhhhhhhHHH
Q psy13776        510 SAAQTRAM-KQTGKIRSWNG  528 (539)
Q Consensus       510 ~~~~~~~~-~~~~~~r~~~~  528 (539)
                      .-...+.. +++-.+|+++.
T Consensus       371 eLLl~~~~l~k~w~lRr~l~  390 (422)
T COG1158         371 ELLLSPDELQKMWVLRRILS  390 (422)
T ss_pred             hhcCCHHHHHHHHHHHHHhc
Confidence            99888877 99999999665

>COG0056 AtpA F0F1-type ATP synthase, alpha subunit [Energy production and conversion]

Probab=99.30  E-value=6.4e-13  Score=141.22  Aligned_cols=55  Identities=71%  Similarity=1.043  Sum_probs=53.7

Q ss_pred             hccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCC
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGI  495 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~  495 (539)
                      -+|++||||.|+||+++||++..|+|||.|||||++++||||+.+||||||+||.
T Consensus        59 v~G~alnle~d~VG~vi~g~~~~i~eG~~v~~Tg~i~~Vpvg~~llGRVVn~lG~  113 (504)
T COG0056          59 VKGMALNLEEDSVGAVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGN  113 (504)
T ss_pred             cEEEEEeccccceeEEEecCCccccCCcEEEeeCceEEEecchhhcceeecCCCC
Confidence            4799999999999999999999999999999999999999999999999999996

>KOG1353|consensus

Probab=99.14  E-value=1.6e-11  Score=122.89  Aligned_cols=55  Identities=73%  Similarity=0.952  Sum_probs=53.3

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCC
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIR  496 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~  496 (539)
                      +|+++|||+++||+++||+++.|+||++||+||.|++|||++.+||||+|+||.+
T Consensus        53 Kgmalnle~~~vg~v~~g~d~~ikeg~~VkrTgaIvDVpvg~~LlgrvvdAlGn~  107 (340)
T KOG1353|consen   53 KGMALNLEGENVGVVVFGEDSLIKEGDTVKRTAAISDVPPLKALLGRVGCALGEP  107 (340)
T ss_pred             cchhccccCCceEEEEEcCcceeccCceEEeeeeeeccCchHHHhhhhhhhhcCe
Confidence            7899999999999999999999999999999999999999999999999999943

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.08  E-value=4.9e-09  Score=94.40  Aligned_cols=160  Identities=32%  Similarity=0.423  Sum_probs=119.8

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEe
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVA  288 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~  288 (539)
                      .+|+|++|+|||+++ ..++.+...                                              ++..++|+.
T Consensus         2 ~~i~G~~G~GKT~l~-~~i~~~~~~----------------------------------------------~~~~v~~~~   34 (165)
T cd01120           2 ILVFGPTGSGKTTLA-LQLALNIAT----------------------------------------------KGGKVVYVD   34 (165)
T ss_pred             eeEeCCCCCCHHHHH-HHHHHHHHh----------------------------------------------cCCEEEEEE
Confidence            579999999999998 445544321                                              123577888


Q ss_pred             eccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhcc
Q psy13776        289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLL  368 (539)
Q Consensus       289 IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~l  368 (539)
                      ..+..+...+....+......++..++....+........      .+++++....+..++|+|+++.+.....+.    
T Consensus        35 ~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~lviDe~~~~~~~~~~~----  104 (165)
T cd01120          35 IEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLL------SKAERLRERGGDDLIILDELTRLVRALREI----  104 (165)
T ss_pred             CCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHH------HHHHHHHhCCCCEEEEEEcHHHHHHHHHHH----
Confidence            7877777666555555556666766776666555444332      567788888888899999999999876553    


Q ss_pred             CCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCc----cccccccccceeEEeeh
Q psy13776        369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAY----IPTNVISITDGQIFLET  437 (539)
Q Consensus       369 gepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~p----Ip~~~~sitDGqIvLsr  437 (539)
                           ..+++..+...+.+|++++.+       ..+|.+.+.....++..+|    .++.+..+.|+-|+|+|
T Consensus       105 -----~~~~~~~~~~~l~~l~~~~~~-------~~~~vv~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         105 -----REGYPGELDEELRELLERARK-------GGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             -----HhcCChHHHHHHHHHHHHHhc-------CCceEEEEEecCCccccCcccccCccceeeecceEEEEeC
Confidence                 356777777788888888754       5889999999998888888    88999999999999986

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=98.68  E-value=6.1e-09  Score=114.03  Aligned_cols=57  Identities=35%  Similarity=0.695  Sum_probs=54.4

Q ss_pred             ccCcCCCCCC-CcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPD-NVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|+++|||+| ++++++||+...|++||.|++||++++||||+++||||||+|| .|--
T Consensus        79 ~G~vlnl~~d~~v~~v~lg~~~gI~~G~~V~~tg~~~~VpVG~~lLGRVvD~lG-~PID  136 (574)
T PTZ00185         79 AGLVFNLEKDGRIGIILMDNITEVQSGQKVMATGKLLYIPVGAGVLGKVVNPLG-HEVP  136 (574)
T ss_pred             EEEEEEecCCCeEEEEEecCccCCCCCCEEEECCCccEEECCcccccCEECCCC-cccC
Confidence            6999999999 6999999999999999999999999999999999999999999 6653

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=98.40  E-value=8.7e-08  Score=105.10  Aligned_cols=58  Identities=16%  Similarity=0.238  Sum_probs=54.7

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.++|++.+++++++||+...|++||.|++||++++||||+++||||||+|| .|--+
T Consensus        36 ~g~V~~~~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVvd~lG-~piDg   93 (507)
T PRK07165         36 KAFVISATEDKAYLLINNEKGKIKINDELIELNNTNKVKTSKEYFGKIIDIDG-NIIYP   93 (507)
T ss_pred             EEEEEEEeCCeEEEEEccCccCCCCCCEEEECCCccEEECCccccCCEECCCC-cccCC
Confidence            67999999999999999999999999999999999999999999999999999 66543

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=98.24  E-value=3.4e-07  Score=100.10  Aligned_cols=57  Identities=54%  Similarity=0.875  Sum_probs=54.0

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|.++|++.+++++++||+...|++||.|++||+.++||||+++||||||+|| .|--
T Consensus        39 ~g~vi~~~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVvd~lG-~piD   95 (485)
T CHL00059         39 IGIALNLESNNVGVVLMGDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALA-KPID   95 (485)
T ss_pred             EEEEEEEcCCEEEEEEeeCCCCCCCCCEEEECCCcceEEcCHhhcCCEECCCC-CeeC
Confidence            67999999999999999999999999999999999999999999999999999 5543

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=98.20  E-value=4.9e-07  Score=99.42  Aligned_cols=58  Identities=48%  Similarity=0.828  Sum_probs=54.3

Q ss_pred             hccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      -.|.++||+.+.+++++||+...|++|+.|++||+.++||||+++||||||+|| .|--
T Consensus        59 ~~g~V~~l~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVid~lG-~piD  116 (502)
T PRK13343         59 SRGFAFNLEEELVGAVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVIDPLG-RPLD  116 (502)
T ss_pred             cEEEEEEecCCeEEEEEeeCCCCCCCCCEeEecCCcceeecCHHhcCCEECCCC-Cccc
Confidence            367899999999999999999999999999999999999999999999999999 5543

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=98.16  E-value=6.7e-07  Score=98.15  Aligned_cols=57  Identities=54%  Similarity=0.940  Sum_probs=54.0

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|.++||+.+++++++||+...|++|+.|++||+.+.||||+++||||+|+|| .|--
T Consensus        60 ~g~Vi~l~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVvd~lG-~PiD  116 (497)
T TIGR03324        60 LGIAFNVDEDEVGVVLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLG-RPLD  116 (497)
T ss_pred             EEEEEEEcCCeEEEEEecCCcCCcCCCEEEECCCCCeEECCHhhCcCEECCCC-CCcC
Confidence            67899999999999999999999999999999999999999999999999999 5543

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.96  E-value=2.7e-05  Score=76.33  Aligned_cols=176  Identities=22%  Similarity=0.233  Sum_probs=98.8

Q ss_pred             ccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhh
Q psy13776        190 LSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDL  267 (539)
Q Consensus       190 l~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~  267 (539)
                      +.|||..+|-++  -+-+|.-.+|.|++|+|||++++..+.++...                     .            
T Consensus         1 V~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~---------------------~------------   47 (226)
T PF06745_consen    1 VPTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKN---------------------F------------   47 (226)
T ss_dssp             E--SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHH---------------------H------------
T ss_pred             CCCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhh---------------------c------------
Confidence            369999999999  78899999999999999999997655554321                     0            


Q ss_pred             hhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCC-------CceEEEEEecCCCChhhhhhhhHHHHHHHHHH
Q psy13776        268 SKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGA-------MGYTIIVSATASDAAPLQYLAPYSGCAMGEFF  340 (539)
Q Consensus       268 ~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~-------~~~tvvV~atad~~a~~r~~ap~~a~tiAEyF  340 (539)
                                   +-.|+|+..-+..+++.+-.+.+   |.       ..+-.++-......-....-.-...-.+.+.+
T Consensus        48 -------------ge~vlyvs~ee~~~~l~~~~~s~---g~d~~~~~~~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i  111 (226)
T PF06745_consen   48 -------------GEKVLYVSFEEPPEELIENMKSF---GWDLEEYEDSGKLKIIDAFPERIGWSPNDLEELLSKIREAI  111 (226)
T ss_dssp             -------------T--EEEEESSS-HHHHHHHHHTT---TS-HHHHHHTTSEEEEESSGGGST-TSCCHHHHHHHHHHHH
T ss_pred             -------------CCcEEEEEecCCHHHHHHHHHHc---CCcHHHHhhcCCEEEEecccccccccccCHHHHHHHHHHHH
Confidence                         12589999988776665554443   21       11233433332211000112222334556666


Q ss_pred             HHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCc
Q psy13776        341 RDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAY  420 (539)
Q Consensus       341 rd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~p  420 (539)
                      .+.+. -.+++||+|-+ .++..              |......+-.|.....+      . .+|++.+.+++.+.-.+.
T Consensus       112 ~~~~~-~~vVIDsls~l-~~~~~--------------~~~~r~~l~~l~~~l~~------~-~~t~llt~~~~~~~~~~~  168 (226)
T PF06745_consen  112 EELKP-DRVVIDSLSAL-LLYDD--------------PEELRRFLRALIKFLKS------R-GVTTLLTSEMPSGSEDDG  168 (226)
T ss_dssp             HHHTS-SEEEEETHHHH-TTSSS--------------GGGHHHHHHHHHHHHHH------T-TEEEEEEEEESSSSSSSS
T ss_pred             HhcCC-CEEEEECHHHH-hhcCC--------------HHHHHHHHHHHHHHHHH------C-CCEEEEEEccccCccccc
Confidence            66555 57889999988 32211              11111223344444432      1 347788887654321211


Q ss_pred             ccccccc-ccceeEEeehh
Q psy13776        421 IPTNVIS-ITDGQIFLETE  438 (539)
Q Consensus       421 Ip~~~~s-itDGqIvLsr~  438 (539)
                       -..+.. +.||-|.|+..
T Consensus       169 -~~~i~~~l~D~vI~L~~~  186 (226)
T PF06745_consen  169 -TFGIEHYLADGVIELRYE  186 (226)
T ss_dssp             -STSHHHHHSSEEEEEEEE
T ss_pred             -ccchhhhcccEEEEEEEE
Confidence             123334 89999999865

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=97.96  E-value=3.9e-06  Score=92.60  Aligned_cols=58  Identities=59%  Similarity=0.961  Sum_probs=54.5

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.+.+++++||+...+++|+.|++||+.++||||+++||||+|+|| .|--+
T Consensus        59 ~g~Vi~~~~~~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~llGRV~d~~G-~pld~  116 (501)
T TIGR00962        59 QGIALNLEEDSVGAVIMGDYSNIREGSTVKRTGRILKVPVGDGLLGRVVNALG-QPIDG  116 (501)
T ss_pred             EEEEEEecCCeEEEEEecCCcCCCCCCeeEecCCccEEecChHhcCCEeCCCC-CeeCC
Confidence            67899999999999999999999999999999999999999999999999999 66543

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.88  E-value=0.00021  Score=71.93  Aligned_cols=182  Identities=20%  Similarity=0.258  Sum_probs=112.5

Q ss_pred             ccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhh
Q psy13776        188 NLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYD  265 (539)
Q Consensus       188 epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d  265 (539)
                      +.+.|||.-+|-++-  +-+|.-.+|.|++|+|||++++..+.++...                                
T Consensus         3 ~~~~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~--------------------------------   50 (260)
T COG0467           3 ERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGARE--------------------------------   50 (260)
T ss_pred             ccccCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc--------------------------------
Confidence            567899999999998  7799999999999999999997666655432                                


Q ss_pred             hhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHH-------hcCCCCceEEEEEecCCCChhh------hhhhhHH
Q psy13776        266 DLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPL------QYLAPYS  332 (539)
Q Consensus       266 ~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l-------~~~~~~~~tvvV~atad~~a~~------r~~ap~~  332 (539)
                                     +--|+|+..-|...++.+-.+.+       .+.+.   -.++-+.+...+..      -......
T Consensus        51 ---------------ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~~~~g~---l~i~d~~~~~~~~~~~~~~~~~~~~~l  112 (260)
T COG0467          51 ---------------GEPVLYVSTEESPEELLENARSFGWDLEVYIEKGK---LAILDAFLSEKGLVSIVVGDPLDLEEL  112 (260)
T ss_pred             ---------------CCcEEEEEecCCHHHHHHHHHHcCCCHHHHhhcCC---EEEEEccccccccccccccCCccHHHH
Confidence                           12599999999999998877642       22222   12222222222211      1233445


Q ss_pred             HHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEe
Q psy13776        333 GCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIET  412 (539)
Q Consensus       333 a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~  412 (539)
                      .-.+-+.+.+.+ ...+++||+|.+...+..-..          + -..+..+.++++         ..| .|++.+...
T Consensus       113 ~~~I~~~~~~~~-~~~~ViDsi~~~~~~~~~~~~----------~-r~~~~~l~~~~~---------~~~-~t~~~~~~~  170 (260)
T COG0467         113 LDRIREIVEKEG-ADRVVIDSITELTLYLNDPAL----------V-RRILLLLKRFLK---------KLG-VTSLLTTEA  170 (260)
T ss_pred             HHHHHHHHHHhC-CCEEEEeCCchHhhhcCchHH----------H-HHHHHHHHHHHH---------hCC-CEEEEEecc
Confidence            566667777777 667789999976654321110          0 011122333332         134 787766654


Q ss_pred             eCCCcCCccccccccccceeEEeehhHHhcc
Q psy13776        413 QAGDVSAYIPTNVISITDGQIFLETELFYKG  443 (539)
Q Consensus       413 ~~~D~s~pIp~~~~sitDGqIvLsr~La~~g  443 (539)
                      ..+.....  ...-++.||.|.|+....+-+
T Consensus       171 ~~~~~~~~--~~~~~~vdgvI~l~~~~~~~~  199 (260)
T COG0467         171 PVEERGES--GVEEYIVDGVIRLDLKEIEGG  199 (260)
T ss_pred             cccCCCcc--ceEEEEEEEEEEEeeecccCc
Confidence            33222211  234458999999999877755

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=97.82  E-value=6.8e-06  Score=90.77  Aligned_cols=58  Identities=64%  Similarity=0.979  Sum_probs=54.4

Q ss_pred             hccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      -.|.+++++.+.+++.+||+...+..|+.|+.||+.++||||+++||||+|+|| .|--
T Consensus        59 ~~g~Vi~~~~~~~~~~~~~~~~gi~~g~~V~~~~~~~~v~vg~~llGrv~d~~G-~pid  116 (502)
T PRK09281         59 VYGIALNLEEDNVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLG-QPID  116 (502)
T ss_pred             cEEEEEEEcCCeEEEEEecCcccccCCCeeeecCCceEEecCHHhcCCEEccCC-CCcC
Confidence            367899999999999999999999999999999999999999999999999999 5544

>PF02874 ATP-synt_ab_N: ATP synthase alpha/beta family, beta-barrel domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR004100 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=97.75  E-value=3.2e-05  Score=62.59  Aligned_cols=63  Identities=10%  Similarity=-0.084  Sum_probs=49.9

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      +..|+++.+.++    +++.+.   ...|..+|.+...|+++++++   |.+.+++|+++.||++|++|++||
T Consensus         3 ~v~G~vv~v~~~~~~~~g~~~~---~~~~~~~~~~~~~~~Vv~~~~---~~v~~~~~~~t~Gl~~G~~V~~tG   69 (69)
T PF02874_consen    3 QVVGPVVEVEFGPGVLPGIGEA---VEVELVDFGNGVLGEVVGLDE---DEVRLQVFGSTDGLSRGTEVRFTG   69 (69)
T ss_dssp             EEECTEEEEECSEEEEEETTTE---EEEEEEEETTEEEEEEEEEET---TEEEEEESSSGTTSBTTCEEEEEE
T ss_pred             cccceEEEEEcCCCCCCCccEE---EEEecccceeeeeeeecccCc---cEEEEEEecCCCCCCCCCEEEcCc
Confidence            345666666444    344434   566666778888999999999   999999999999999999999996

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the N-terminal domain, which forms a closed beta-barrel with Greek-key topology. ; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015992 proton transport, 0046034 ATP metabolic process, 0016469 proton-transporting two-sector ATPase complex; PDB: 1W0K_A 1H8H_B 2WSS_A 1EFR_A 2JIZ_H 1E1Q_A 2V7Q_B 1E79_B 1E1R_C 2XND_C ....

>cd01394 radB RadB

Probab=97.70  E-value=0.00032  Score=68.29  Aligned_cols=40  Identities=35%  Similarity=0.567  Sum_probs=33.8

Q ss_pred             ccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        190 LSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       190 l~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.||+..+|-++.  +.+|.=..|+|++|+|||++++..+.+
T Consensus         1 i~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~   42 (218)
T cd01394           1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVE   42 (218)
T ss_pred             CCcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4699999999985  677888999999999999999654443

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.64  E-value=0.00046  Score=76.17  Aligned_cols=174  Identities=20%  Similarity=0.160  Sum_probs=99.4

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  264 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~  264 (539)
                      .+.+.|||..+|.++.  +-+|.-.+|.|++|+|||+++...+.+....                               
T Consensus       252 ~~~~~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~-------------------------------  300 (509)
T PRK09302        252 NERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRR-------------------------------  300 (509)
T ss_pred             cccccCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhC-------------------------------
Confidence            6678999999999986  7789999999999999999996544433211                               


Q ss_pred             hhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHH-------hcCCCCceEEEEEecCCCChhhhhhhhHHHHHHH
Q psy13776        265 DDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMG  337 (539)
Q Consensus       265 d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l-------~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiA  337 (539)
                                      +-.|+|+..-+..+++.+-.+.+       .+.+   +..++...   |.....  --....+.
T Consensus       301 ----------------g~~~~yis~e~~~~~i~~~~~~~g~~~~~~~~~g---~l~i~~~~---~~~~~~--~~~~~~i~  356 (509)
T PRK09302        301 ----------------GERCLLFAFEESRAQLIRNARSWGIDLEKMEEKG---LLKIICAR---PESYGL--EDHLIIIK  356 (509)
T ss_pred             ----------------CCcEEEEEecCCHHHHHHHHHHcCCChHHHhhcC---CceeecCC---cccCCH--HHHHHHHH
Confidence                            12477887777655554433332       1111   12233221   111100  01112333


Q ss_pred             HHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCc
Q psy13776        338 EFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV  417 (539)
Q Consensus       338 EyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~  417 (539)
                      +...+.+.+ ++|+||+|-+.....               +..+-..+.+|...+.+       -.+|.+.|.+++....
T Consensus       357 ~~i~~~~~~-~vVIDslt~l~~~~~---------------~~~~~~~l~~l~~~~k~-------~~~t~l~t~~~~~~~g  413 (509)
T PRK09302        357 REIEEFKPS-RVAIDPLSALARGGS---------------LNEFRQFVIRLTDYLKS-------EEITGLFTNLTPDFMG  413 (509)
T ss_pred             HHHHHcCCC-EEEEcCHHHHHHhCC---------------HHHHHHHHHHHHHHHHh-------CCCeEEEEeccccccC
Confidence            333344445 789999998865321               00111122233333322       2358888877765322


Q ss_pred             CCcc-ccccccccceeEEeehh
Q psy13776        418 SAYI-PTNVISITDGQIFLETE  438 (539)
Q Consensus       418 s~pI-p~~~~sitDGqIvLsr~  438 (539)
                      .+.. +..+.++.||-|.|+..
T Consensus       414 ~~~~~~~~~~~l~D~vI~L~~~  435 (509)
T PRK09302        414 SHSITESHISSLTDTWILLQYV  435 (509)
T ss_pred             CCCCCcCceEEeeeEEEEEEEe
Confidence            2222 34578999999999864

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=97.63  E-value=2e-05  Score=86.23  Aligned_cols=56  Identities=38%  Similarity=0.647  Sum_probs=52.8

Q ss_pred             ccCcCCCCCCCcccEEeccccccc-ccceeeeccceeecccccccchhhccccCCCcc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIK-EGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPA  498 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pa  498 (539)
                      .|.+++++.|++.+.+|++...++ .|+.|..||+.+.||||+++||||+|+|| +|-
T Consensus        40 ~geVi~~~~~~~~l~~~~~t~gl~i~G~~V~~tg~~~~V~vg~~lLGRVvD~~G-~Pl   96 (460)
T PRK04196         40 RGQVLEVSEDKAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLG-RPI   96 (460)
T ss_pred             EEEEEEEeCCeEEEEEccCCCCCCCCCCEEEeCCCccEEEcCcccccCEECccC-CCc
Confidence            367889999999999999999999 99999999999999999999999999999 564

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.53  E-value=0.00027  Score=60.44  Aligned_cols=89  Identities=20%  Similarity=0.143  Sum_probs=49.0

Q ss_pred             CChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCC
Q psy13776        321 DAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHG  400 (539)
Q Consensus       321 ~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g  400 (539)
                      .....+...+....+.|++..    ..++++|++.++..............            .. .+.+. .      .
T Consensus        58 ~~~~~~~~~~~~~~~~~~~~~----~~viiiDei~~~~~~~~~~~~~~~~~------------~~-~~~~~-~------~  113 (148)
T smart00382       58 KASGSGELRLRLALALARKLK----PDVLILDEITSLLDAEQEALLLLLEE------------LR-LLLLL-K------S  113 (148)
T ss_pred             CCCCCHHHHHHHHHHHHHhcC----CCEEEEECCcccCCHHHHHHHHhhhh------------hH-HHHHH-H------h
Confidence            334445555666666666543    68999999998887666554433322            00 01110 0      0


Q ss_pred             CccceeeeEEEeeCCCcCCccccccccccceeEEeeh
Q psy13776        401 GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLET  437 (539)
Q Consensus       401 ~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr  437 (539)
                      ...+..+.+...    ...+++...+...|.++.+.+
T Consensus       114 ~~~~~~i~~~~~----~~~~~~~~~~~~~~~~~~~~~  146 (148)
T smart00382      114 EKNLTVILTTND----EKDLGPALLRRRFDRRIVLLL  146 (148)
T ss_pred             cCCCEEEEEeCC----CccCchhhhhhccceEEEecC
Confidence            123344433332    456667777777787777643

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.53  E-value=0.002  Score=65.37  Aligned_cols=41  Identities=24%  Similarity=0.314  Sum_probs=33.9

Q ss_pred             ccccceeeeeee----------------eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        190 LSAGIKAVDSLV----------------PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       190 l~TGIraID~l~----------------pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.|||+.+|.++                -+-+|.-.+|.|++|+|||++++..+.+.
T Consensus         4 ~~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~   60 (259)
T TIGR03878         4 VPTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQ   60 (259)
T ss_pred             ccCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            469999999986                35589999999999999999997555543

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.53  E-value=0.00099  Score=66.35  Aligned_cols=42  Identities=24%  Similarity=0.366  Sum_probs=35.2

Q ss_pred             cccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        189 LLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       189 pl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+.|||..+|-++.  +-+|.-++|.|++|+|||++++..+.++
T Consensus         2 ri~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~   45 (237)
T TIGR03877         2 RVKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNG   45 (237)
T ss_pred             ccccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            36799999999874  6689999999999999999996555544

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=97.52  E-value=3.6e-05  Score=83.43  Aligned_cols=58  Identities=24%  Similarity=0.243  Sum_probs=53.4

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.+.+.+.+||+...|+.|+.|..||+.++||||+++||||+|+|| +|--+
T Consensus        37 ~~eVv~~~~~~v~l~~~~~~~gi~~G~~V~~tg~~~~i~vg~~lLGRViD~lG-~plD~   94 (418)
T TIGR03498        37 LAEVVGFNGDRVLLMPFEPLEGVGLGCAVFAREGPLAVRPHPSWLGRVINALG-EPIDG   94 (418)
T ss_pred             EEEEEEEcCCeEEEEEccCCcCCCCCCEEEECCCccEEEeChhhcCCEECCCC-CccCC
Confidence            35788899999999999999999999999999999999999999999999999 56544

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK04328 hypothetical protein; Provisional

Probab=97.49  E-value=0.0016  Score=65.64  Aligned_cols=43  Identities=23%  Similarity=0.348  Sum_probs=35.9

Q ss_pred             ccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        188 NLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       188 epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.+.|||..+|-++.  +-+|.-.+|.|++|+|||++++..+.+.
T Consensus         3 ~rv~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~   47 (249)
T PRK04328          3 KRVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNG   47 (249)
T ss_pred             ceecCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            457899999999976  4489999999999999999997655543

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=97.48  E-value=4.4e-05  Score=82.86  Aligned_cols=57  Identities=33%  Similarity=0.461  Sum_probs=52.2

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|.+++++.+++.+.+|++...++.|+.|..||+.++||||+++||||+|++| +|--
T Consensus        41 ~~eVi~~~~~~~~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrViD~~G-~plD   97 (422)
T TIGR02546        41 LAEVVGFTGDEALLSPLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFG-RPLD   97 (422)
T ss_pred             EEEEEEEcCCcEEEEEccCccCCCCCCEEEECCCCceEEeChhhccCEeCCCC-Cccc
Confidence            45677888999999999999999999999999999999999999999999999 5543

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.48  E-value=0.0018  Score=63.49  Aligned_cols=39  Identities=33%  Similarity=0.520  Sum_probs=33.4

Q ss_pred             ccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        190 LSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       190 l~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.|||..+|-++.  +-+|.-++|.|++|+|||+++...+.
T Consensus         2 i~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~   42 (229)
T TIGR03881         2 LSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAY   42 (229)
T ss_pred             cCCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHH
Confidence            5799999999885  66899999999999999999964443

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>PRK09099 type III secretion system ATPase; Provisional

Probab=97.41  E-value=5.4e-05  Score=82.53  Aligned_cols=56  Identities=34%  Similarity=0.488  Sum_probs=51.9

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      |.+++++.+++.+.+||+...++.|+.|+.||+.++||||+++||||+|++| .|--
T Consensus        62 ~eVv~~~~~~~~l~~~~~t~gi~~g~~V~~tg~~~~v~vg~~lLGrV~d~~G-~piD  117 (441)
T PRK09099         62 AEVVGFSRDVALLSPFGELGGLSRGTRVIGLGRPLSVPVGPALLGRVIDGLG-EPID  117 (441)
T ss_pred             EEEEEEECCEEEEEEccCCcCCCCCCEEEeCCCccEEEeccccccCEEcccC-CccC
Confidence            4678889999999999999999999999999999999999999999999999 5543

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=97.38  E-value=6.9e-05  Score=81.48  Aligned_cols=88  Identities=22%  Similarity=0.225  Sum_probs=66.5

Q ss_pred             ccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeeccc
Q psy13776        402 GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPV  481 (539)
Q Consensus       402 GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~  481 (539)
                      |-++.+--.+++..-....|-+.+.- .++.+        .+.+.+++.+++.+..||+...++.|+.|+.||+.+.|||
T Consensus        23 g~v~~~~g~~~~~~g~~~~ige~~~i-~~~~~--------~~eV~~~~~~~~~~~~~~~~~gi~~g~~v~~~~~~~~v~v   93 (432)
T PRK06793         23 GKVHSVQEQFFVAKGPKAKIGDVCFV-GEHNV--------LCEVIAIEKENNMLLPFEQTEKVCYGDSVTLIAEDVVIPR   93 (432)
T ss_pred             eEEEEEEEEEEEEEcCCCCcCCEEEE-CCCCE--------EEEEEEecCCcEEEEEccCccCCCCCCEEEECCCccEEEc
Confidence            55555554444443345555554432 23322        3467889999999999999999999999999999999999


Q ss_pred             ccccchhhccccCCCccc
Q psy13776        482 GEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       482 ~~~~l~~v~~~lg~~Pai  499 (539)
                      |+++||||+|++| .|--
T Consensus        94 g~~~lGrV~d~~G-~piD  110 (432)
T PRK06793         94 GNHLLGKVLSANG-EVLN  110 (432)
T ss_pred             CHhhccCEECcCC-ccCC
Confidence            9999999999999 5543

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=97.36  E-value=6.7e-05  Score=82.18  Aligned_cols=58  Identities=29%  Similarity=0.483  Sum_probs=52.8

Q ss_pred             ccCcCCCCCCCcccEEecccccccccce-eeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDI-VKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.+++.+.+||+...+..|+. |..||+.++||||+++||||+|++| +|--+
T Consensus        38 ~geVv~~~~~~~~l~~~~~t~gi~~g~~~V~~tg~~~~v~vg~~lLGRViD~~G-~plD~   96 (458)
T TIGR01041        38 RGQVLDSSEGLAVVQVFEGTTGLDPTGTKVRFTGETLKLPVSEDMLGRILNGSG-EPIDG   96 (458)
T ss_pred             EEEEEEEECCEEEEEEecCCcCcCCCCcEEEECCCceEEEcChhhccCEEccCC-cccCC
Confidence            4577889999999999999999999886 9999999999999999999999999 66544

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=97.36  E-value=7e-05  Score=81.77  Aligned_cols=55  Identities=27%  Similarity=0.376  Sum_probs=50.1

Q ss_pred             cCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        445 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       445 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      +..++.+.+.+.+||+...++.|+.|+.||+.++||||+++||||+|++| .|--+
T Consensus        69 Vv~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRV~d~~G-~plD~  123 (451)
T PRK05688         69 VMGFSGDKVFLMPVGSVAGIAPGARVVPLADTGRLPMGMSMLGRVLDGAG-RALDG  123 (451)
T ss_pred             EEEEcCCEEEEEEccCccCCCCCCEEEECCCccEEEecccccCCEEeccC-ceecC
Confidence            45577889999999999999999999999999999999999999999999 66543

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=97.34  E-value=8e-05  Score=80.58  Aligned_cols=57  Identities=30%  Similarity=0.479  Sum_probs=51.9

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|.+..++.+.+.+.+|++-..++.|+.|..||+.++||||+++||||+|++| .|--
T Consensus        35 ~~eVv~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGrVid~~G-~pld   91 (411)
T TIGR03496        35 EAEVVGFRGDRVLLMPLEDVEGLRPGARVFPLEGPLRLPVGDSLLGRVIDGLG-RPLD   91 (411)
T ss_pred             EEEEEEecCCEEEEEEccCccCCCCCCEEEECCCccEEEcchhhcCCEECCCC-CCcC
Confidence            35677888999999999999999999999999999999999999999999999 4543

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=97.34  E-value=7.9e-05  Score=81.42  Aligned_cols=58  Identities=33%  Similarity=0.508  Sum_probs=52.6

Q ss_pred             ccCcCCCCCCCcccEEecccccccc-cceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKE-GDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.+.+.+.+||....|.. |+.|..||+.++||||+++||||+|+|| .|--+
T Consensus        38 ~geVi~~~~~~~~l~~~~~~~gi~~~g~~V~~t~~~~~v~vg~~lLGRVid~~G-~piD~   96 (466)
T TIGR01040        38 SGQVLEVSGNKAVVQVFEGTSGIDAKKTTCEFTGDILRTPVSEDMLGRVFNGSG-KPIDK   96 (466)
T ss_pred             EEEEEEEeCCeEEEEEcCCCCCcccCCCEEEECCCccEEEcCcccccCEECccc-cccCC
Confidence            3577889999999999999999997 9999999999999999999999999999 55443

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.31  E-value=0.0024  Score=63.03  Aligned_cols=42  Identities=29%  Similarity=0.350  Sum_probs=35.4

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+.+.|||..+|-++.  +-+|.-.+|.|++|+|||+++...+.
T Consensus         4 ~~~~~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~   47 (234)
T PRK06067          4 KEIISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVY   47 (234)
T ss_pred             ceEEecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHH
Confidence            5678999999999985  55889999999999999999954333

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.25  E-value=0.0011  Score=68.43  Aligned_cols=127  Identities=17%  Similarity=0.202  Sum_probs=74.9

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  264 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~  264 (539)
                      ...+.||++.+|.++.  +-+|.-..|+|++|+|||++++....|....         ...|                  
T Consensus        74 ~~~~~Tg~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~---------~~~g------------------  126 (310)
T TIGR02236        74 IGKITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLP---------EEKG------------------  126 (310)
T ss_pred             CCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCC---------cccC------------------
Confidence            3446799999999876  5678888999999999999997554443211         0000                  


Q ss_pred             hhhhhHHHHhhhcccCceEEEEEeecc--chhHHHHHHHHHhc--CCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHH
Q psy13776        265 DDLSKQAVAYRQDEKKKLYCIYVAIGQ--KRSTVAQIVKRLTD--SGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFF  340 (539)
Q Consensus       265 d~~~~~a~~~~~~~~~~~~~Vy~~IGe--r~~ev~e~~~~l~~--~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyF  340 (539)
                                    ..+..|||+..-+  +.+.+.++.+.+.-  ...+++..++.....++   +.   ...-.+.+++
T Consensus       127 --------------~~~~~~~yi~te~~f~~~rl~~~~~~~gl~~~~~~~~i~i~~~~~~~~---~~---~lld~l~~~i  186 (310)
T TIGR02236       127 --------------GLGGKAVYIDTENTFRPERIMQMAEARGLDPDEVLKNIYVARAYNSNH---QM---LLVEKAEDLI  186 (310)
T ss_pred             --------------CCcceEEEEECCCCCCHHHHHHHHHHcCCCHHHHhhceEEEecCCHHH---HH---HHHHHHHHHH
Confidence                          0112688888776  45555555544311  11234444443332221   11   1122356666


Q ss_pred             HHCCC-cEEEEecChhHHHHH
Q psy13776        341 RDNGK-HALIIYDDLSKQAVA  360 (539)
Q Consensus       341 rd~Gk-dVLli~DslTr~A~A  360 (539)
                      .+.+. --+||+||++-+-+.
T Consensus       187 ~~~~~~~~lVVIDSisa~~r~  207 (310)
T TIGR02236       187 KELNNPVKLLIVDSLTSHFRA  207 (310)
T ss_pred             HhcCCCceEEEEecchHhhhH
Confidence            66443 349999999987543

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=97.22  E-value=0.00014  Score=79.47  Aligned_cols=58  Identities=28%  Similarity=0.448  Sum_probs=53.1

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.+.+.+.+||+...+..|+.|..||+.++||||+++||||+|++| .|--+
T Consensus        60 ~~eVi~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGRVid~~G-~plD~  117 (440)
T TIGR01026        60 VAEVVGFNGEFVFLMPYEEVEGVRPGSKVLATGEGLSIKVGDGLLGRVLDGLG-KPIDG  117 (440)
T ss_pred             EEEEEEecCCEEEEEEccCCcCCCCCCEEEeCCCccEEEcChhhhhceecCCC-cccCC
Confidence            45778889999999999999999999999999999999999999999999999 55543

This family of ATPases demonstrates extensive homology with ATP synthase F1, beta subunit. It is a mixture of members with two different protein functions. The first group is exemplified by Salmonella typhimurium FliI protein. It is needed for flagellar assembly, its ATPase activity is required for flagellation, and it may be involved in a specialized protein export pathway that proceeds without signal peptide cleavage. The second group of proteins function in the export of virulence proteins; exemplified by Yersinia sp. YscN protein an ATPase involved in the type III secretory pathway for the antihost Yops proteins.

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=97.21  E-value=0.00013  Score=79.36  Aligned_cols=58  Identities=40%  Similarity=0.590  Sum_probs=53.3

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.++.++.+++.+.+|++-..++.|+.|..||+.++||||+++||||+|++| .|--+
T Consensus        55 ~~eVv~~~~~~~~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGRViD~~G-~plD~  112 (434)
T PRK08472         55 LGMVVVIEKEQFGISPFSFIEGFKIGDKVFISKEGLNIPVGRNLLGRVVDPLG-RPIDG  112 (434)
T ss_pred             EEEEEEEeCCeEEEEEccCCCCCCCCCEEEeCCCceEEEcChhhcCCEECCCC-CcccC
Confidence            45678899999999999999999999999999999999999999999999999 66543

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.20  E-value=0.0065  Score=67.07  Aligned_cols=174  Identities=19%  Similarity=0.113  Sum_probs=100.2

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  264 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~  264 (539)
                      .+.+.|||..+|.++-  +-+|.-.+|.|++|+|||+|++..+.+....                               
T Consensus       242 ~~~~~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~-------------------------------  290 (484)
T TIGR02655       242 NVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACAN-------------------------------  290 (484)
T ss_pred             ccccCCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHC-------------------------------
Confidence            6679999999999874  6689999999999999999996544433221                               


Q ss_pred             hhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCC-----Cc--eEEEEEecCCCChhhhhhhhHHHHHHH
Q psy13776        265 DDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGA-----MG--YTIIVSATASDAAPLQYLAPYSGCAMG  337 (539)
Q Consensus       265 d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~-----~~--~tvvV~atad~~a~~r~~ap~~a~tiA  337 (539)
                                      +-.|+|+.--|..+++..=.+.+   |.     .+  +-.++.....+...     -..+-.+-
T Consensus       291 ----------------ge~~~y~s~eEs~~~i~~~~~~l---g~~~~~~~~~g~l~~~~~~p~~~~~-----~~~~~~i~  346 (484)
T TIGR02655       291 ----------------KERAILFAYEESRAQLLRNAYSW---GIDFEEMEQQGLLKIICAYPESAGL-----EDHLQIIK  346 (484)
T ss_pred             ----------------CCeEEEEEeeCCHHHHHHHHHHc---CCChHHHhhCCcEEEEEcccccCCh-----HHHHHHHH
Confidence                            12588998877666654444333   21     11  12233221111100     11222222


Q ss_pred             HHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCc
Q psy13776        338 EFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV  417 (539)
Q Consensus       338 EyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~  417 (539)
                      +...+.+.+ ++|+||++-+..++.+           +.+    -..+.+|.+-+.+       =.+|.+.|.+++.---
T Consensus       347 ~~i~~~~~~-~vvIDsi~~~~~~~~~-----------~~~----r~~~~~l~~~lk~-------~~it~~~t~~~~~~~~  403 (484)
T TIGR02655       347 SEIADFKPA-RIAIDSLSALARGVSN-----------NAF----RQFVIGVTGYAKQ-------EEITGFFTNTSDQFMG  403 (484)
T ss_pred             HHHHHcCCC-EEEEcCHHHHHHhcCH-----------HHH----HHHHHHHHHHHhh-------CCCeEEEeeccccccc
Confidence            333344555 6789999988654411           111    0112334443222       3578888888765111


Q ss_pred             CCccc-cccccccceeEEeehh
Q psy13776        418 SAYIP-TNVISITDGQIFLETE  438 (539)
Q Consensus       418 s~pIp-~~~~sitDGqIvLsr~  438 (539)
                      +.+++ ..+-++.|+-|+|...
T Consensus       404 ~~~~~~~~~s~l~D~ii~l~~~  425 (484)
T TIGR02655       404 SHSITDSHISTITDTILMLQYV  425 (484)
T ss_pred             CCccCCCCeeEeeeEEEEEEEE
Confidence            23344 3677899999999643

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PRK06820 type III secretion system ATPase; Validated

Probab=97.20  E-value=0.00014  Score=79.41  Aligned_cols=58  Identities=28%  Similarity=0.444  Sum_probs=53.2

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.++.++.+++.+.+|++-+.|+.|+.|..||+.++||||+++||||+|++| +|--+
T Consensus        62 ~~eVv~~~~~~~~l~~~~~~~gi~~g~~v~~tg~~~~v~vg~~llGrv~d~~G-~pld~  119 (440)
T PRK06820         62 LAEVVSIEQEMALLSPFASSDGLRCGQWVTPLGHMHQVQVGADLAGRILDGLG-APIDG  119 (440)
T ss_pred             EEEEEEEeCCeEEEEEccCccCCCCCCEEEECCCCcEEEechhhcCCEECccC-CccCC
Confidence            45778899999999999999999999999999999999999999999999999 56443

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=97.16  E-value=0.00016  Score=79.66  Aligned_cols=54  Identities=35%  Similarity=0.478  Sum_probs=48.4

Q ss_pred             CCCCC-CCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        446 LNLEP-DNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       446 ~~l~~-~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      ..++. +.+.++.||+...|+.|+.|..||+.+.||||+++||||+|+|| .|--+
T Consensus        62 vg~~~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVid~~G-~piDg  116 (494)
T CHL00060         62 QQLLGNNRVRAVAMSATDGLMRGMEVIDTGAPLSVPVGGATLGRIFNVLG-EPVDN  116 (494)
T ss_pred             EEEeCCCeEEEEeccCccCCCCCCEEEeCCCcceeecchhhcCCEEeecC-cccCC
Confidence            34455 89999999999999999999999999999999999999999999 66543

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=97.15  E-value=0.00016  Score=78.89  Aligned_cols=54  Identities=31%  Similarity=0.530  Sum_probs=48.6

Q ss_pred             cCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        445 ALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       445 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      +..++.+++-+..||+...++.|+.|..||+.++||||+++||||+|+|| .|--
T Consensus        59 Vi~~~~~~~~l~~~~~~~gl~~g~~V~~tg~~~~v~vg~~llGRv~d~~G-~plD  112 (438)
T PRK07721         59 VVGFKDEHVLLMPYTEVAEIAPGCLVEATGKPLEVKVGSGLIGQVLDALG-EPLD  112 (438)
T ss_pred             EEEEcCCEEEEEEccCccCCCCCCEEEECCCccEEEechhhcCCEECcCC-CccC
Confidence            45566778889999999999999999999999999999999999999999 6654

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=97.14  E-value=0.00019  Score=78.03  Aligned_cols=56  Identities=38%  Similarity=0.580  Sum_probs=51.2

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      |.++.++.+.+.+++|++-..+..|+.|..||+.++||||+++||||+|++| .| +|
T Consensus        40 geVi~~~~~~v~~~~~~~t~Gl~~g~~V~~tg~~~~vpvg~~lLGRV~d~~G-~P-iD   95 (436)
T PRK02118         40 AQVIRLDGDKVTLQVFGGTRGISTGDEVVFLGRPMQVTYSESLLGRRFNGSG-KP-ID   95 (436)
T ss_pred             EEEEEEcCCEEEEEEecCCcCCCCCCEEEeCCCceEEEcCccccCCEEccCC-cc-cC
Confidence            4556788999999999999999999999999999999999999999999999 55 44

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=97.13  E-value=0.00043  Score=75.83  Aligned_cols=57  Identities=35%  Similarity=0.555  Sum_probs=51.1

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .+..+++.+.+....|++...++.|+.|..||+.+.||||+++||||+|++| .|--+
T Consensus        42 eVv~~~~~~~v~l~~l~~~~gi~~G~~V~~t~~~~~i~vg~~lLGRViD~~G-~pid~   98 (461)
T TIGR01039        42 EVAQHLGDDTVRTIAMGSTDGLVRGLEVIDTGAPISVPVGKETLGRIFNVLG-EPIDE   98 (461)
T ss_pred             EeeeeeCCCeEEEEEccCcccCCCCCEEEeCCCceEEEcChhhcCCEEccCC-cccCC
Confidence            4445688889999999999999999999999999999999999999999999 66443

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=97.12  E-value=0.00019  Score=78.21  Aligned_cols=58  Identities=29%  Similarity=0.400  Sum_probs=53.3

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.+++.+..|++-..+..|+.|..||+.+.||||+++||||+|++| .|--+
T Consensus        54 ~~eVv~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGrVid~~G-~pld~  111 (433)
T PRK07594         54 LAEVVGINGSKALLSPFTSTIGLHCGQQVMALRRRHQVPVGEALLGRVIDGFG-RPLDG  111 (433)
T ss_pred             EEEEEEEcCCeEEEEEccCCcCCCCCCEEEeCCCccEEEeChhhccCEEcccC-CCcCC
Confidence            56788899999999999999999999999999999999999999999999999 55543

>TIGR02012 tigrfam_recA protein RecA

Probab=97.11  E-value=0.0012  Score=69.42  Aligned_cols=44  Identities=30%  Similarity=0.423  Sum_probs=37.1

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+.||+..+|.++.   +-+|.=..|+|++|+|||+|++..+.+.
T Consensus        33 ~~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~   79 (321)
T TIGR02012        33 VETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEA   79 (321)
T ss_pred             CceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4568899999999987   5577888999999999999997655544

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.10  E-value=0.0032  Score=61.33  Aligned_cols=40  Identities=35%  Similarity=0.548  Sum_probs=34.1

Q ss_pred             ccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        190 LSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       190 l~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.||+..+|-++-  +-+|+-..|.|++|+|||++++..+.+
T Consensus         1 i~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~   42 (226)
T cd01393           1 ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVE   42 (226)
T ss_pred             CCCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHH
Confidence            4699999999884  778999999999999999999654443

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK09354 recA recombinase A; Provisional

Probab=97.10  E-value=0.0012  Score=70.15  Aligned_cols=111  Identities=23%  Similarity=0.329  Sum_probs=72.3

Q ss_pred             cccccccceeeeeeeec---cccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhh
Q psy13776        187 YNLLSAGIKAVDSLVPI---GRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALII  263 (539)
Q Consensus       187 ~epl~TGIraID~l~pI---GrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i  263 (539)
                      .+.+.||+..+|.++.+   -+|.=..|+|++|+|||+|++..+.+....                              
T Consensus        38 ~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~------------------------------   87 (349)
T PRK09354         38 VEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKA------------------------------   87 (349)
T ss_pred             CceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc------------------------------
Confidence            56788999999999984   456677899999999999998766654321                              


Q ss_pred             hhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCC-CceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH
Q psy13776        264 YDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGA-MGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD  342 (539)
Q Consensus       264 ~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~-~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd  342 (539)
                                       +-.|+|+..=+..+.  ++.+.+   |. +++ ++++ ..+  ..++      ++.+.+.+..
T Consensus        88 -----------------G~~~~yId~E~s~~~--~~a~~l---Gvdld~-lli~-qp~--~~Eq------~l~i~~~li~  135 (349)
T PRK09354         88 -----------------GGTAAFIDAEHALDP--VYAKKL---GVDIDN-LLVS-QPD--TGEQ------ALEIADTLVR  135 (349)
T ss_pred             -----------------CCcEEEECCccchHH--HHHHHc---CCCHHH-eEEe-cCC--CHHH------HHHHHHHHhh
Confidence                             124666654333332  233333   21 233 3332 222  1333      4667777777


Q ss_pred             CCCcEEEEecChhHHHH
Q psy13776        343 NGKHALIIYDDLSKQAV  359 (539)
Q Consensus       343 ~GkdVLli~DslTr~A~  359 (539)
                      .+.--+||+||++-+..
T Consensus       136 s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        136 SGAVDLIVVDSVAALVP  152 (349)
T ss_pred             cCCCCEEEEeChhhhcc
Confidence            78888999999998764

>PRK06315 type III secretion system ATPase; Provisional

Probab=97.09  E-value=0.00021  Score=77.97  Aligned_cols=56  Identities=25%  Similarity=0.356  Sum_probs=51.3

Q ss_pred             CcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       444 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      -+.+++.+++.+..+++...+..|+.|..||+.+.||||+++||||+|++| .|--+
T Consensus        61 eVv~~~~~~~~l~~~~~~~gi~~g~~V~~~g~~~~v~vg~~llGrv~d~~G-~pld~  116 (442)
T PRK06315         61 EVVGFTQNFVFLSPLGELTGVSPSSEVIPTGLPLHIRAGNGLLGRVLNGLG-EPIDT  116 (442)
T ss_pred             EEEEEcCCeEEEEEccCCcCCCCCCEEEeCCCccEEEecccccCCEEeccC-ccccc
Confidence            456788899999999999999999999999999999999999999999999 66654

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=97.08  E-value=0.00023  Score=77.18  Aligned_cols=57  Identities=35%  Similarity=0.559  Sum_probs=51.3

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      +.++.++.+++.+..||+-..++.|+.|..||+.++||||+++||||+|++| .|--+
T Consensus        36 ~eVi~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~vpvg~~lLGRVid~~G-~plD~   92 (413)
T TIGR03497        36 AEVVGFKEENVLLMPLGEVEGIGPGSLVIATGRPLAIKVGKGLLGRVLDGLG-RPLDG   92 (413)
T ss_pred             EEEEEEcCCeEEEEEccCccCCCCCCEEEEcCCeeEEEcchhhcCCEEcCCC-CcccC
Confidence            3566778889999999999999999999999999999999999999999999 55543

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.07  E-value=0.0018  Score=63.47  Aligned_cols=40  Identities=35%  Similarity=0.503  Sum_probs=34.4

Q ss_pred             ccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        190 LSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       190 l~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.||++.+|-++.  +-+|....|.|++|+|||++++..+++
T Consensus         1 ~~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~   42 (235)
T cd01123           1 LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVT   42 (235)
T ss_pred             CCCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4699999999986  779999999999999999999654443

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.07  E-value=0.0022  Score=62.79  Aligned_cols=44  Identities=27%  Similarity=0.431  Sum_probs=36.7

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ++.+.||+..+|-++  .+-+|.=..|.|++|+|||++++....+.
T Consensus         2 ~~~i~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~   47 (225)
T PRK09361          2 DERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEA   47 (225)
T ss_pred             CccccCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            567899999999999  45678888999999999999997554443

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.00  E-value=0.0013  Score=69.37  Aligned_cols=45  Identities=24%  Similarity=0.396  Sum_probs=37.4

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.+.||+..+|.++.   +-+|-=..|+|++|+|||+|++..+.+..
T Consensus        33 ~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~   80 (325)
T cd00983          33 VEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQ   80 (325)
T ss_pred             CceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            5678999999999988   44677779999999999999986666543

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=96.97  E-value=0.00036  Score=76.30  Aligned_cols=57  Identities=21%  Similarity=0.360  Sum_probs=50.9

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .+..+++.+.+..+.||.-..++.|+.|..||+.+.||||+++||||+|++| .|--+
T Consensus        37 EVv~~l~~~~v~l~~l~~t~Gi~~G~~V~~tg~~~~VpVg~~lLGRVlD~~G-~PiD~   93 (449)
T TIGR03305        37 EVLSQLDAHHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLSRMFDVFG-NTIDR   93 (449)
T ss_pred             eeeeEecCCeEEEEEccCcccCCCCCEEEecCCceEEEcChhhcCCEEccCc-cccCC
Confidence            3444688889999999999999999999999999999999999999999999 66543

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK05922 type III secretion system ATPase; Validated

Probab=96.96  E-value=0.00032  Score=76.46  Aligned_cols=57  Identities=18%  Similarity=0.247  Sum_probs=52.8

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|.++.++.+++.+.++++...+..||.|..||+.++||||+++||||+|++| +|--
T Consensus        55 ~~eVv~~~~~~~~l~~~~~~~gi~~G~~V~~~~~~~~v~vg~~llGrv~d~~G-~pld  111 (434)
T PRK05922         55 LAEVIGFHNRTTLLMSLSPIHYVALGAEVLPLRRPPSLHLSDHLLGRVLDGFG-NPLD  111 (434)
T ss_pred             EEEEEEEeCCeEEEEEccCCCCCCCCCEEEeCCCCcEEEcChhhcCCEeCCCC-CccC
Confidence            45778899999999999999999999999999999999999999999999999 6644

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=96.95  E-value=0.00033  Score=78.49  Aligned_cols=59  Identities=32%  Similarity=0.459  Sum_probs=55.1

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINV  501 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v  501 (539)
                      .|-+++++.|++.+.++++..-++.|+.|..||+.+.||+|.++||||+|++| +|--+.
T Consensus        34 ~gEVi~~~~d~a~iqvye~t~Gl~~G~~V~~tg~plsV~lGpglLGrV~Dgig-rPLd~~   92 (578)
T TIGR01043        34 IGEIIRIEGDKAFIQVYEETSGIKPGEPVVGTGAPLSVELGPGLLGSIYDGVQ-RPLDVL   92 (578)
T ss_pred             EEEEEEEcCCeEEEEECCCCCCCCCCCEEEECCCccEEEcCHHHhcceeccCC-ccccCc
Confidence            46788999999999999999999999999999999999999999999999999 887655

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.94  E-value=0.01  Score=57.28  Aligned_cols=28  Identities=29%  Similarity=0.440  Sum_probs=22.4

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-+|+=..|.|++|+|||++++....+.
T Consensus         9 i~~g~i~~i~G~~GsGKT~l~~~~~~~~   36 (209)
T TIGR02237         9 VERGTITQIYGPPGSGKTNICMILAVNA   36 (209)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3468889999999999999997554443

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=96.94  E-value=0.0094  Score=65.93  Aligned_cols=44  Identities=30%  Similarity=0.542  Sum_probs=37.0

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+.|||..+|-++  -+-+|+-.+|.|++|+|||++++..+.+.
T Consensus        10 ~~ri~TGI~~LD~~l~GG~p~Gs~~li~G~pGsGKT~l~~qf~~~~   55 (509)
T PRK09302         10 IEKLPTGIEGFDDITHGGLPKGRPTLVSGTAGTGKTLFALQFLVNG   55 (509)
T ss_pred             CccccCCchhHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            457789999999997  37799999999999999999996544433

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.92  E-value=0.018  Score=57.57  Aligned_cols=37  Identities=27%  Similarity=0.286  Sum_probs=27.3

Q ss_pred             ccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        192 AGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       192 TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +++.-+|-++.  +-+|...+|.|++|+|||++++..+.
T Consensus         8 ~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~   46 (230)
T PRK08533          8 LSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAY   46 (230)
T ss_pred             EEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            44455555543  56789999999999999999865444

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=96.91  E-value=0.00043  Score=75.94  Aligned_cols=56  Identities=34%  Similarity=0.514  Sum_probs=49.8

Q ss_pred             CcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       444 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      +.-+++.+.+....+++-..++.|+.|..||+.++||||+++||||+|++| +|--+
T Consensus        44 Vv~~~~~~~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~lLGRViD~~G-~pld~   99 (463)
T PRK09280         44 VAQHLGDGVVRTIAMGSTDGLVRGMEVIDTGAPISVPVGKATLGRIFNVLG-EPIDE   99 (463)
T ss_pred             eeEEecCCeEEEEEecCccCCCCCCEEEeCCCceEEEcChhhcCCEEeeec-cccCC
Confidence            333577888999999999999999999999999999999999999999999 66544

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=96.84  E-value=0.014  Score=64.40  Aligned_cols=42  Identities=26%  Similarity=0.405  Sum_probs=36.2

Q ss_pred             cccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        189 LLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       189 pl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.|||.-.|-++.  +-+|.-.+|.|++|+|||++++..+.+.
T Consensus         2 r~~TGI~gLD~il~GGlp~g~~~Li~G~pGsGKT~la~qfl~~g   45 (484)
T TIGR02655         2 KIRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNG   45 (484)
T ss_pred             cCCCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHH
Confidence            46899999999986  6699999999999999999997555544

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=96.83  E-value=0.00013  Score=75.11  Aligned_cols=47  Identities=26%  Similarity=0.399  Sum_probs=42.1

Q ss_pred             HhhhhccccccccccccCCCcccccccc-CcchhhhhhhhhhHHHHhhh
Q psy13776        229 NQKSIYAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       229 nq~~~~~~~~~~la~~~g~~~~e~~~d~-~~~~~~i~d~~~~~a~~~~~  276 (539)
                      ++.+ +++..+++|+|++++|||||+|+ |+|+|+++||++++|.+++.
T Consensus       137 ~t~~-~~~~~r~~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~A~A~rE  184 (276)
T cd01135         137 NLAN-DPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALRE  184 (276)
T ss_pred             ecCC-CCHHHHHHHHHHHHHHHHHHHhccCCeEEEEEcChhHHHHHHHH
Confidence            4443 67889999999999999999998 99999999999999999764

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=96.82  E-value=0.00062  Score=74.74  Aligned_cols=51  Identities=39%  Similarity=0.728  Sum_probs=46.7

Q ss_pred             CCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       448 l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      |+.+.+....|++-..++.|+.|..||+.+.||||+++||||+|++| .|--
T Consensus        47 l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~llGRVid~~G-~plD   97 (461)
T PRK12597         47 LDETTVRAIALGSTSGLARGDEVRNTGGPIEVPVGEAVLGRLLDVLG-EPLD   97 (461)
T ss_pred             cCCCeEEEEEecCccCCCCCCEEEeCCCceEEEcChhhcCCEEeecc-cccc
Confidence            36778999999999999999999999999999999999999999999 5544

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=96.80  E-value=0.00054  Score=74.75  Aligned_cols=91  Identities=24%  Similarity=0.337  Sum_probs=61.9

Q ss_pred             CccceeeeEEEeeCCCcCCcccccccccc-ceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeec
Q psy13776        401 GGSLTALPVIETQAGDVSAYIPTNVISIT-DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDV  479 (539)
Q Consensus       401 ~GSITal~~v~~~~~D~s~pIp~~~~sit-DGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~  479 (539)
                      .|-++.+--..++..-...++-+.+.--. |+++        .+-+..++.+.+-+..+++-..++.|+.|+.||+.+.|
T Consensus        26 ~G~v~~v~g~~i~~~g~~~~ige~~~i~~~~~~~--------~~EVv~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v   97 (444)
T PRK08972         26 SGKLVRVVGLTLEATGCRAPVGSLCSIETMAGEL--------EAEVVGFDGDLLYLMPIEELRGVLPGARVTPLGEQSGL   97 (444)
T ss_pred             eeEEEEEEcCEEEEeeCCCCCCCEEEEecCCCcE--------EEEEEEecCCEEEEEECCCcCCCCCCCEEEECCCccEE
Confidence            45666555444443334455555443211 2321        11234556667777788888899999999999999999


Q ss_pred             ccccccchhhccccCCCcccc
Q psy13776        480 PVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       480 ~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      |||+++||||+|++| .|--+
T Consensus        98 ~vg~~llGRVid~~G-~plD~  117 (444)
T PRK08972         98 PVGMSLLGRVIDGVG-NPLDG  117 (444)
T ss_pred             EcChhhcCCeECCCC-CCcCC
Confidence            999999999999999 66543

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=96.79  E-value=0.00055  Score=74.76  Aligned_cols=55  Identities=27%  Similarity=0.334  Sum_probs=49.3

Q ss_pred             CcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       444 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .+..++.+.+-+.+|++...+..|+.|..||+.++||||+++||||+|++| .|--
T Consensus        57 eVv~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRVid~~G-~piD  111 (442)
T PRK08927         57 EVVGFRGDRALLMPFGPLEGVRRGCRAVIANAAAAVRPSRAWLGRVVNALG-EPID  111 (442)
T ss_pred             EEEEEcCCeEEEEEccCccCCCCCCEEEeCCCccEEECChhhCCCEEccCC-CCcc
Confidence            455667778889999999999999999999999999999999999999999 5543

>PRK06936 type III secretion system ATPase; Provisional

Probab=96.70  E-value=0.00076  Score=73.63  Aligned_cols=52  Identities=35%  Similarity=0.476  Sum_probs=44.1

Q ss_pred             CCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       448 l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      ++.+.+=+.++++-..+..|+.|..||+.+.||||+++||||+|++| +|--+
T Consensus        66 ~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~lLGRV~d~~G-~plD~  117 (439)
T PRK06936         66 FAQHQALLTPLGEMYGISSNTEVSPTGTMHQVGVGEHLLGRVLDGLG-QPFDG  117 (439)
T ss_pred             EECCeEEEEecCCCCCCCCCCEEEeCCCceEEEeCccccCCEECCCC-CccCC
Confidence            33444455588999999999999999999999999999999999999 66543

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.68  E-value=0.0054  Score=64.24  Aligned_cols=43  Identities=21%  Similarity=0.305  Sum_probs=35.8

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||++.+|.++-  +-+|.=..|+|++|+|||++++...++
T Consensus        75 ~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~  119 (313)
T TIGR02238        75 VLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVT  119 (313)
T ss_pred             CceeCCCCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            4568899999999975  667888899999999999999755543

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=96.67  E-value=0.00073  Score=75.66  Aligned_cols=60  Identities=30%  Similarity=0.515  Sum_probs=55.5

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVG  502 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~  502 (539)
                      .|-+..++.+.+.+.++++-..++.|+.|.+||+.+.||+|.++||||+|++| +|--+..
T Consensus        35 ~gEVI~l~~d~a~iq~ye~t~Gl~~G~~V~~tg~~lsv~lGpglLG~V~Dgig-rPLd~~~   94 (591)
T TIGR01042        35 VGEIIRLEGDKATIQVYEETSGLTVGDPVLRTGKPLSVELGPGILGNIFDGIQ-RPLKAIA   94 (591)
T ss_pred             EEEEEEEcCCeEEEEEccCccCCCCCCEEEeCCCccEEEcCHHHhhcccCcCC-CchHHHH
Confidence            46778899999999999999999999999999999999999999999999999 8876654

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK08149 ATP synthase SpaL; Validated

Probab=96.67  E-value=0.00071  Score=73.67  Aligned_cols=57  Identities=26%  Similarity=0.396  Sum_probs=51.8

Q ss_pred             CcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccc
Q psy13776        444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINV  501 (539)
Q Consensus       444 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v  501 (539)
                      -.+.++.+++.+..|++..-+..|+.|..||+.++||||+++||||+|++| +|--+.
T Consensus        47 evv~~~~~~~~l~~~~~~~gi~~g~~v~~~~~~~~v~vg~~llGrv~d~~G-~piD~~  103 (428)
T PRK08149         47 QVVGFQRERTILSLIGNAQGLSRQVVLKPTGKPLSVWVGEALLGAVLDPTG-KIVERF  103 (428)
T ss_pred             EEEEeeCcEEEEEECCCccCCCCCCEEEEcCCcCEEEeChhhcCCeeCCCC-CCcCCC
Confidence            456788899999999999999999999999999999999999999999999 676543

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.65  E-value=0.0092  Score=63.45  Aligned_cols=126  Identities=18%  Similarity=0.182  Sum_probs=74.1

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  264 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~  264 (539)
                      ...+.||++.+|-++.  |-+|.=..|+|++|+|||+|++...++....          .          +         
T Consensus       105 ~~~isTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp----------~----------~---------  155 (344)
T PLN03187        105 VVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLP----------T----------E---------  155 (344)
T ss_pred             CceecCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcc----------h----------h---------
Confidence            5568899999999976  5577788999999999999997555443210          0          0         


Q ss_pred             hhhhhHHHHhhhcccCceEEEEEeecc--chhHHHHHHHHHhc--CCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHH
Q psy13776        265 DDLSKQAVAYRQDEKKKLYCIYVAIGQ--KRSTVAQIVKRLTD--SGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFF  340 (539)
Q Consensus       265 d~~~~~a~~~~~~~~~~~~~Vy~~IGe--r~~ev~e~~~~l~~--~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyF  340 (539)
                                  ....+..++|+-.-+  +.+.+.++.+.+.-  ...+++ +. +....+ ...+....   -.+.+.+
T Consensus       156 ------------~gg~~~~vvyIdTE~tF~peRl~~ia~~~g~d~~~~l~~-I~-~~~~~~-~e~~~~~l---~~l~~~i  217 (344)
T PLN03187        156 ------------MGGGNGKVAYIDTEGTFRPDRIVPIAERFGMDADAVLDN-II-YARAYT-YEHQYNLL---LGLAAKM  217 (344)
T ss_pred             ------------hCCCCceEEEEEcCCCCCHHHHHHHHHHcCCChhhhcCe-EE-EecCCC-HHHHHHHH---HHHHHHH
Confidence                        000123678887755  56666666655421  233455 22 222222 22221111   1233344


Q ss_pred             HHCCCcEEEEecChhHHHHH
Q psy13776        341 RDNGKHALIIYDDLSKQAVA  360 (539)
Q Consensus       341 rd~GkdVLli~DslTr~A~A  360 (539)
                      .+. .-=|||+||++-+-++
T Consensus       218 ~~~-~~~LvVIDSital~r~  236 (344)
T PLN03187        218 AEE-PFRLLIVDSVIALFRV  236 (344)
T ss_pred             Hhc-CCCEEEEeCcHHhhhc
Confidence            443 3457899999988553

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=96.64  E-value=0.0016  Score=71.25  Aligned_cols=56  Identities=34%  Similarity=0.471  Sum_probs=50.4

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|.+++++.+++.+.+||+...|+.|+.|..++ -+.||||+++||||+|++| .|--
T Consensus        63 ~~eVv~~~~~~~~l~~~~~~~gi~~g~~v~~~~-~~~v~vg~~llGRV~d~~G-~piD  118 (450)
T PRK06002         63 LGEVVRVDPDGVTVKPFEPRIEIGLGDAVFRKG-PLRIRPDPSWKGRVINALG-EPID  118 (450)
T ss_pred             EEEEEEEeCCeEEEEEccCCcCCCCCCEEEeCC-CceeecCcccccCEECCCC-cCCC
Confidence            457889999999999999999999999999955 6799999999999999999 6643

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=96.61  E-value=0.054  Score=50.78  Aligned_cols=71  Identities=21%  Similarity=0.188  Sum_probs=38.4

Q ss_pred             CcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccc
Q psy13776        345 KHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTN  424 (539)
Q Consensus       345 kdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~  424 (539)
                      +.-++|+|+++.+...        .+        ...-..+.+++....+      .| +|.+.+.......-....+..
T Consensus        95 ~~~~lviD~~~~~~~~--------~~--------~~~~~~i~~l~~~l~~------~g-~tvi~v~~~~~~~~~~~~~~~  151 (187)
T cd01124          95 KAKRVVIDSVSGLLLM--------EQ--------STARLEIRRLLFALKR------FG-VTTLLTSEQSGLEGTGFGGGD  151 (187)
T ss_pred             CCCEEEEeCcHHHhhc--------Ch--------HHHHHHHHHHHHHHHH------CC-CEEEEEeccccCCCcccCcCc
Confidence            4458899999987652        00        0111223445544433      12 465555433322111223456


Q ss_pred             cccccceeEEeehh
Q psy13776        425 VISITDGQIFLETE  438 (539)
Q Consensus       425 ~~sitDGqIvLsr~  438 (539)
                      +..+.|+-|.|++.
T Consensus       152 ~~~~aD~ii~l~~~  165 (187)
T cd01124         152 VEYLVDGVIRLRLD  165 (187)
T ss_pred             eeEeeeEEEEEEEE
Confidence            78899999999877

A related protein is found in archaea.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.48  E-value=0.033  Score=54.54  Aligned_cols=37  Identities=27%  Similarity=0.553  Sum_probs=29.0

Q ss_pred             cceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        193 GIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       193 GIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ||+.+|-++.  +-+|.-.+|.|++|+|||++++..+.+
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~   39 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQ   39 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5667777763  447899999999999999999755544

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.41  E-value=0.008  Score=69.93  Aligned_cols=45  Identities=27%  Similarity=0.457  Sum_probs=37.9

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.+.||+..+|.++.   +-+|.-..|+|++|+|||+|++..+++..
T Consensus        38 v~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~   85 (790)
T PRK09519         38 ISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ   85 (790)
T ss_pred             CceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4578899999999987   55788889999999999999976666543

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=96.36  E-value=0.0018  Score=70.68  Aligned_cols=54  Identities=22%  Similarity=0.348  Sum_probs=45.6

Q ss_pred             CCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        446 LNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       446 ~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .-++.+.+=+-+|++-..+..|+.|..||+.+.||||+++||||+|++| .|--+
T Consensus        57 v~~~~~~~~l~~~~~~~gi~~g~~v~~~~~~~~v~vg~~llGrv~d~~G-~pld~  110 (434)
T PRK07196         57 VGFDRDITYLMPFKHPGGVLGGARVFPSEQDGELLIGDSWLGRVINGLG-EPLDG  110 (434)
T ss_pred             EEecCCEEEEEECCCccCCCCCCEEEECCCccEEEcCccccCCeeCcCC-CCcCC
Confidence            3445566666778888889999999999999999999999999999999 56543

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.35  E-value=0.013  Score=61.10  Aligned_cols=43  Identities=23%  Similarity=0.340  Sum_probs=35.2

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||+..+|-++.  +-+|.-..|+|++|+|||++++..+.+
T Consensus        81 ~~~~~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~  125 (317)
T PRK04301         81 VGKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVN  125 (317)
T ss_pred             CCccCCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            3457789999998875  668899999999999999999765554

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.21  E-value=0.099  Score=52.48  Aligned_cols=43  Identities=12%  Similarity=0.200  Sum_probs=35.3

Q ss_pred             cccccccceeeeeee-eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV-PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~-pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ++-+.||+..+|-++ -+.+|+-..|.|++|+|||+++.....+
T Consensus        10 ~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~   53 (271)
T cd01122          10 NEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALD   53 (271)
T ss_pred             ccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            557789999999985 3668888999999999999999654444

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=96.20  E-value=0.0066  Score=66.64  Aligned_cols=55  Identities=24%  Similarity=0.339  Sum_probs=46.2

Q ss_pred             cCCCCCCCcccEEecccccccccceeeec-------cceeecccccccchhhccccCCCcccc
Q psy13776        445 ALNLEPDNVGVVVFGNDRLIKEGDIVKRT-------GAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       445 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~t-------~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      +..++.+.+=...||+-.-+..|+.|..|       |+.+.||||+++||||+|++| .|--+
T Consensus        69 Vvg~~~~~~~l~~~~~~~gi~~g~~v~~~~~~~~~~~~~~~v~vg~~llGRvid~~G-~piDg  130 (455)
T PRK07960         69 VVGFNGQRLFLMPLEEVEGILPGARVYARNISGEGLQSGKQLPLGPALLGRVLDGSG-KPLDG  130 (455)
T ss_pred             EEEecCCEEEEEECCCccCCCCCCEEEECCcccccCCCceEEECCcccccCEECCCc-cccCC
Confidence            34455666666778888889999999999       999999999999999999999 66544

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=96.17  E-value=0.0023  Score=71.94  Aligned_cols=60  Identities=30%  Similarity=0.497  Sum_probs=55.0

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVG  502 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~  502 (539)
                      .|-...++.+++-+.++++-+.+..|+.|..||+.+.||+|+++||||+|++| +|--+..
T Consensus        37 ~gEVi~~~~d~a~iqv~e~T~Gl~~G~~V~~tg~plsv~lGpglLGrv~Dg~g-rPLd~~~   96 (586)
T PRK04192         37 IGEIIRIEGDKATIQVYEETSGIKPGEPVEFTGEPLSVELGPGLLGSIFDGIQ-RPLDELA   96 (586)
T ss_pred             EEEEEEEeCCceEEEEecCCcCCCCCCEEEeCCCccEEEcCHHhcCCeecCCC-Ccccccc
Confidence            45678899999999999999999999999999999999999999999999999 8876554

>TIGR00416 sms DNA repair protein RadA

Probab=96.15  E-value=0.051  Score=59.83  Aligned_cols=42  Identities=29%  Similarity=0.370  Sum_probs=36.1

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+.+.|||.-+|-++  -+-+|+-.+|.|++|+|||||++....
T Consensus        73 ~~ri~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~  116 (454)
T TIGR00416        73 VPRFSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVAC  116 (454)
T ss_pred             cCccccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            456889999999998  488999999999999999999964333

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=96.10  E-value=0.00067  Score=69.84  Aligned_cols=48  Identities=81%  Similarity=1.268  Sum_probs=42.1

Q ss_pred             HHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhh
Q psy13776        228 INQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       228 ~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~  276 (539)
                      +++.+ +++..+++++|++|+++|+|+|+|+|+|+++||+.++|.+++.
T Consensus       132 ~~t~d-~~~~~r~~a~~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rE  179 (274)
T cd01132         132 AATAS-DPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQ  179 (274)
T ss_pred             EeCCC-CchhHHHHHHHHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHH
Confidence            34443 5778899999999999999999999999999999999999753

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=96.09  E-value=0.023  Score=60.34  Aligned_cols=43  Identities=26%  Similarity=0.400  Sum_probs=34.9

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||++.+|-++.  +-+|.=..|+|++|+|||++++....|
T Consensus       102 ~~~i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~  146 (342)
T PLN03186        102 IIQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVT  146 (342)
T ss_pred             cceeCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHH
Confidence            4568899999999875  556788899999999999999654443

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.91  E-value=0.065  Score=57.57  Aligned_cols=39  Identities=28%  Similarity=0.440  Sum_probs=34.9

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAID  225 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~  225 (539)
                      .+.+.|||.-+|-++.  +-+|+-.+|.|++|+|||+|++.
T Consensus        61 ~~ri~TGi~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq  101 (372)
T cd01121          61 EERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQ  101 (372)
T ss_pred             cCccccCCHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHH
Confidence            5678899999999985  78899999999999999999954

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=95.87  E-value=0.00061  Score=67.78  Aligned_cols=42  Identities=43%  Similarity=0.783  Sum_probs=38.1

Q ss_pred             ccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhh
Q psy13776        234 YAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR  275 (539)
Q Consensus       234 ~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~  275 (539)
                      +++..+++++|++|+++|||+|+|+|+++++||++++|.+++
T Consensus        81 ~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dsltr~a~A~r  122 (215)
T PF00006_consen   81 EPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLTRWAQAYR  122 (215)
T ss_dssp             S-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHHHHHHHHH
T ss_pred             hhHHHHhhhhccchhhhHHHhhcCCceeehhhhhHHHHHHHH
Confidence            466778899999999999999999999999999999999964

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.76  E-value=0.035  Score=58.21  Aligned_cols=42  Identities=33%  Similarity=0.433  Sum_probs=34.2

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ...+.||++.+|.++.  +-+|.=..|.|++|+|||++++....
T Consensus        75 ~~~~~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~  118 (316)
T TIGR02239        75 VIQLTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAV  118 (316)
T ss_pred             cceeCCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHH
Confidence            4458899999999876  45688889999999999999964443

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.68  E-value=0.13  Score=56.41  Aligned_cols=41  Identities=29%  Similarity=0.400  Sum_probs=35.0

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTI  227 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I  227 (539)
                      .+.+.||+.-+|-++.  +-+|+-.+|.|++|+|||+|++...
T Consensus        59 ~~ri~TGi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a  101 (446)
T PRK11823         59 EPRISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVA  101 (446)
T ss_pred             CCcccCCcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHH
Confidence            4568899999999885  6789999999999999999996433

>PTZ00035 Rad51 protein; Provisional

Probab=95.62  E-value=0.033  Score=59.01  Aligned_cols=39  Identities=28%  Similarity=0.407  Sum_probs=33.8

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAID  225 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~  225 (539)
                      ...+.||++.+|.++-  +-+|.-..|+|++|+|||+|++.
T Consensus        97 ~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~  137 (337)
T PTZ00035         97 IIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHT  137 (337)
T ss_pred             CccccCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHH
Confidence            5678899999999984  56788889999999999999953

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=95.32  E-value=0.1  Score=45.14  Aligned_cols=26  Identities=38%  Similarity=0.454  Sum_probs=20.6

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.-+.|.|++|+|||+++ ..++++.
T Consensus        18 ~~~~v~i~G~~G~GKT~l~-~~i~~~~   43 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLA-RAIANEL   43 (151)
T ss_pred             CCCeEEEECCCCCCHHHHH-HHHHHHh
Confidence            3567899999999999998 5666543

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PF13173 AAA_14: AAA domain

Probab=95.24  E-value=0.049  Score=48.91  Aligned_cols=34  Identities=15%  Similarity=0.209  Sum_probs=22.2

Q ss_pred             HHHHHHHC--CCcEEEEecChhHHHHHhHHhhhccC
Q psy13776        336 MGEFFRDN--GKHALIIYDDLSKQAVAYRQMSLLLR  369 (539)
Q Consensus       336 iAEyFrd~--GkdVLli~DslTr~A~A~Reisl~lg  369 (539)
                      +.++|++.  .+..++++|++.+.......+-.+..
T Consensus        50 ~~~~~~~~~~~~~~~i~iDEiq~~~~~~~~lk~l~d   85 (128)
T PF13173_consen   50 LLEYFLELIKPGKKYIFIDEIQYLPDWEDALKFLVD   85 (128)
T ss_pred             hHHHHHHhhccCCcEEEEehhhhhccHHHHHHHHHH
Confidence            55666654  46688899999888655555544444

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=95.19  E-value=0.0018  Score=66.74  Aligned_cols=43  Identities=23%  Similarity=0.407  Sum_probs=39.9

Q ss_pred             ccccccccccccCCCcccccccc-CcchhhhhhhhhhHHHHhhh
Q psy13776        234 YAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       234 ~~~~~~~la~~~g~~~~e~~~d~-~~~~~~i~d~~~~~a~~~~~  276 (539)
                      +++..+++++|+++++||||+|. |+|+|+++||+.++|.|++.
T Consensus       138 ~~~~~r~~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr~a~A~re  181 (274)
T cd01133         138 EPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSE  181 (274)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeChhHHHHHHHH
Confidence            56788899999999999999999 99999999999999999864

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=95.08  E-value=0.0025  Score=67.95  Aligned_cols=76  Identities=22%  Similarity=0.413  Sum_probs=60.4

Q ss_pred             HHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcC
Q psy13776        227 IINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDS  306 (539)
Q Consensus       227 I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~  306 (539)
                      ++|+.+ .++..+++++|+++++||||+|.|+|+++++|+++++|.|++                   |+.         
T Consensus       224 V~nts~-~p~~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~R-------------------EIs---------  274 (369)
T cd01134         224 IANTSN-MPVAAREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALR-------------------EIS---------  274 (369)
T ss_pred             EEECCC-CCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHH-------------------HHH---------
Confidence            445554 577889999999999999999999999999999999999963                   221         


Q ss_pred             CCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHH
Q psy13776        307 GAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR  341 (539)
Q Consensus       307 ~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFr  341 (539)
                                ....++|..+-.-||....+|+++=
T Consensus       275 ----------~~l~E~P~~~GYP~yl~s~La~~yE  299 (369)
T cd01134         275 ----------GRLEEMPGEEGYPAYLGARLASFYE  299 (369)
T ss_pred             ----------HhcCCCCCccCcCccHHHHHHHHHH
Confidence                      1234677777677799999988773

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=95.05  E-value=0.044  Score=57.85  Aligned_cols=110  Identities=20%  Similarity=0.319  Sum_probs=66.4

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALII  263 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i  263 (539)
                      .+.+.||..++|..++   +-+|.=+-|+|++++|||+|++..+.+....                              
T Consensus        31 ~~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~------------------------------   80 (322)
T PF00154_consen   31 IEVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQ------------------------------   80 (322)
T ss_dssp             S-EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT------------------------------
T ss_pred             cceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcc------------------------------
Confidence            5678999999999987   3356677899999999999998777753221                              


Q ss_pred             hhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCC-CceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH
Q psy13776        264 YDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGA-MGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD  342 (539)
Q Consensus       264 ~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~-~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd  342 (539)
                                       +-+|+|+-. |..- -.++.+.+   |. +++. +|+-+ +  ..      .-|+.++|.+..
T Consensus        81 -----------------g~~~a~ID~-e~~l-d~~~a~~l---Gvdl~rl-lv~~P-~--~~------E~al~~~e~lir  128 (322)
T PF00154_consen   81 -----------------GGICAFIDA-EHAL-DPEYAESL---GVDLDRL-LVVQP-D--TG------EQALWIAEQLIR  128 (322)
T ss_dssp             -----------------T-EEEEEES-SS----HHHHHHT---T--GGGE-EEEE--S--SH------HHHHHHHHHHHH
T ss_pred             -----------------cceeEEecC-cccc-hhhHHHhc---Cccccce-EEecC-C--cH------HHHHHHHHHHhh
Confidence                             236777754 2221 22344443   22 4554 33332 2  12      246788899888


Q ss_pred             CCCcEEEEecChhHHH
Q psy13776        343 NGKHALIIYDDLSKQA  358 (539)
Q Consensus       343 ~GkdVLli~DslTr~A  358 (539)
                      .|.-.++|+||+...+
T Consensus       129 sg~~~lVVvDSv~al~  144 (322)
T PF00154_consen  129 SGAVDLVVVDSVAALV  144 (322)
T ss_dssp             TTSESEEEEE-CTT-B
T ss_pred             cccccEEEEecCcccC
Confidence            8887789999986553

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=95.01  E-value=0.049  Score=54.98  Aligned_cols=22  Identities=41%  Similarity=0.456  Sum_probs=17.6

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++++||+|+|||||| ..|+|..
T Consensus        53 ~lf~GPPG~GKTTLA-~IIA~e~   74 (233)
T PF05496_consen   53 MLFYGPPGLGKTTLA-RIIANEL   74 (233)
T ss_dssp             EEEESSTTSSHHHHH-HHHHHHC
T ss_pred             EEEECCCccchhHHH-HHHHhcc
Confidence            468999999999998 5566554

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PF05729 NACHT: NACHT domain

Probab=94.99  E-value=0.099  Score=47.30  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=17.8

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.|.|++|+|||+++ ..++.+-
T Consensus         3 l~I~G~~G~GKStll-~~~~~~~   24 (166)
T PF05729_consen    3 LWISGEPGSGKSTLL-RKLAQQL   24 (166)
T ss_pred             EEEECCCCCChHHHH-HHHHHHH
Confidence            579999999999998 5666544

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.95  E-value=0.073  Score=54.15  Aligned_cols=43  Identities=33%  Similarity=0.579  Sum_probs=33.1

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||++.+|.++-  |-.|+=.=|+|++|+|||.|++...+|
T Consensus        17 ~~~i~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~   61 (256)
T PF08423_consen   17 WSRISTGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVN   61 (256)
T ss_dssp             S-EE--SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeeCCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHH
Confidence            5678999999999983  556778889999999999999755454

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=94.89  E-value=0.022  Score=61.72  Aligned_cols=58  Identities=36%  Similarity=0.594  Sum_probs=44.7

Q ss_pred             ccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        422 PTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       422 p~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      -.+|.++.+.+.+|..                    |+....+..|+.|..||.-++||+|+++||||+|++| .|--.
T Consensus        61 ~aEVvgf~~~~~~L~p--------------------~~~~~gv~~g~~V~~~~~~~~v~~g~~lLGRVld~~G-~plDg  118 (441)
T COG1157          61 LAEVVGFNEERVLLMP--------------------FEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLG-RPLDG  118 (441)
T ss_pred             eEEEEEEcCCeEEEec--------------------cCccccCCCCCEEEecCCccccccChhhhhhhhccCC-CcCcC
Confidence            4556666666666544                    2344558899999999999999999999999999999 55443

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=94.74  E-value=0.12  Score=49.60  Aligned_cols=62  Identities=11%  Similarity=0.155  Sum_probs=36.9

Q ss_pred             EEEEeeccc-hhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcEEEEecChhHHHHHh
Q psy13776        284 CIYVAIGQK-RSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAY  361 (539)
Q Consensus       284 ~Vy~~IGer-~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdVLli~DslTr~A~A~  361 (539)
                      ++|++..+. ..|+++-++..++.-..+.+++                ....-+.+.+.+. +.+ .+++|++|-|....
T Consensus        27 ~~y~at~~~~d~em~~rI~~H~~~R~~~w~t~----------------E~~~~l~~~l~~~~~~~-~VLIDclt~~~~n~   89 (169)
T cd00544          27 VTYIATAEAFDDEMAERIARHRKRRPAHWRTI----------------ETPRDLVSALKELDPGD-VVLIDCLTLWVTNL   89 (169)
T ss_pred             eEEEEccCcCCHHHHHHHHHHHHhCCCCceEe----------------ecHHHHHHHHHhcCCCC-EEEEEcHhHHHHHh
Confidence            566666654 4567777666655333332222                2223455556554 444 69999999998876


Q ss_pred             H
Q psy13776        362 R  362 (539)
Q Consensus       362 R  362 (539)
                      .
T Consensus        90 l   90 (169)
T cd00544          90 L   90 (169)
T ss_pred             C
Confidence            5

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=94.51  E-value=0.079  Score=57.39  Aligned_cols=29  Identities=14%  Similarity=0.207  Sum_probs=25.2

Q ss_pred             HHHHHHHCCCcEEEEecChhHHHHHhHHh
Q psy13776        336 MGEFFRDNGKHALIIYDDLSKQAVAYRQM  364 (539)
Q Consensus       336 iAEyFrd~GkdVLli~DslTr~A~A~Rei  364 (539)
                      -|+.++..|+.+++++|.+-||-.++.+.
T Consensus        95 ~a~~~~~~gr~tiLflDEIHRfnK~QQD~  123 (436)
T COG2256          95 EARKNRLLGRRTILFLDEIHRFNKAQQDA  123 (436)
T ss_pred             HHHHHHhcCCceEEEEehhhhcChhhhhh
Confidence            46667888999999999999999999775

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.43  E-value=0.18  Score=47.57  Aligned_cols=27  Identities=37%  Similarity=0.495  Sum_probs=22.3

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+|+-..|.|++|+|||+++++.+...
T Consensus        30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~   56 (193)
T PF13481_consen   30 PRGELTLIAGPPGSGKTTLALQLAAAL   56 (193)
T ss_dssp             -TTSEEEEEECSTSSHHHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            379999999999999999997655543

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=94.35  E-value=0.29  Score=53.26  Aligned_cols=162  Identities=20%  Similarity=0.291  Sum_probs=84.6

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhccc
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEK  279 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~  279 (539)
                      |+....||..+|=|.+|||||+++++ +.|.-+.                     +                        
T Consensus         4 FF~~~~G~TLLIKG~PGTGKTtfaLe-lL~~l~~---------------------~------------------------   37 (484)
T PF07088_consen    4 FFTQEPGQTLLIKGEPGTGKTTFALE-LLNSLKD---------------------H------------------------   37 (484)
T ss_pred             hhcCCCCcEEEEecCCCCCceeeehh-hHHHHhc---------------------c------------------------
Confidence            56778899999999999999999975 3332221                     0                        


Q ss_pred             CceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhh-hhhhhH---HHHHHHHHHH--H-CCCcEEEEec
Q psy13776        280 KKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPL-QYLAPY---SGCAMGEFFR--D-NGKHALIIYD  352 (539)
Q Consensus       280 ~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~-r~~ap~---~a~tiAEyFr--d-~GkdVLli~D  352 (539)
                      .+  ..|+.-=--...|.+..  ...++.++++-++-++-|.--.. ....|+   .--+.=|+|-  + .+++.+|++|
T Consensus        38 ~~--v~YISTRVd~d~vy~~y--~~~~~~i~~~~vlDatQd~~~~~~~~~vp~~~l~~ds~~~f~~~i~~~~k~~iI~~D  113 (484)
T PF07088_consen   38 GN--VMYISTRVDQDTVYEMY--PWIEESIDPTNVLDATQDPFELPLDKDVPFERLDIDSFRDFVDKINEAGKKPIIAFD  113 (484)
T ss_pred             CC--eEEEEeccCHHHHHHhh--hhhccccChhhhhhhccchhhccccccCcccccCHHHHHHHHHHhhhcccCcEEEEe
Confidence            01  23443322233333333  44566777777776665421111 122332   1223333343  2 4999999999


Q ss_pred             ChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccc
Q psy13776        353 DLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI  428 (539)
Q Consensus       353 slTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~si  428 (539)
                      |---..+...+          +..-|+++-...-.|.|=|..       .-+=.+.+.+.-..+-=|||.|-|++.
T Consensus       114 SWdaiieyla~----------~~~~~ed~e~l~~dLv~lard-------~g~~LIlVsEsa~~~~LdYivDGVVTL  172 (484)
T PF07088_consen  114 SWDAIIEYLAE----------EHDEPEDIETLTNDLVELARD-------MGINLILVSESAENEPLDYIVDGVVTL  172 (484)
T ss_pred             cHHHHHHHhhh----------hhcCcHHHHHHHHHHHHHHhh-------cCceEEEEEecCCCCcchheeeeEEEE
Confidence            94333332221          123344433333445443322       223445555554444457777666655

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.29  E-value=0.11  Score=54.03  Aligned_cols=44  Identities=32%  Similarity=0.478  Sum_probs=35.1

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+.+.||.+.+|-++.  +-+|.-.=|||+.++|||++++..++|.
T Consensus        39 ~~~i~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~a   84 (279)
T COG0468          39 IEAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANA   84 (279)
T ss_pred             cccccccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHh
Confidence            6788999999999987  1134455899999999999998666654

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=94.27  E-value=0.13  Score=45.18  Aligned_cols=24  Identities=29%  Similarity=0.350  Sum_probs=16.9

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +-..|.|++|+|||+++ ..++++.
T Consensus         5 ~~~~i~G~~G~GKT~~~-~~~~~~~   28 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLI-KRLARQL   28 (131)
T ss_dssp             --EEEEE-TTSSHHHHH-HHHHHHH
T ss_pred             cccEEEcCCCCCHHHHH-HHHHHHh
Confidence            34578999999999998 6666554

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=94.25  E-value=0.033  Score=53.08  Aligned_cols=29  Identities=21%  Similarity=0.233  Sum_probs=21.7

Q ss_pred             hHHHHHHHHHHHHCCCcEEEEecChhHHH
Q psy13776        330 PYSGCAMGEFFRDNGKHALIIYDDLSKQA  358 (539)
Q Consensus       330 p~~a~tiAEyFrd~GkdVLli~DslTr~A  358 (539)
                      ...-..+.+++..++++++|++|++..++
T Consensus       103 ~~~l~~~~~~l~~~~~~~iiviDe~~~~~  131 (234)
T PF01637_consen  103 FSALERLLEKLKKKGKKVIIVIDEFQYLA  131 (234)
T ss_dssp             G--HHHHHHHHHHCHCCEEEEEETGGGGG
T ss_pred             HHHHHHHHHHHHhcCCcEEEEEecHHHHh
Confidence            34445666777788888999999998887

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=94.21  E-value=0.005  Score=64.97  Aligned_cols=57  Identities=28%  Similarity=0.545  Sum_probs=46.0

Q ss_pred             CCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhh
Q psy13776        215 RQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       215 ~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~  276 (539)
                      .+-.||++    ++++.+ +++..+++++|+++++||||+|.|+|+++++|++.++|.|++.
T Consensus       121 ~~l~rtvv----v~~t~d-~~~~~r~~~~~~a~~~AEyfr~~g~~Vll~~Dsltr~a~A~re  177 (326)
T cd01136         121 EGLKRSVV----VVATSD-ESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFAMAQRE  177 (326)
T ss_pred             CccceEEE----EEcCCC-CCHHHHHHHHHHHHHHHHHHHHcCCCeEEEeccchHHHHHHHH
Confidence            33455554    234443 5778889999999999999999999999999999999999753

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=94.06  E-value=0.35  Score=42.12  Aligned_cols=22  Identities=36%  Similarity=0.409  Sum_probs=18.2

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++|.|++|+|||+++ ..++++.
T Consensus         1 ill~G~~G~GKT~l~-~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLA-RALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHH-HHHHHHT
T ss_pred             CEEECcCCCCeeHHH-HHHHhhc
Confidence            478999999999998 6666554

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=93.93  E-value=0.042  Score=55.88  Aligned_cols=29  Identities=31%  Similarity=0.488  Sum_probs=24.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.|.+|++.+|+|++|+|||||+ -.++
T Consensus        26 VS~~i~~Ge~lgivGeSGsGKSTL~-r~l~   54 (252)
T COG1124          26 VSLEIERGETLGIVGESGSGKSTLA-RLLA   54 (252)
T ss_pred             eeEEecCCCEEEEEcCCCCCHHHHH-HHHh
Confidence            3578999999999999999999998 3443

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=93.93  E-value=0.38  Score=50.92  Aligned_cols=26  Identities=31%  Similarity=0.394  Sum_probs=20.2

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++.+.|.|++|+|||+++ ..++++.
T Consensus        54 ~~~~~lI~G~~GtGKT~l~-~~v~~~l   79 (394)
T PRK00411         54 RPLNVLIYGPPGTGKTTTV-KKVFEEL   79 (394)
T ss_pred             CCCeEEEECCCCCCHHHHH-HHHHHHH
Confidence            4567899999999999998 5555443

>KOG0730|consensus

Probab=93.47  E-value=0.087  Score=59.93  Aligned_cols=113  Identities=22%  Similarity=0.414  Sum_probs=61.0

Q ss_pred             cccceeeeeeeecc--ccceeeeeccCCCCchHhHHHHHHHhhhhccccccccc--------cccCCC---ccccccccC
Q psy13776        191 SAGIKAVDSLVPIG--RGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLA--------PYSGCA---MGEFFRDNG  257 (539)
Q Consensus       191 ~TGIraID~l~pIG--rGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la--------~~~g~~---~~e~~~d~~  257 (539)
                      +-.++.-+.|.=+|  +=-.++..||+|||||++| ..++|+...     ++++        +|.|++   +.+-|.--.
T Consensus       451 ~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lA-kalAne~~~-----nFlsvkgpEL~sk~vGeSEr~ir~iF~kAR  524 (693)
T KOG0730|consen  451 EWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLA-KALANEAGM-----NFLSVKGPELFSKYVGESERAIREVFRKAR  524 (693)
T ss_pred             hhhhhchHHHHHhcCCCCceEEEECCCCcchHHHH-HHHhhhhcC-----CeeeccCHHHHHHhcCchHHHHHHHHHHHh
Confidence            33444445555554  2236789999999999999 889988754     3333        355542   222221100


Q ss_pred             --cchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecC
Q psy13776        258 --KHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATA  319 (539)
Q Consensus       258 --~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~ata  319 (539)
                        .+.++++|++-.-+.. |+.+..         |-..|-+.+++.++.+-+..++.+|++||.
T Consensus       525 ~~aP~IiFfDEiDsi~~~-R~g~~~---------~v~~RVlsqLLtEmDG~e~~k~V~ViAATN  578 (693)
T KOG0730|consen  525 QVAPCIIFFDEIDALAGS-RGGSSS---------GVTDRVLSQLLTEMDGLEALKNVLVIAATN  578 (693)
T ss_pred             hcCCeEEehhhHHhHhhc-cCCCcc---------chHHHHHHHHHHHcccccccCcEEEEeccC
Confidence              1234444444222222 111100         233566777888887777766666666664

>PRK14698 V-type ATP synthase subunit A; Provisional

Probab=93.41  E-value=0.037  Score=66.28  Aligned_cols=55  Identities=29%  Similarity=0.457  Sum_probs=48.0

Q ss_pred             CcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       444 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      -+.-++.+.+=+-++++-..+..|+.|..||+-+.||+|+++||||+|++| +|--
T Consensus        39 EVIg~~~d~a~iq~~e~t~Gl~~G~~V~~tg~~l~V~lG~~LLGRV~DGlG-rPL~   93 (1017)
T PRK14698         39 EIIRLEGDKAVIQVYEETAGLKPGEPVEGTGSSLSVELGPGLLTSIYDGIQ-RPLE   93 (1017)
T ss_pred             EEEEEeCCEEEEEECCCCCCCCCCCEEEEcCCcceeecCHHHhhcccCCCC-ChHH
Confidence            344566777888888999999999999999999999999999999999999 6643

>PRK05973 replicative DNA helicase; Provisional

Probab=93.40  E-value=0.41  Score=48.51  Aligned_cols=30  Identities=20%  Similarity=0.287  Sum_probs=24.5

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -+-+|+-.+|.|.+|+|||++++..+.+..
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a   89 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAM   89 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            556799999999999999999976555443

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=93.03  E-value=0.09  Score=47.12  Aligned_cols=29  Identities=41%  Similarity=0.422  Sum_probs=24.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ..+.+..|+..+|.|++|+|||||+ .++.
T Consensus         8 vsl~i~~ge~v~I~GpSGsGKSTLl-~~l~   36 (107)
T cd00820           8 VLVDVYGKVGVLITGDSGIGKTELA-LELI   36 (107)
T ss_pred             eEEEEcCCEEEEEEcCCCCCHHHHH-HHhh
Confidence            3467888999999999999999998 4443

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK08181 transposase; Validated

Probab=93.03  E-value=0.12  Score=53.24  Aligned_cols=27  Identities=30%  Similarity=0.334  Sum_probs=22.3

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++-+.++|++|||||.|+ ..|.++..
T Consensus       105 ~~~nlll~Gp~GtGKTHLa-~Aia~~a~  131 (269)
T PRK08181        105 KGANLLLFGPPGGGKSHLA-AAIGLALI  131 (269)
T ss_pred             cCceEEEEecCCCcHHHHH-HHHHHHHH
Confidence            6788999999999999999 56666553

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=92.94  E-value=0.091  Score=51.44  Aligned_cols=31  Identities=23%  Similarity=0.321  Sum_probs=26.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+..
T Consensus        19 vsl~i~~Ge~~~i~G~nGsGKSTLl-~~i~G~   49 (227)
T cd03260          19 ISLDIPKGEITALIGPSGCGKSTLL-RLLNRL   49 (227)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            3468889999999999999999998 666643

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=92.94  E-value=0.059  Score=57.93  Aligned_cols=69  Identities=30%  Similarity=0.517  Sum_probs=55.0

Q ss_pred             ccccccccee---EEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        423 TNVISITDGQ---IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       423 ~~~~sitDGq---IvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .|...+.+++   ++|.=+..       |..+.|-.+.|+.-.-+.-|+.|.-||.=..||||+++||||.|.|| -|--
T Consensus        28 ~naL~~~~~~~~~~~leV~q~-------lg~~~VR~Iam~~t~gl~rg~~v~dtg~pi~VPVG~~~lgri~nvlG-~~iD   99 (468)
T COG0055          28 YNALEVQNGNQGTLVLEVAQH-------LGDNVVRTIAMGSTDGLVRGLEVIDTGKPISVPVGKGTLGRIFNVLG-EPID   99 (468)
T ss_pred             hhhheeccCCcceEeeehHHH-------hCCCeEEEEEecCccCcccCcEEecCCCceEEecchhhcccchhccC-Cccc
Confidence            3555555553   67764422       44568889999999999999999999999999999999999999999 4433

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=92.86  E-value=0.095  Score=50.66  Aligned_cols=31  Identities=23%  Similarity=0.350  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        18 ~v~~~i~~G~~~~i~G~nGsGKSTLl-~~l~G   48 (210)
T cd03269          18 DISFSVEKGEIFGLLGPNGAGKTTTI-RMILG   48 (210)
T ss_pred             eeEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            34567889999999999999999998 66663

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=92.81  E-value=1.8  Score=37.60  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=19.9

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++|+|.+|+|||||. ..+.++.
T Consensus         1 ~V~iiG~~~~GKSTli-n~l~~~~   23 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLI-NALTGKK   23 (116)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHTST
T ss_pred             CEEEECCCCCCHHHHH-HHHhccc
Confidence            6899999999999997 8888643

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=92.80  E-value=0.095  Score=50.99  Aligned_cols=30  Identities=27%  Similarity=0.470  Sum_probs=25.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        24 isl~i~~G~~~~i~G~nGsGKSTLl-~~i~G   53 (221)
T TIGR02211        24 VSLSIGKGEIVAIVGSSGSGKSTLL-HLLGG   53 (221)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3477889999999999999999998 66663

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=92.78  E-value=0.092  Score=51.38  Aligned_cols=32  Identities=28%  Similarity=0.416  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+.+||..+|+|++|+|||||+ .+|+..
T Consensus        21 ~isl~i~~G~~~~i~G~nGsGKSTLl-~~l~G~   52 (229)
T cd03254          21 DINFSIKPGETVAIVGPTGAGKTTLI-NLLMRF   52 (229)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            33478889999999999999999998 677643

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.75  E-value=0.087  Score=53.71  Aligned_cols=30  Identities=27%  Similarity=0.406  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+.+.|+|++|||||||+ ..|+
T Consensus        21 ~i~L~v~~GEfvsilGpSGcGKSTLL-riiA   50 (248)
T COG1116          21 DINLSVEKGEFVAILGPSGCGKSTLL-RLIA   50 (248)
T ss_pred             cceeEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34578999999999999999999998 5554

>PRK04296 thymidine kinase; Provisional

Probab=92.75  E-value=0.66  Score=44.85  Aligned_cols=25  Identities=24%  Similarity=0.368  Sum_probs=20.1

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+=..|.|+.|+||||+++..+.+.
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~   26 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNY   26 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHH
Confidence            5567899999999999998766544

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=92.73  E-value=0.096  Score=49.91  Aligned_cols=29  Identities=21%  Similarity=0.294  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        12 sl~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   40 (190)
T TIGR01166        12 NFAAERGEVLALLGANGAGKSTLL-LHLNG   40 (190)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66653

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=92.67  E-value=0.11  Score=49.33  Aligned_cols=29  Identities=24%  Similarity=0.386  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl-~~l~G   48 (178)
T cd03229          20 SLNIEAGEIVALLGPSGSGKSTLL-RCIAG   48 (178)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            477889999999999999999998 66663

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=92.62  E-value=0.1  Score=50.42  Aligned_cols=31  Identities=29%  Similarity=0.461  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        19 ~vs~~i~~G~~~~l~G~nGsGKSTLl-~~l~G   49 (211)
T cd03225          19 DISLTIKKGEFVLIVGPNGSGKSTLL-RLLNG   49 (211)
T ss_pred             ceEEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            33467889999999999999999998 66663

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK06893 DNA replication initiation factor; Validated

Probab=92.61  E-value=0.13  Score=51.12  Aligned_cols=23  Identities=26%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ..|+|++|+|||+|+ ..|+|+..
T Consensus        42 l~l~G~~G~GKThL~-~ai~~~~~   64 (229)
T PRK06893         42 FYIWGGKSSGKSHLL-KAVSNHYL   64 (229)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHHH
Confidence            579999999999998 67887653

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=92.58  E-value=0.1  Score=50.11  Aligned_cols=30  Identities=33%  Similarity=0.482  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ ..|+
T Consensus        16 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   45 (206)
T TIGR03608        16 DLNLTIEKGKMYAIIGESGSGKSTLL-NIIG   45 (206)
T ss_pred             ceEEEEeCCcEEEEECCCCCCHHHHH-HHHh
Confidence            33467889999999999999999998 6665

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=92.55  E-value=0.11  Score=50.20  Aligned_cols=31  Identities=23%  Similarity=0.399  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        19 ~~sl~i~~G~~~~i~G~nGsGKSTLl-~~l~G   49 (214)
T cd03292          19 GINISISAGEFVFLVGPSGAGKSTLL-KLIYK   49 (214)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34577889999999999999999998 66653

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=92.51  E-value=0.11  Score=50.45  Aligned_cols=30  Identities=23%  Similarity=0.393  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        23 ~s~~i~~G~~~~l~G~nGsGKSTLl-~~i~G   52 (218)
T cd03255          23 VSLSIEKGEFVAIVGPSGSGKSTLL-NILGG   52 (218)
T ss_pred             eEEEEcCCCEEEEEcCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66663

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=92.48  E-value=0.11  Score=50.00  Aligned_cols=31  Identities=23%  Similarity=0.233  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|++.+|.|++|+|||||+ .+|+.
T Consensus        19 ~~s~~i~~Ge~~~l~G~nGsGKSTLl-~~i~G   49 (200)
T PRK13540         19 QISFHLPAGGLLHLKGSNGAGKTTLL-KLIAG   49 (200)
T ss_pred             eeeEEECCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34577889999999999999999998 66653

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=92.46  E-value=0.11  Score=50.55  Aligned_cols=29  Identities=28%  Similarity=0.466  Sum_probs=25.0

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        19 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   47 (222)
T cd03224          19 VSLTVPEGEIVALLGRNGAGKTTLL-KTIM   47 (222)
T ss_pred             eeEEEcCCeEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 6555

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=92.45  E-value=0.62  Score=48.67  Aligned_cols=27  Identities=30%  Similarity=0.464  Sum_probs=20.9

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++++.+.|.|++|+|||+++ ..+.++.
T Consensus        38 ~~~~~i~I~G~~GtGKT~l~-~~~~~~l   64 (365)
T TIGR02928        38 SRPSNVFIYGKTGTGKTAVT-KYVMKEL   64 (365)
T ss_pred             CCCCcEEEECCCCCCHHHHH-HHHHHHH
Confidence            34467899999999999998 5566543

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=92.39  E-value=0.11  Score=50.35  Aligned_cols=30  Identities=20%  Similarity=0.419  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   51 (216)
T TIGR00960        22 LNFHITKGEMVFLVGHSGAGKSTFL-KLILG   51 (216)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66663

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=92.38  E-value=0.1  Score=51.46  Aligned_cols=30  Identities=30%  Similarity=0.338  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   50 (243)
T TIGR02315        21 INLNINPGEFVAIIGPSGAGKSTLL-RCINR   50 (243)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66663

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=92.34  E-value=0.11  Score=50.02  Aligned_cols=32  Identities=25%  Similarity=0.282  Sum_probs=26.5

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +++..+.+.+|.+.+|+|++|+|||||+ .+|.
T Consensus        15 ~l~~~~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   46 (177)
T cd03222          15 LLVELGVVKEGEVIGIVGPNGTGKTTAV-KILA   46 (177)
T ss_pred             EEccCcEECCCCEEEEECCCCChHHHHH-HHHH
Confidence            3344468999999999999999999998 6665

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13342 recombination factor protein RarA; Reviewed

Probab=92.34  E-value=0.45  Score=51.48  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=18.2

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ..+++.|++||||||++ ..|++.
T Consensus        37 ~~ilL~GppGtGKTtLA-~~ia~~   59 (413)
T PRK13342         37 SSMILWGPPGTGKTTLA-RIIAGA   59 (413)
T ss_pred             ceEEEECCCCCCHHHHH-HHHHHH
Confidence            36789999999999998 455543

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=92.32  E-value=0.12  Score=51.23  Aligned_cols=31  Identities=29%  Similarity=0.403  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   50 (239)
T cd03296          20 DVSLDIPSGELVALLGPSGSGKTTLL-RLIAG   50 (239)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34578889999999999999999998 66664

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=92.30  E-value=0.12  Score=51.25  Aligned_cols=29  Identities=17%  Similarity=0.343  Sum_probs=25.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        21 vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   49 (242)
T PRK11124         21 ITLDCPQGETLVLLGPSGAGKSSLL-RVLN   49 (242)
T ss_pred             eeeEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3477889999999999999999998 6665

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=92.30  E-value=0.12  Score=50.22  Aligned_cols=32  Identities=22%  Similarity=0.319  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+..
T Consensus        20 ~is~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G~   51 (207)
T PRK13539         20 GLSFTLAAGEALVLTGPNGSGKTTLL-RLIAGL   51 (207)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            34568889999999999999999997 777643

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=92.28  E-value=0.11  Score=50.23  Aligned_cols=29  Identities=28%  Similarity=0.405  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 s~~i~~G~~~~l~G~nGsGKSTLl-~~l~G   48 (213)
T cd03262          20 DLTVKKGEVVVIIGPSGSGKSTLL-RCINL   48 (213)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66663

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=92.26  E-value=0.11  Score=50.88  Aligned_cols=30  Identities=23%  Similarity=0.475  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        18 ~vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   47 (230)
T TIGR03410        18 GVSLEVPKGEVTCVLGRNGVGKTTLL-KTLM   47 (230)
T ss_pred             ceeeEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            44577899999999999999999998 6555

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=92.25  E-value=0.11  Score=51.08  Aligned_cols=29  Identities=24%  Similarity=0.369  Sum_probs=25.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   49 (241)
T cd03256          21 SLSINPGEFVALIGPSGAGKSTLL-RCLNG   49 (241)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66663

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.18  E-value=0.11  Score=51.65  Aligned_cols=31  Identities=19%  Similarity=0.189  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ ..|+.
T Consensus        22 ~is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   52 (253)
T PRK14267         22 GVDLKIPQNGVFALMGPSGCGKSTLL-RTFNR   52 (253)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33578899999999999999999998 66653

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.17  E-value=0.34  Score=52.28  Aligned_cols=36  Identities=22%  Similarity=0.336  Sum_probs=25.8

Q ss_pred             ceeeeee-eeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        194 IKAVDSL-VPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       194 IraID~l-~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.+++.. ..+.+|+-++++|++|+||||++ ..++..
T Consensus       124 l~~~~~~~~~~~~g~ii~lvGptGvGKTTti-akLA~~  160 (374)
T PRK14722        124 LPVLDSEDALMERGGVFALMGPTGVGKTTTT-AKLAAR  160 (374)
T ss_pred             chhhcCCCccccCCcEEEEECCCCCCHHHHH-HHHHHH
Confidence            3344333 34668999999999999999998 455543

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=92.13  E-value=0.13  Score=45.89  Aligned_cols=30  Identities=23%  Similarity=0.384  Sum_probs=25.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      =+.+-+|+..+|+|++|+|||||+ ..|+..
T Consensus         5 ~~~i~~g~~~~i~G~nGsGKStLl-~~l~g~   34 (137)
T PF00005_consen    5 SLEIKPGEIVAIVGPNGSGKSTLL-KALAGL   34 (137)
T ss_dssp             EEEEETTSEEEEEESTTSSHHHHH-HHHTTS
T ss_pred             EEEEcCCCEEEEEccCCCccccce-eeeccc
Confidence            356789999999999999999998 556543

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=92.09  E-value=0.13  Score=50.63  Aligned_cols=30  Identities=30%  Similarity=0.438  Sum_probs=25.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        18 ~vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   47 (235)
T cd03261          18 GVDLDVRRGEILAIIGPSGSGKSTLL-RLIV   47 (235)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34468899999999999999999998 6665

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=92.05  E-value=0.79  Score=43.88  Aligned_cols=17  Identities=29%  Similarity=0.454  Sum_probs=15.3

Q ss_pred             eeeeeccCCCCchHhHH
Q psy13776        208 RELIIGDRQTGKTALAI  224 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~  224 (539)
                      +++|+|++|+|||++|.
T Consensus         3 ~ili~G~~~sGKS~~a~   19 (170)
T PRK05800          3 LILVTGGARSGKSRFAE   19 (170)
T ss_pred             EEEEECCCCccHHHHHH
Confidence            57899999999999983

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=92.04  E-value=0.13  Score=51.52  Aligned_cols=31  Identities=26%  Similarity=0.366  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        24 ~is~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   54 (258)
T PRK11701         24 DVSFDLYPGEVLGIVGESGSGKTTLL-NALSA   54 (258)
T ss_pred             eeeEEEeCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44578899999999999999999998 66664

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=92.03  E-value=0.12  Score=51.41  Aligned_cols=31  Identities=16%  Similarity=0.223  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        21 ~is~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   51 (250)
T PRK14247         21 GVNLEIPDNTITALMGPSGSGKSTLL-RVFNR   51 (250)
T ss_pred             cceeEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33467889999999999999999998 66664

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=92.01  E-value=0.5  Score=48.12  Aligned_cols=21  Identities=38%  Similarity=0.559  Sum_probs=17.7

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |+.|+|++|+|||+++++.+.
T Consensus        15 r~viIG~sGSGKT~li~~lL~   35 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLY   35 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            778999999999999865443

This is thought to be an ATPase involved in viral DNA packaging [].

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=92.00  E-value=0.13  Score=50.11  Aligned_cols=31  Identities=19%  Similarity=0.275  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        18 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   48 (220)
T cd03265          18 GVSFRVRRGEIFGLLGPNGAGKTTTI-KMLTT   48 (220)
T ss_pred             ceeEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44578889999999999999999998 66653

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=91.99  E-value=0.29  Score=49.05  Aligned_cols=20  Identities=35%  Similarity=0.310  Sum_probs=16.9

Q ss_pred             ccceeeeeccCCCCchHhHH
Q psy13776        205 RGQRELIIGDRQTGKTALAI  224 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~  224 (539)
                      ..+.++|.|.+|+|||+||.
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~   37 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLAR   37 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHH
T ss_pred             CeEEEEEEcCCcCCcceeee
Confidence            34567999999999999994

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=91.97  E-value=0.27  Score=43.02  Aligned_cols=19  Identities=32%  Similarity=0.422  Sum_probs=15.2

Q ss_pred             eeeeccCCCCchHhHHHHHH
Q psy13776        209 ELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +-|.|++|+|||+++ ..++
T Consensus         1 I~i~G~~G~GKS~l~-~~l~   19 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLA-KELA   19 (107)
T ss_pred             CEEECCCCCCHHHHH-HHHH
Confidence            358999999999998 4444

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=91.97  E-value=0.13  Score=49.76  Aligned_cols=30  Identities=23%  Similarity=0.309  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        19 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   48 (213)
T cd03259          19 LSLTVEPGEFLALLGPSGCGKTTLL-RLIAG   48 (213)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66663

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=91.95  E-value=0.14  Score=49.85  Aligned_cols=32  Identities=25%  Similarity=0.405  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|...
T Consensus        22 ~i~~~i~~G~~~~i~G~nGsGKSTLl-~~i~G~   53 (220)
T cd03245          22 NVSLTIRAGEKVAIIGRVGSGKSTLL-KLLAGL   53 (220)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            34467889999999999999999998 666643

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=91.95  E-value=0.12  Score=50.62  Aligned_cols=29  Identities=21%  Similarity=0.323  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|++.+|+|++|+|||||+ ..|+.
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   48 (232)
T cd03218          20 SLSVKQGEIVGLLGPNGAGKTTTF-YMIVG   48 (232)
T ss_pred             eeEecCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            477889999999999999999998 66653

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.93  E-value=0.12  Score=51.43  Aligned_cols=28  Identities=18%  Similarity=0.267  Sum_probs=24.7

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        25 s~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   52 (252)
T PRK14255         25 DLDFNQNEITALIGPSGCGKSTYL-RTLN   52 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            467889999999999999999998 6665

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=91.91  E-value=0.14  Score=50.52  Aligned_cols=29  Identities=17%  Similarity=0.308  Sum_probs=25.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        20 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   48 (236)
T TIGR03864        20 VSFTVRPGEFVALLGPNGAGKSTLF-SLLT   48 (236)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 6665

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=91.90  E-value=0.14  Score=49.63  Aligned_cols=30  Identities=23%  Similarity=0.362  Sum_probs=25.4

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        21 is~~i~~G~~~~l~G~nGsGKSTLl-~~i~G   50 (214)
T TIGR02673        21 VSLHIRKGEFLFLTGPSGAGKTTLL-KLLYG   50 (214)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=91.90  E-value=0.14  Score=49.71  Aligned_cols=30  Identities=17%  Similarity=0.257  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|.|++|+|||||+ .+|+
T Consensus        23 ~~sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   52 (218)
T cd03266          23 GVSFTVKPGEVTGLLGPNGAGKTTTL-RMLA   52 (218)
T ss_pred             ceEEEEcCCcEEEEECCCCCCHHHHH-HHHh
Confidence            33477889999999999999999998 6665

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=91.88  E-value=0.37  Score=49.25  Aligned_cols=25  Identities=36%  Similarity=0.395  Sum_probs=19.5

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.+.+.|++|+|||+|+ ..|+++.
T Consensus        30 ~~~~ll~Gp~G~GKT~la-~~ia~~~   54 (305)
T TIGR00635        30 LDHLLLYGPPGLGKTTLA-HIIANEM   54 (305)
T ss_pred             CCeEEEECCCCCCHHHHH-HHHHHHh
Confidence            355789999999999998 4566543

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.87  E-value=0.15  Score=51.23  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        31 vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   60 (259)
T PRK14274         31 INLSIPENEVTAIIGPSGCGKSTFI-KTLNL   60 (259)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            3467889999999999999999998 66664

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=91.87  E-value=0.14  Score=49.31  Aligned_cols=29  Identities=24%  Similarity=0.346  Sum_probs=25.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 ~~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   48 (205)
T cd03226          20 SLDLYAGEIIALTGKNGAGKTTLA-KILAG   48 (205)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            457889999999999999999998 66664

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=91.87  E-value=0.16  Score=49.18  Aligned_cols=32  Identities=22%  Similarity=0.389  Sum_probs=28.0

Q ss_pred             eeeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        197 VDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       197 ID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|.=+.+.+|++.+|+|++|+|||||+ .+|..
T Consensus        15 ~~is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~g   46 (211)
T cd03298          15 MHFDLTFAQGEITAIVGPSGSGKSTLL-NLIAG   46 (211)
T ss_pred             cceEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            377789999999999999999999998 66664

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=91.82  E-value=0.12  Score=50.81  Aligned_cols=28  Identities=29%  Similarity=0.380  Sum_probs=24.7

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+.+|+..+|+|++|+|||||+ ..|+
T Consensus        20 sl~i~~Ge~~~l~G~nGsGKSTLl-~~l~   47 (236)
T cd03219          20 SFSVRPGEIHGLIGPNGAGKTTLF-NLIS   47 (236)
T ss_pred             eEEecCCcEEEEECCCCCCHHHHH-HHHc
Confidence            467889999999999999999998 6665

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=91.81  E-value=0.14  Score=50.39  Aligned_cols=29  Identities=28%  Similarity=0.363  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        25 s~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   53 (233)
T cd03258          25 SLSVPKGEIFGIIGRSGAGKSTLI-RCING   53 (233)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            477889999999999999999998 66653

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03249 ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1

Probab=91.77  E-value=0.14  Score=50.37  Aligned_cols=32  Identities=16%  Similarity=0.275  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        21 ~i~~~i~~Ge~~~l~G~nGsGKSTLl-~~i~G~   52 (238)
T cd03249          21 GLSLTIPPGKTVALVGSSGCGKSTVV-SLLERF   52 (238)
T ss_pred             ceEEEecCCCEEEEEeCCCCCHHHHH-HHHhcc
Confidence            34567889999999999999999998 667643

In fact, the yeast MDL1 (multidrug resistance-like protein 1) and MDL2 (multidrug resistance-like protein 2) transporters are also included in this CD. MDL1 is an ATP-dependent permease that acts as a high-copy suppressor of ATM1 and is thought to have a role in resistance to oxidative stress. Interestingly, subfamily B is more closely related to the carboxyl-terminal component of subfamily C than the two halves of ABCC molecules are with one another.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=91.76  E-value=0.14  Score=49.86  Aligned_cols=29  Identities=21%  Similarity=0.373  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|++|+|||||+ .+|..
T Consensus        24 s~~i~~G~~~~i~G~nGsGKSTLl-~~l~G   52 (220)
T cd03293          24 SLSVEEGEFVALVGPSGCGKSTLL-RIIAG   52 (220)
T ss_pred             eEEEeCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66664

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.76  E-value=0.14  Score=49.22  Aligned_cols=32  Identities=22%  Similarity=0.232  Sum_probs=26.9

Q ss_pred             eeeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        197 VDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       197 ID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .|.=+.+-+|++.+|.|++|+|||||+ .+|+.
T Consensus        17 ~~vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   48 (195)
T PRK13541         17 FDLSITFLPSAITYIKGANGCGKSSLL-RMIAG   48 (195)
T ss_pred             EEEEEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            344567889999999999999999998 66664

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=91.73  E-value=0.15  Score=50.46  Aligned_cols=31  Identities=19%  Similarity=0.327  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        21 ~~sl~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   51 (241)
T PRK10895         21 DVSLTVNSGEIVGLLGPNGAGKTTTF-YMVVG   51 (241)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            33478889999999999999999998 66664

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=91.72  E-value=0.15  Score=49.29  Aligned_cols=30  Identities=23%  Similarity=0.314  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        19 is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   48 (213)
T cd03301          19 LNLDIADGEFVVLLGPSGCGKTTTL-RMIAG   48 (213)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66664

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=91.70  E-value=0.16  Score=49.93  Aligned_cols=30  Identities=27%  Similarity=0.436  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        20 ~i~~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   49 (234)
T cd03251          20 DISLDIPAGETVALVGPSGSGKSTLV-NLIP   49 (234)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            33567889999999999999999998 6665

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=91.69  E-value=0.15  Score=50.37  Aligned_cols=30  Identities=30%  Similarity=0.428  Sum_probs=25.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        19 ~~s~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   48 (240)
T PRK09493         19 NIDLNIDQGEVVVIIGPSGSGKSTLL-RCIN   48 (240)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHH-HHHh
Confidence            34577889999999999999999998 6665

>cd03270 ABC_UvrA_I The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=91.67  E-value=0.14  Score=50.69  Aligned_cols=29  Identities=41%  Similarity=0.496  Sum_probs=24.8

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+.+|+..+|+|++|+|||||+...|.
T Consensus        15 sl~i~~Ge~~~l~G~sGsGKSTL~~~~i~   43 (226)
T cd03270          15 DVDIPRNKLVVITGVSGSGKSSLAFDTIY   43 (226)
T ss_pred             eeecCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            47788999999999999999999755553

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=91.65  E-value=0.16  Score=51.27  Aligned_cols=30  Identities=23%  Similarity=0.382  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   49 (255)
T PRK11248         20 INLTLESGELLVVLGPSGCGKTTLL-NLIAG   49 (255)
T ss_pred             eeEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66663

>PRK08118 topology modulation protein; Reviewed

Probab=91.63  E-value=0.14  Score=48.66  Aligned_cols=24  Identities=25%  Similarity=0.477  Sum_probs=20.0

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +|+.|+|++|+||||+| ..+.+..
T Consensus         2 ~rI~I~G~~GsGKSTla-k~L~~~l   25 (167)
T PRK08118          2 KKIILIGSGGSGKSTLA-RQLGEKL   25 (167)
T ss_pred             cEEEEECCCCCCHHHHH-HHHHHHh
Confidence            68999999999999998 5666543

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=91.62  E-value=0.14  Score=49.89  Aligned_cols=30  Identities=27%  Similarity=0.503  Sum_probs=25.4

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        24 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   53 (228)
T cd03257          24 VSFSIKKGETLGLVGESGSGKSTLA-RAILG   53 (228)
T ss_pred             ceeEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467789999999999999999998 66653

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=91.61  E-value=0.17  Score=47.77  Aligned_cols=30  Identities=23%  Similarity=0.406  Sum_probs=25.4

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        19 ~~~~i~~Ge~~~i~G~nGsGKStLl-~~l~G   48 (173)
T cd03230          19 ISLTVEKGEIYGLLGPNGAGKTTLI-KIILG   48 (173)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467789999999999999999998 66653

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08727 hypothetical protein; Validated

Probab=91.59  E-value=1.3  Score=44.30  Aligned_cols=25  Identities=28%  Similarity=0.266  Sum_probs=19.7

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +-+.|.|++|+|||+|+ ..++++..
T Consensus        42 ~~l~l~G~~G~GKThL~-~a~~~~~~   66 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLA-LALCAAAE   66 (233)
T ss_pred             CeEEEECCCCCCHHHHH-HHHHHHHH
Confidence            34789999999999998 56666543

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=91.55  E-value=0.4  Score=51.50  Aligned_cols=94  Identities=28%  Similarity=0.413  Sum_probs=55.1

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCC-ccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEE
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCA-MGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYV  287 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~-~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~  287 (539)
                      +++.|++|||||-|| .+++||+++.     + -+..|.. +-.|+.+ |   =.+.-|++.-|..      +...+||.
T Consensus       188 VLLYGPPGTGKTLLA-kAVA~~T~At-----F-IrvvgSElVqKYiGE-G---aRlVRelF~lAre------kaPsIIFi  250 (406)
T COG1222         188 VLLYGPPGTGKTLLA-KAVANQTDAT-----F-IRVVGSELVQKYIGE-G---ARLVRELFELARE------KAPSIIFI  250 (406)
T ss_pred             eEeeCCCCCcHHHHH-HHHHhccCce-----E-EEeccHHHHHHHhcc-c---hHHHHHHHHHHhh------cCCeEEEE
Confidence            578999999999999 8899988641     1 1222221 1111111 1   1234455555554      23345555


Q ss_pred             ----eeccch------------hHHHHHHHHHhcCCCCceEEEEEecC
Q psy13776        288 ----AIGQKR------------STVAQIVKRLTDSGAMGYTIIVSATA  319 (539)
Q Consensus       288 ----~IGer~------------~ev~e~~~~l~~~~~~~~tvvV~ata  319 (539)
                          |||-|+            |+.-|++..|.+-....+.=|+.||.
T Consensus       251 DEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATN  298 (406)
T COG1222         251 DEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATN  298 (406)
T ss_pred             echhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecC
Confidence                777654            33445556666667777888888885

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=91.55  E-value=0.17  Score=49.93  Aligned_cols=30  Identities=27%  Similarity=0.432  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        28 isl~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   57 (233)
T PRK11629         28 VSFSIGEGEMMAIVGSSGSGKSTLL-HLLGG   57 (233)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            3467889999999999999999998 66663

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=91.53  E-value=0.16  Score=50.64  Aligned_cols=31  Identities=16%  Similarity=0.408  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        18 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   48 (252)
T TIGR03005        18 GLNFSVAAGEKVALIGPSGSGKSTIL-RILMT   48 (252)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44578889999999999999999998 66653

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=91.52  E-value=0.14  Score=50.39  Aligned_cols=30  Identities=27%  Similarity=0.495  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        19 isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   48 (243)
T TIGR01978        19 VNLTVKKGEIHAIMGPNGSGKSTLS-KTIAG   48 (243)
T ss_pred             cceEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=91.50  E-value=0.14  Score=49.44  Aligned_cols=30  Identities=30%  Similarity=0.544  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ ..|+
T Consensus        18 ~is~~i~~Ge~~~i~G~nGsGKStLl-~~l~   47 (200)
T cd03217          18 GVNLTIKKGEVHALMGPNGSGKSTLA-KTIM   47 (200)
T ss_pred             ccceEECCCcEEEEECCCCCCHHHHH-HHHh
Confidence            33568899999999999999999997 6665

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=91.49  E-value=0.16  Score=49.76  Aligned_cols=31  Identities=23%  Similarity=0.411  Sum_probs=26.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+..
T Consensus        29 ~s~~i~~Ge~~~i~G~nGsGKSTLl-~~i~Gl   59 (228)
T PRK10584         29 VELVVKRGETIALIGESGSGKSTLL-AILAGL   59 (228)
T ss_pred             cEEEEcCCCEEEEECCCCCCHHHHH-HHHHcC
Confidence            3477889999999999999999998 667643

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=91.49  E-value=0.18  Score=47.33  Aligned_cols=29  Identities=21%  Similarity=0.503  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        20 ~~~i~~Ge~~~l~G~nGsGKSTLl-~~i~G   48 (163)
T cd03216          20 SLSVRRGEVHALLGENGAGKSTLM-KILSG   48 (163)
T ss_pred             EEEEeCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            477889999999999999999998 66653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=91.48  E-value=0.16  Score=50.13  Aligned_cols=30  Identities=20%  Similarity=0.384  Sum_probs=25.5

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus         5 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   34 (230)
T TIGR02770         5 LNLSLKRGEVLALVGESGSGKSLTC-LAILG   34 (230)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3467789999999999999999998 66663

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd03252 ABCC_Hemolysin The ABC-transporter hemolysin B is a central component of the secretion machinery that translocates the toxin, hemolysin A, in a Sec-independent fashion across both membranes of E

Probab=91.48  E-value=0.16  Score=50.01  Aligned_cols=31  Identities=26%  Similarity=0.356  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   50 (237)
T cd03252          20 NISLRIKPGEVVGIVGRSGSGKSTLT-KLIQR   50 (237)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33567889999999999999999998 66663

coli. The hemolysin A (HlyA) transport machinery is composed of the ATP-binding cassette (ABC) transporter HlyB located in the inner membrane, hemolysin D (HlyD), also anchored in the inner membrane, and TolC, which resides in the outer membrane. HlyD apparently forms a continuous channel that bridges the entire periplasm, interacting with TolC and HlyB. This arrangement prevents the appearance of periplasmic intermediates of HlyA during substrate transport. Little is known about the molecular details of HlyA transport, but it is evident that ATP-hydrolysis by the ABC-transporter HlyB is a necessary source of energy.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=91.47  E-value=0.17  Score=48.75  Aligned_cols=31  Identities=23%  Similarity=0.455  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ .+|+.
T Consensus        23 ~~s~~i~~G~~~~i~G~nG~GKSTLl-~~i~G   53 (204)
T cd03250          23 DINLEVPKGELVAIVGPVGSGKSSLL-SALLG   53 (204)
T ss_pred             eeeEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34577889999999999999999998 66664

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=91.47  E-value=0.18  Score=47.48  Aligned_cols=31  Identities=32%  Similarity=0.434  Sum_probs=26.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+..
T Consensus        21 ~~~~i~~Ge~~~i~G~nGsGKStLl-~~l~G~   51 (173)
T cd03246          21 VSFSIEPGESLAIIGPSGSGKSTLA-RLILGL   51 (173)
T ss_pred             eEEEECCCCEEEEECCCCCCHHHHH-HHHHhc
Confidence            3467889999999999999999998 666643

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=91.44  E-value=0.17  Score=51.31  Aligned_cols=31  Identities=29%  Similarity=0.382  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ ..|+.
T Consensus        25 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   55 (269)
T PRK11831         25 NISLTVPRGKITAIMGPSGIGKTTLL-RLIGG   55 (269)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44678899999999999999999998 66663

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=91.44  E-value=0.16  Score=50.57  Aligned_cols=31  Identities=23%  Similarity=0.285  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        21 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   51 (250)
T PRK14240         21 KINLDIEENQVTALIGPSGCGKSTFL-RTLNR   51 (250)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            55678889999999999999999998 66663

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=91.43  E-value=0.19  Score=47.61  Aligned_cols=32  Identities=16%  Similarity=0.414  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|...
T Consensus        20 ~i~~~i~~Ge~~~i~G~nGsGKStLl-~~l~G~   51 (178)
T cd03247          20 NLSLELKQGEKIALLGRSGSGKSTLL-QLLTGD   51 (178)
T ss_pred             EEEEEEcCCCEEEEECCCCCCHHHHH-HHHhcc
Confidence            44567779999999999999999998 666643

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=91.40  E-value=0.17  Score=48.70  Aligned_cols=29  Identities=21%  Similarity=0.202  Sum_probs=25.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|++.+|.|++|+|||||+ .++.
T Consensus        14 isl~i~~G~~~~l~G~nG~GKSTLl-~~il   42 (176)
T cd03238          14 LDVSIPLNVLVVVTGVSGSGKSTLV-NEGL   42 (176)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3578999999999999999999998 5554

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=91.40  E-value=0.18  Score=50.06  Aligned_cols=29  Identities=28%  Similarity=0.375  Sum_probs=25.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        20 is~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   48 (242)
T cd03295          20 LNLEIAKGEFLVLIGPSGSGKTTTM-KMIN   48 (242)
T ss_pred             eEEEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3477889999999999999999998 6665

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=91.39  E-value=2.1  Score=42.55  Aligned_cols=24  Identities=21%  Similarity=0.329  Sum_probs=19.0

Q ss_pred             cceeeeeccCCCCchHhHHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+=-+|+|++|+|||+|+++..++
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHH
Confidence            344579999999999999866554

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=91.38  E-value=0.16  Score=50.44  Aligned_cols=30  Identities=30%  Similarity=0.303  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   51 (250)
T PRK11264         22 IDLEVKPGEVVAIIGPSGSGKTTLL-RCINL   51 (250)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3477889999999999999999998 66653

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.38  E-value=0.16  Score=49.47  Aligned_cols=30  Identities=27%  Similarity=0.374  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ .+|+
T Consensus        29 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~i~   58 (214)
T PRK13543         29 PLDFHVDAGEALLVQGDNGAGKTTLL-RVLA   58 (214)
T ss_pred             cceEEECCCCEEEEEcCCCCCHHHHH-HHHh
Confidence            34477889999999999999999998 6665

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=91.35  E-value=0.18  Score=48.70  Aligned_cols=30  Identities=20%  Similarity=0.312  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        19 ~~~~i~~G~~~~i~G~nGsGKSTLl-~~l~G   48 (208)
T cd03268          19 ISLHVKKGEIYGFLGPNGAGKTTTM-KIILG   48 (208)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66663

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=91.35  E-value=0.17  Score=49.79  Aligned_cols=30  Identities=30%  Similarity=0.474  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ ..|.
T Consensus        17 ~is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   46 (232)
T PRK10771         17 RFDLTVERGERVAILGPSGAGKSTLL-NLIA   46 (232)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            56788999999999999999999998 5554

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=91.35  E-value=0.15  Score=49.40  Aligned_cols=28  Identities=25%  Similarity=0.420  Sum_probs=24.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        19 sl~i~~Ge~~~l~G~nGsGKSTLl-~~l~   46 (213)
T cd03235          19 SFEVKPGEFLAIVGPNGAGKSTLL-KAIL   46 (213)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH-HHHc
Confidence            367889999999999999999998 5555

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=91.34  E-value=0.18  Score=49.52  Aligned_cols=30  Identities=20%  Similarity=0.241  Sum_probs=26.0

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus         6 vs~~i~~Ge~~~l~G~NGsGKSTLl-k~i~G   35 (213)
T PRK15177          6 TDFVMGYHEHIGILAAPGSGKTTLT-RLLCG   35 (213)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3477899999999999999999998 67764

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.34  E-value=0.17  Score=50.23  Aligned_cols=31  Identities=29%  Similarity=0.335  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   51 (241)
T PRK14250         21 DISVKFEGGAIYTIVGPSGAGKSTLI-KLINR   51 (241)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44577889999999999999999998 66653

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.31  E-value=0.18  Score=50.11  Aligned_cols=31  Identities=19%  Similarity=0.306  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~~s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   51 (250)
T PRK14266         21 NVNLDIPKNSVTALIGPSGCGKSTFI-RTLNR   51 (250)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            44577889999999999999999998 77764

>PRK12377 putative replication protein; Provisional

Probab=91.31  E-value=0.36  Score=49.20  Aligned_cols=24  Identities=33%  Similarity=0.335  Sum_probs=19.2

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +-+.|.|++|||||+|| ..|+|..
T Consensus       102 ~~l~l~G~~GtGKThLa-~AIa~~l  125 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLA-AAIGNRL  125 (248)
T ss_pred             CeEEEECCCCCCHHHHH-HHHHHHH
Confidence            45689999999999999 5666654

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=91.26  E-value=0.18  Score=49.01  Aligned_cols=31  Identities=19%  Similarity=0.283  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 ~is~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   50 (220)
T cd03263          20 DLSLNVYKGEIFGLLGHNGAGKTTTL-KMLTG   50 (220)
T ss_pred             ceEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            33577889999999999999999998 66663

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.25  E-value=0.18  Score=50.18  Aligned_cols=30  Identities=33%  Similarity=0.337  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 i~~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   51 (250)
T PRK14262         22 VTMKIFKNQITAIIGPSGCGKTTLL-RSINR   51 (250)
T ss_pred             eeEeecCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3467889999999999999999998 66663

>cd03248 ABCC_TAP TAP, the Transporter Associated with Antigen Processing; TAP is essential for peptide delivery from the cytosol into the lumen of the endoplasmic reticulum (ER), where these peptides are loaded on major histocompatibility complex (MHC) I molecules

Probab=91.25  E-value=0.18  Score=49.32  Aligned_cols=29  Identities=17%  Similarity=0.367  Sum_probs=25.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|.+|+..+|+|++|+|||||+ .+|..
T Consensus        34 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   62 (226)
T cd03248          34 SFTLHPGEVTALVGPSGSGKSTVV-ALLEN   62 (226)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            367889999999999999999998 66653

Loaded MHC I leave the ER and display their antigenic cargo on the cell surface to cytotoxic T cells. Subsequently, virus-infected or malignantly transformed cells can be eliminated. TAP belongs to the large family of ATP-binding cassette (ABC) transporters, which translocate a vast variety of solutes across membranes.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=91.25  E-value=0.18  Score=47.95  Aligned_cols=30  Identities=23%  Similarity=0.284  Sum_probs=25.5

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ ..|+.
T Consensus        19 vs~~i~~G~~~~i~G~nGsGKSTLl-~~l~G   48 (182)
T cd03215          19 VSFEVRAGEIVGIAGLVGNGQTELA-EALFG   48 (182)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=91.23  E-value=3.4  Score=42.00  Aligned_cols=23  Identities=22%  Similarity=0.533  Sum_probs=19.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|.+|+|||+|. ..|.++.
T Consensus        33 ~IllvG~tGvGKSSli-NaLlg~~   55 (249)
T cd01853          33 TILVLGKTGVGKSSTI-NSIFGER   55 (249)
T ss_pred             EEEEECCCCCcHHHHH-HHHhCCC
Confidence            7889999999999996 7777654

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=91.21  E-value=0.19  Score=48.97  Aligned_cols=30  Identities=30%  Similarity=0.479  Sum_probs=25.8

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      =+.|.+|+..+|+|++|+|||||+ .+|+..
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G~   50 (218)
T cd03290          21 NIRIPTGQLTMIVGQVGCGKSSLL-LAILGE   50 (218)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHhcc
Confidence            467889999999999999999998 777643

The sulfonylurea receptor SUR is an ATP transporter of the ABCC/MRP family with tandem ATPase binding domains. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>PRK10908 cell division protein FtsE; Provisional

Probab=91.18  E-value=0.19  Score=49.14  Aligned_cols=29  Identities=21%  Similarity=0.377  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   50 (222)
T PRK10908         22 TFHMRPGEMAFLTGHSGAGKSTLL-KLICG   50 (222)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66663

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=91.18  E-value=0.16  Score=51.17  Aligned_cols=29  Identities=21%  Similarity=0.296  Sum_probs=25.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        30 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   58 (265)
T PRK10575         30 LSLTFPAGKVTGLIGHNGSGKSTLL-KMLG   58 (265)
T ss_pred             eeeEEcCCCEEEEECCCCCCHHHHH-HHHc
Confidence            3477889999999999999999998 5555

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=91.17  E-value=0.58  Score=51.11  Aligned_cols=39  Identities=31%  Similarity=0.440  Sum_probs=31.1

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAID  225 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~  225 (539)
                      ...+.||+.-.|=.+-  +.+|+-++|=|++|.|||||++.
T Consensus        72 ~~Ri~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQ  112 (456)
T COG1066          72 EPRISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQ  112 (456)
T ss_pred             cccccCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHH
Confidence            4456778877776653  46799999999999999999974

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=91.16  E-value=0.18  Score=50.47  Aligned_cols=31  Identities=23%  Similarity=0.260  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~laG   52 (258)
T PRK14241         22 DVNLNIEPRSVTAFIGPSGCGKSTVL-RTLNR   52 (258)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            33577889999999999999999998 66653

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=91.16  E-value=0.18  Score=44.00  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +++|.|.+|+||||++ ..++++
T Consensus         1 vI~I~G~~gsGKST~a-~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLA-KELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHH
T ss_pred             CEEEECCCCCCHHHHH-HHHHHH
Confidence            4789999999999998 566654

...

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=91.10  E-value=0.18  Score=49.52  Aligned_cols=31  Identities=23%  Similarity=0.385  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        25 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   55 (225)
T PRK10247         25 NISFSLRAGEFKLITGPSGCGKSTLL-KIVAS   55 (225)
T ss_pred             ccEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34577889999999999999999998 66653

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=91.08  E-value=0.19  Score=49.99  Aligned_cols=30  Identities=20%  Similarity=0.258  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|.
T Consensus        23 ~~s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   52 (252)
T PRK14239         23 SVSLDFYPNEITALIGPSGSGKSTLL-RSIN   52 (252)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHH-HHHh
Confidence            34477889999999999999999998 6665

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=91.06  E-value=0.2  Score=49.66  Aligned_cols=29  Identities=21%  Similarity=0.350  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|++.+|+|++|+|||||+ ++|..
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl-~~i~G   48 (237)
T TIGR00968        20 NLEVPTGSLVALLGPSGSGKSTLL-RIIAG   48 (237)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            367899999999999999999997 76763

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=91.03  E-value=0.19  Score=48.62  Aligned_cols=31  Identities=19%  Similarity=0.308  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ ..|..
T Consensus        18 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   48 (201)
T cd03231          18 GLSFTLAAGEALQVTGPNGSGKTTLL-RILAG   48 (201)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34467889999999999999999997 66654

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=91.01  E-value=0.19  Score=49.59  Aligned_cols=30  Identities=30%  Similarity=0.472  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        21 vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   50 (242)
T TIGR03411        21 LSLYVDPGELRVIIGPNGAGKTTMM-DVITG   50 (242)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3468899999999999999999998 66653

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=91.01  E-value=0.18  Score=48.51  Aligned_cols=31  Identities=19%  Similarity=0.312  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ .+|+.
T Consensus        27 ~~~~~i~~Ge~~~l~G~nGsGKStLl-~~i~G   57 (194)
T cd03213          27 NVSGKAKPGELTAIMGPSGAGKSTLL-NALAG   57 (194)
T ss_pred             cceEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            33477889999999999999999998 76763

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=90.98  E-value=0.19  Score=49.94  Aligned_cols=31  Identities=23%  Similarity=0.330  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        19 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   49 (247)
T TIGR00972        19 NINLDIPKNQVTALIGPSGCGKSTLL-RSLNR   49 (247)
T ss_pred             ceeEEECCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33577889999999999999999998 66653

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=90.97  E-value=0.2  Score=50.87  Aligned_cols=32  Identities=19%  Similarity=0.374  Sum_probs=26.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|...
T Consensus        25 ~vsl~i~~Ge~~~l~G~nGsGKSTLl-~~l~Gl   56 (272)
T PRK15056         25 DASFTVPGGSIAALVGVNGSGKSTLF-KALMGF   56 (272)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            44578889999999999999999998 666643

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.96  E-value=0.2  Score=49.89  Aligned_cols=30  Identities=20%  Similarity=0.228  Sum_probs=25.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        23 ~is~~i~~Ge~~~I~G~nGsGKSTLl-~~i~   52 (251)
T PRK14244         23 DINLDIYKREVTAFIGPSGCGKSTFL-RCFN   52 (251)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHH
Confidence            33467889999999999999999998 6665

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=90.94  E-value=0.19  Score=47.22  Aligned_cols=31  Identities=35%  Similarity=0.462  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|.|++|+|||||+ .+|..
T Consensus        19 ~i~l~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   49 (166)
T cd03223          19 DLSFEIKPGDRLLITGPSGTGKSSLF-RALAG   49 (166)
T ss_pred             cCeEEECCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33477889999999999999999998 66653

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=90.94  E-value=0.2  Score=49.95  Aligned_cols=29  Identities=17%  Similarity=0.276  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        26 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   54 (253)
T PRK14242         26 SLEFEQNQVTALIGPSGCGKSTFL-RCLNR   54 (253)
T ss_pred             eEEEeCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            467889999999999999999998 66664

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=90.93  E-value=0.19  Score=50.00  Aligned_cols=31  Identities=16%  Similarity=0.277  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        23 ~is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   53 (255)
T PRK11300         23 NVNLEVREQEIVSLIGPNGAGKTTVF-NCLTG   53 (255)
T ss_pred             eeeeEEcCCeEEEEECCCCCCHHHHH-HHHhC
Confidence            33467889999999999999999998 66663

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=90.92  E-value=1  Score=48.49  Aligned_cols=38  Identities=11%  Similarity=0.061  Sum_probs=24.3

Q ss_pred             CChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHH
Q psy13776        321 DAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA  358 (539)
Q Consensus       321 ~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A  358 (539)
                      .+|.........=..+-++|..+++.+++++|.+-...
T Consensus        99 ~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~  136 (366)
T COG1474          99 KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALV  136 (366)
T ss_pred             CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhc
Confidence            33443444444444566677778999999999775543

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=90.91  E-value=0.2  Score=49.52  Aligned_cols=29  Identities=28%  Similarity=0.392  Sum_probs=25.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus         5 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   33 (230)
T TIGR01184         5 NLTIQQGEFISLIGHSGCGKSTLL-NLISG   33 (230)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66664

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=90.91  E-value=0.19  Score=50.27  Aligned_cols=30  Identities=17%  Similarity=0.357  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        21 ~vsl~i~~Ge~~~l~G~nGsGKSTLl-~~l~   50 (254)
T PRK10418         21 GVSLTLQRGRVLALVGGSGSGKSLTC-AAAL   50 (254)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            33478899999999999999999998 6665

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=90.90  E-value=0.2  Score=50.70  Aligned_cols=31  Identities=23%  Similarity=0.288  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ ..|+.
T Consensus        30 ~isl~i~~Ge~~~I~G~NGsGKSTLl-k~l~G   60 (257)
T PRK11247         30 QLDLHIPAGQFVAVVGRSGCGKSTLL-RLLAG   60 (257)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34567889999999999999999998 66653

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.89  E-value=0.19  Score=50.16  Aligned_cols=29  Identities=21%  Similarity=0.288  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        27 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   55 (254)
T PRK14273         27 NIKILKNSITALIGPSGCGKSTFL-RTLNR   55 (254)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            467889999999999999999998 66664

>PRK07261 topology modulation protein; Provisional

Probab=90.88  E-value=0.18  Score=47.94  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=18.8

Q ss_pred             ceeeeeccCCCCchHhHHHHHHH
Q psy13776        207 QRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|++|+|.+|+|||||+ ..+..
T Consensus         1 ~ri~i~G~~GsGKSTla-~~l~~   22 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLA-RKLSQ   22 (171)
T ss_pred             CEEEEEcCCCCCHHHHH-HHHHH
Confidence            58999999999999999 55553

>PRK14253 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.86  E-value=0.19  Score=49.89  Aligned_cols=30  Identities=27%  Similarity=0.344  Sum_probs=26.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      =+.|.+|+..+|+|++|+|||||+ .+|...
T Consensus        23 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~Gl   52 (249)
T PRK14253         23 NLPIPARQVTALIGPSGCGKSTLL-RCLNRM   52 (249)
T ss_pred             eEEecCCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            467889999999999999999998 777643

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.86  E-value=0.2  Score=50.59  Aligned_cols=29  Identities=21%  Similarity=0.303  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        41 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   69 (268)
T PRK14248         41 SMDIEKHAVTALIGPSGCGKSTFL-RSINR   69 (268)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            467789999999999999999998 67764

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=90.86  E-value=0.19  Score=49.24  Aligned_cols=30  Identities=20%  Similarity=0.297  Sum_probs=25.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+.+-+|.+++|.||+|+|||||. .++++-
T Consensus        23 sl~v~~Ge~iaitGPSG~GKStll-k~va~L   52 (223)
T COG4619          23 SLSVRAGEFIAITGPSGCGKSTLL-KIVASL   52 (223)
T ss_pred             eeeecCCceEEEeCCCCccHHHHH-HHHHhc
Confidence            467789999999999999999997 666643

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=90.84  E-value=0.2  Score=52.59  Aligned_cols=33  Identities=27%  Similarity=0.497  Sum_probs=27.1

Q ss_pred             eeee-eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        196 AVDS-LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       196 aID~-l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +++. =+.|.+|+..+|+|++|+|||||+ .+|..
T Consensus        22 ~l~~vsl~i~~Ge~~~ivG~sGsGKSTLl-~~i~G   55 (330)
T PRK15093         22 AVDRVSMTLTEGEIRGLVGESGSGKSLIA-KAICG   55 (330)
T ss_pred             EEeeeEEEECCCCEEEEECCCCCCHHHHH-HHHHc
Confidence            4443 468999999999999999999998 66654

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=90.83  E-value=0.21  Score=50.46  Aligned_cols=30  Identities=13%  Similarity=0.245  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        39 vsl~i~~Ge~~~I~G~nGsGKSTLl-~~l~G   68 (267)
T PRK14237         39 IDMQFEKNKITALIGPSGSGKSTYL-RSLNR   68 (267)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            3477889999999999999999998 66654

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.80  E-value=0.21  Score=50.65  Aligned_cols=29  Identities=21%  Similarity=0.445  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        29 sl~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   57 (271)
T PRK13632         29 SFEINEGEYVAILGHNGSGKSTIS-KILTG   57 (271)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            467889999999999999999998 66663

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=90.79  E-value=2.1  Score=47.01  Aligned_cols=142  Identities=15%  Similarity=0.075  Sum_probs=69.2

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhh-----HHHHhhhcc
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSK-----QAVAYRQDE  278 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~-----~a~~~~~~~  278 (539)
                      .++.+++++|+.|+||||++ ..++.+...                      .++.+.++.-|-.+     |-..|....
T Consensus       239 ~~~~vI~LVGptGvGKTTTi-aKLA~~L~~----------------------~GkkVglI~aDt~RiaAvEQLk~yae~l  295 (436)
T PRK11889        239 KEVQTIALIGPTGVGKTTTL-AKMAWQFHG----------------------KKKTVGFITTDHSRIGTVQQLQDYVKTI  295 (436)
T ss_pred             cCCcEEEEECCCCCcHHHHH-HHHHHHHHH----------------------cCCcEEEEecCCcchHHHHHHHHHhhhc
Confidence            34578999999999999998 445433221                      11222222222111     112222221


Q ss_pred             cCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHH-HCCCcEEEEecChhHH
Q psy13776        279 KKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQ  357 (539)
Q Consensus       279 ~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFr-d~GkdVLli~DslTr~  357 (539)
                        + +-++++  ....++.+.++.+.+..  ++-+|++-|+-.++-..-    .--.+.+.+. ....++++++|..++.
T Consensus       296 --g-ipv~v~--~d~~~L~~aL~~lk~~~--~~DvVLIDTaGRs~kd~~----lm~EL~~~lk~~~PdevlLVLsATtk~  364 (436)
T PRK11889        296 --G-FEVIAV--RDEAAMTRALTYFKEEA--RVDYILIDTAGKNYRASE----TVEEMIETMGQVEPDYICLTLSASMKS  364 (436)
T ss_pred             --C-CcEEec--CCHHHHHHHHHHHHhcc--CCCEEEEeCccccCcCHH----HHHHHHHHHhhcCCCeEEEEECCccCh
Confidence              1 222222  45666766666665321  245777777655442211    1111233332 2355788999987776


Q ss_pred             HHHhHHhhhccCCCCCCCCCCCchhhc
Q psy13776        358 AVAYRQMSLLLRRPPGREAYPGDVFYL  384 (539)
Q Consensus       358 A~A~Reisl~lgepP~r~gyPg~vf~~  384 (539)
                      -.... +...+..    -++-+-+|+.
T Consensus       365 ~d~~~-i~~~F~~----~~idglI~TK  386 (436)
T PRK11889        365 KDMIE-IITNFKD----IHIDGIVFTK  386 (436)
T ss_pred             HHHHH-HHHHhcC----CCCCEEEEEc
Confidence            55443 3333333    2344445443

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=90.78  E-value=0.19  Score=50.01  Aligned_cols=31  Identities=23%  Similarity=0.339  Sum_probs=25.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ .+|+.
T Consensus        21 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   51 (253)
T TIGR02323        21 DVSFDLYPGEVLGIVGESGSGKSTLL-GCLAG   51 (253)
T ss_pred             cceEEEeCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            33467889999999999999999998 66653

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.74  E-value=0.21  Score=50.74  Aligned_cols=30  Identities=20%  Similarity=0.344  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        26 is~~i~~Ge~~~l~G~nGsGKSTLl-~~i~G   55 (280)
T PRK13649         26 VNLTIEDGSYTAFIGHTGSGKSTIM-QLLNG   55 (280)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.74  E-value=0.21  Score=51.11  Aligned_cols=30  Identities=13%  Similarity=0.298  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        30 is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   59 (289)
T PRK13645         30 TSLTFKKNKVTCVIGTTGSGKSTMI-QLTNG   59 (289)
T ss_pred             eEEEEeCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3467889999999999999999998 66664

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=90.72  E-value=0.22  Score=50.56  Aligned_cols=31  Identities=23%  Similarity=0.257  Sum_probs=26.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.|-+|++.+|+|++|+|||||+ .+|+..
T Consensus        43 vsl~i~~Ge~~~I~G~nGsGKSTLl-~~i~Gl   73 (271)
T PRK14238         43 INLDIHENEVTAIIGPSGCGKSTYI-KTLNRM   73 (271)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            3467889999999999999999998 677643

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=90.71  E-value=0.2  Score=50.58  Aligned_cols=31  Identities=19%  Similarity=0.287  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ .+|+.
T Consensus        28 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   58 (264)
T PRK14243         28 NVWLDIPKNQITAFIGPSGCGKSTIL-RCFNR   58 (264)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            33477889999999999999999998 66663

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=90.70  E-value=0.22  Score=48.93  Aligned_cols=32  Identities=22%  Similarity=0.397  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        19 ~i~~~i~~Ge~~~l~G~nGsGKSTLl-~~i~Gl   50 (236)
T cd03253          19 DVSFTIPAGKKVAIVGPSGSGKSTIL-RLLFRF   50 (236)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhcc
Confidence            44567889999999999999999998 666643

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.70  E-value=0.22  Score=50.37  Aligned_cols=32  Identities=31%  Similarity=0.497  Sum_probs=27.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        27 ~isl~i~~Ge~~~I~G~nGsGKSTLl-~~i~Gl   58 (269)
T PRK13648         27 DVSFNIPKGQWTSIVGHNGSGKSTIA-KLMIGI   58 (269)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            44577889999999999999999998 677643

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=90.68  E-value=0.2  Score=50.73  Aligned_cols=30  Identities=20%  Similarity=0.452  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ .+|+
T Consensus        30 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   59 (268)
T PRK10419         30 NVSLSLKSGETVALLGRSGCGKSTLA-RLLV   59 (268)
T ss_pred             ceeEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            44578889999999999999999998 6665

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=90.66  E-value=0.21  Score=48.77  Aligned_cols=30  Identities=17%  Similarity=0.357  Sum_probs=25.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|.|++|+|||||+ .+|.
T Consensus        26 ~vs~~i~~Ge~~~l~G~nGsGKSTLl-~~i~   55 (224)
T TIGR02324        26 NVSLTVNAGECVALSGPSGAGKSTLL-KSLY   55 (224)
T ss_pred             cceEEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            33478889999999999999999998 6665

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=90.66  E-value=0.23  Score=47.09  Aligned_cols=31  Identities=29%  Similarity=0.406  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|.|++|+|||||+ ..|..
T Consensus        17 ~~~~~i~~G~~~~l~G~nGsGKStLl-~~i~G   47 (180)
T cd03214          17 DLSLSIEAGEIVGILGPNGAGKSTLL-KTLAG   47 (180)
T ss_pred             eeEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            33466789999999999999999997 66653

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=90.64  E-value=0.21  Score=50.22  Aligned_cols=29  Identities=21%  Similarity=0.379  Sum_probs=25.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 s~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   50 (258)
T PRK13548         22 SLTLRPGEVVAILGPNGAGKSTLL-RALSG   50 (258)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66663

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=90.64  E-value=0.19  Score=50.76  Aligned_cols=29  Identities=34%  Similarity=0.437  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|++.+|+|++|+|||||+ .+|+.
T Consensus        27 sl~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   55 (265)
T PRK10253         27 TVEIPDGHFTAIIGPNGCGKSTLL-RTLSR   55 (265)
T ss_pred             ceEECCCCEEEEECCCCCCHHHHH-HHHcC
Confidence            477889999999999999999998 66653

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=90.62  E-value=0.23  Score=50.03  Aligned_cols=31  Identities=16%  Similarity=0.350  Sum_probs=26.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        23 vs~~i~~Ge~~~I~G~NGsGKSTLl-~~i~Gl   53 (251)
T PRK09544         23 VSLELKPGKILTLLGPNGAGKSTLV-RVVLGL   53 (251)
T ss_pred             EEEEEcCCcEEEEECCCCCCHHHHH-HHHhCC
Confidence            3477889999999999999999998 667643

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.61  E-value=0.21  Score=49.80  Aligned_cols=29  Identities=21%  Similarity=0.269  Sum_probs=25.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        24 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   52 (252)
T PRK14256         24 SMDFPENSVTAIIGPSGCGKSTVL-RSINR   52 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            367889999999999999999998 66654

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=90.61  E-value=0.22  Score=49.42  Aligned_cols=30  Identities=23%  Similarity=0.272  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        40 vs~~i~~Ge~~~i~G~NGsGKSTLl-~~i~G   69 (236)
T cd03267          40 ISFTIEKGEIVGFIGPNGAGKTTTL-KILSG   69 (236)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66664

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK11308 dppF dipeptide transporter ATP-binding subunit; Provisional

Probab=90.61  E-value=0.22  Score=52.42  Aligned_cols=31  Identities=23%  Similarity=0.413  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        33 ~vsl~i~~Ge~~~IvG~sGsGKSTLl-~~l~g   63 (327)
T PRK11308         33 GVSFTLERGKTLAVVGESGCGKSTLA-RLLTM   63 (327)
T ss_pred             eeEEEECCCCEEEEECCCCCcHHHHH-HHHHc
Confidence            34577889999999999999999998 66654

>PRK14270 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.60  E-value=0.22  Score=49.64  Aligned_cols=29  Identities=21%  Similarity=0.326  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        24 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   52 (251)
T PRK14270         24 NLPIYENKITALIGPSGCGKSTFL-RCLNR   52 (251)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            467889999999999999999998 66664

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.56  E-value=0.23  Score=49.61  Aligned_cols=29  Identities=21%  Similarity=0.314  Sum_probs=25.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        25 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   53 (253)
T PRK14261         25 ITISIPKNRVTALIGPSGCGKSTLL-RCFN   53 (253)
T ss_pred             eEEEECCCcEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 6665

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.56  E-value=0.23  Score=50.94  Aligned_cols=32  Identities=16%  Similarity=0.273  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+..
T Consensus        25 ~vsl~i~~Ge~~~iiG~NGaGKSTLl-~~l~Gl   56 (287)
T PRK13641         25 NISFELEEGSFVALVGHTGSGKSTLM-QHFNAL   56 (287)
T ss_pred             eeEEEEeCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            34477889999999999999999998 777643

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=90.56  E-value=0.62  Score=54.52  Aligned_cols=67  Identities=9%  Similarity=0.101  Sum_probs=37.9

Q ss_pred             chhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHH--HCCCcEEEEecChhHHHHHhHHhhhccC
Q psy13776        292 KRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR--DNGKHALIIYDDLSKQAVAYRQMSLLLR  369 (539)
Q Consensus       292 r~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFr--d~GkdVLli~DslTr~A~A~Reisl~lg  369 (539)
                      ...++.+.++.+.+     +-+|++-|+-.++-..-+.-..    + .+.  ..-.++++++|..++ .+..+|+.....
T Consensus       250 ~~~~l~~al~~~~~-----~D~VLIDTAGRs~~d~~l~eel----~-~l~~~~~p~e~~LVLsAt~~-~~~l~~i~~~f~  318 (767)
T PRK14723        250 DAADLRFALAALGD-----KHLVLIDTVGMSQRDRNVSEQI----A-MLCGVGRPVRRLLLLNAASH-GDTLNEVVHAYR  318 (767)
T ss_pred             CHHHHHHHHHHhcC-----CCEEEEeCCCCCccCHHHHHHH----H-HHhccCCCCeEEEEECCCCc-HHHHHHHHHHHh
Confidence            45666666666543     4488888887666443322111    1 122  245689999998875 444555544443

>PRK14251 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.55  E-value=0.23  Score=49.41  Aligned_cols=30  Identities=13%  Similarity=0.203  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|-+|+..+|+|++|+|||||+ ..|+.
T Consensus        23 ~sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   52 (251)
T PRK14251         23 ISLDFEEKELTALIGPSGCGKSTFL-RCLNR   52 (251)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHH-HHHhh
Confidence            3477889999999999999999998 66664

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.51  E-value=0.24  Score=49.32  Aligned_cols=31  Identities=19%  Similarity=0.281  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+..|+..+|+|++|+|||||+ .+|+.
T Consensus        20 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   50 (246)
T PRK14269         20 DINMQIEQNKITALIGASGCGKSTFL-RCFNR   50 (246)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34477889999999999999999998 66664

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=90.50  E-value=0.24  Score=48.40  Aligned_cols=29  Identities=17%  Similarity=0.292  Sum_probs=24.9

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        20 s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   48 (223)
T TIGR03740        20 SLTVPKNSVYGLLGPNGAGKSTLL-KMITG   48 (223)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            467889999999999999999998 66653

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=90.50  E-value=2.7  Score=39.29  Aligned_cols=16  Identities=38%  Similarity=0.490  Sum_probs=14.1

Q ss_pred             eeeeccCCCCchHhHH
Q psy13776        209 ELIIGDRQTGKTALAI  224 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~  224 (539)
                      +++.|++|+||||++.
T Consensus         3 ~~~~G~~G~GKTt~~~   18 (173)
T cd03115           3 ILLVGLQGVGKTTTAA   18 (173)
T ss_pred             EEEECCCCCCHHHHHH
Confidence            5788999999999984

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=90.47  E-value=0.23  Score=51.33  Aligned_cols=30  Identities=17%  Similarity=0.204  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        12 vs~~i~~Ge~~~l~G~NGaGKSTLl-~~l~G   41 (302)
T TIGR01188        12 VNFKVREGEVFGFLGPNGAGKTTTI-RMLTT   41 (302)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3468889999999999999999998 66663

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=90.45  E-value=3.3  Score=41.48  Aligned_cols=32  Identities=19%  Similarity=0.283  Sum_probs=26.8

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .-|.-+.+..|++.+|.|+.+.||||++ .+|.
T Consensus        21 ~n~i~~~~~~g~~~~itG~N~~GKStll-~~i~   52 (222)
T cd03287          21 PNDIHLSAEGGYCQIITGPNMGGKSSYI-RQVA   52 (222)
T ss_pred             EEeEEEEecCCcEEEEECCCCCCHHHHH-HHHH
Confidence            4577778889999999999999999987 4444

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK09984 phosphonate/organophosphate ester transporter subunit; Provisional

Probab=90.44  E-value=0.21  Score=50.25  Aligned_cols=30  Identities=20%  Similarity=0.334  Sum_probs=25.2

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        23 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   52 (262)
T PRK09984         23 VDLNIHHGEMVALLGPSGSGKSTLL-RHLSG   52 (262)
T ss_pred             ceEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            3466789999999999999999998 66653

>PRK14268 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.44  E-value=0.24  Score=49.72  Aligned_cols=31  Identities=16%  Similarity=0.287  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|..
T Consensus        30 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   60 (258)
T PRK14268         30 NVSMQIPKNSVTALIGPSGCGKSTFI-RCLNR   60 (258)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34477889999999999999999998 66663

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.43  E-value=0.22  Score=49.52  Aligned_cols=29  Identities=28%  Similarity=0.412  Sum_probs=25.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+.+|+..+|+|++|+|||||+ .+|..
T Consensus        24 s~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   52 (252)
T PRK14272         24 NLDVQRGTVNALIGPSGCGKTTFL-RAINR   52 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            467889999999999999999998 66653

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=90.43  E-value=0.25  Score=47.49  Aligned_cols=29  Identities=21%  Similarity=0.298  Sum_probs=25.0

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|.
T Consensus        19 vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   47 (198)
T TIGR01189        19 LSFTLNAGEALQVTGPNGIGKTTLL-RILA   47 (198)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHH-HHHh
Confidence            4567889999999999999999998 5555

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>PRK15079 oligopeptide ABC transporter ATP-binding protein OppF; Provisional

Probab=90.42  E-value=0.23  Score=52.30  Aligned_cols=31  Identities=23%  Similarity=0.406  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        39 ~vsl~i~~Ge~~~lvG~sGsGKSTLl-k~i~G   69 (331)
T PRK15079         39 GVTLRLYEGETLGVVGESGCGKSTFA-RAIIG   69 (331)
T ss_pred             eEEEEEcCCCEEEEECCCCCCHHHHH-HHHHC
Confidence            55678999999999999999999998 66663

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=90.41  E-value=0.24  Score=48.77  Aligned_cols=31  Identities=29%  Similarity=0.451  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        40 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   70 (224)
T cd03220          40 DVSFEVPRGERIGLIGRNGAGKSTLL-RLLAG   70 (224)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            33467889999999999999999998 66663

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.40  E-value=0.24  Score=49.32  Aligned_cols=30  Identities=17%  Similarity=0.151  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        21 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~i~   50 (250)
T PRK14245         21 GISMEIEEKSVVAFIGPSGCGKSTFL-RLFN   50 (250)
T ss_pred             eeeEEEeCCCEEEEECCCCCCHHHHH-HHHh
Confidence            33467889999999999999999998 6665

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=90.40  E-value=0.26  Score=45.45  Aligned_cols=31  Identities=19%  Similarity=0.389  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.-+.+.+|+..+|+|++|+|||||+ ..|..
T Consensus        17 ~~~~~i~~g~~~~i~G~nGsGKStll-~~l~g   47 (157)
T cd00267          17 NVSLTLKAGEIVALVGPNGSGKSTLL-RAIAG   47 (157)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44577889999999999999999997 66654

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.39  E-value=0.22  Score=50.44  Aligned_cols=30  Identities=13%  Similarity=0.137  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        19 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   48 (271)
T PRK13638         19 GLNLDFSLSPVTGLVGANGCGKSTLF-MNLS   48 (271)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHc
Confidence            34577889999999999999999998 6555

>PRK14271 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.38  E-value=0.24  Score=50.56  Aligned_cols=31  Identities=16%  Similarity=0.205  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        39 ~vs~~i~~Ge~~~I~G~nGsGKSTLl-~~l~G   69 (276)
T PRK14271         39 QVSMGFPARAVTSLMGPTGSGKTTFL-RTLNR   69 (276)
T ss_pred             eeEEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            45578889999999999999999998 77764

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=90.38  E-value=0.24  Score=52.75  Aligned_cols=32  Identities=31%  Similarity=0.389  Sum_probs=27.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+..
T Consensus        20 ~isl~i~~Ge~~~llGpsGsGKSTLL-r~IaGl   51 (353)
T PRK10851         20 DISLDIPSGQMVALLGPSGSGKTTLL-RIIAGL   51 (353)
T ss_pred             EeEEEEcCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            34578889999999999999999998 777754

>CHL00131 ycf16 sulfate ABC transporter protein; Validated

Probab=90.34  E-value=0.2  Score=49.86  Aligned_cols=29  Identities=28%  Similarity=0.526  Sum_probs=25.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        27 s~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   55 (252)
T CHL00131         27 NLSINKGEIHAIMGPNGSGKSTLS-KVIAG   55 (252)
T ss_pred             eeEEcCCcEEEEECCCCCCHHHHH-HHHcC
Confidence            467889999999999999999998 66653

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=90.29  E-value=0.23  Score=47.95  Aligned_cols=31  Identities=23%  Similarity=0.282  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|.|++|+|||||+ .+|+.
T Consensus        19 ~vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   49 (204)
T PRK13538         19 GLSFTLNAGELVQIEGPNGAGKTSLL-RILAG   49 (204)
T ss_pred             cceEEECCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            44577889999999999999999998 66663

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=90.28  E-value=0.23  Score=48.15  Aligned_cols=31  Identities=23%  Similarity=0.344  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        25 ~~s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   55 (202)
T cd03233          25 DFSGVVKPGEMVLVLGRPGSGCSTLL-KALAN   55 (202)
T ss_pred             eEEEEECCCcEEEEECCCCCCHHHHH-HHhcc
Confidence            33467789999999999999999998 66653

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=90.28  E-value=0.68  Score=48.31  Aligned_cols=24  Identities=38%  Similarity=0.509  Sum_probs=18.7

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ..++|.|++|+|||+++ ..++++.
T Consensus        52 ~~~ll~GppG~GKT~la-~~ia~~l   75 (328)
T PRK00080         52 DHVLLYGPPGLGKTTLA-NIIANEM   75 (328)
T ss_pred             CcEEEECCCCccHHHHH-HHHHHHh
Confidence            35789999999999998 4555443

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=90.28  E-value=0.25  Score=50.13  Aligned_cols=30  Identities=27%  Similarity=0.374  Sum_probs=25.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        42 ~is~~i~~Ge~~~l~G~nGsGKSTLl-~~L~   71 (269)
T cd03294          42 DVSLDVREGEIFVIMGLSGSGKSTLL-RCIN   71 (269)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34577889999999999999999998 6665

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0444 DppD ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=90.26  E-value=0.27  Score=51.84  Aligned_cols=34  Identities=35%  Similarity=0.600  Sum_probs=28.5

Q ss_pred             ceeeeee-eeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAVDSL-VPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraID~l-~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +++||.+ +.+.+|+..+|+|.+|+|||+++. .|.
T Consensus        18 v~av~~vs~~i~~GE~lgiVGESGsGKS~~~~-aim   52 (316)
T COG0444          18 VKAVDGVSFELKKGEILGIVGESGSGKSVLAK-AIM   52 (316)
T ss_pred             EEEEeceeEEEcCCcEEEEEcCCCCCHHHHHH-HHH
Confidence            5677654 789999999999999999999983 454

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=90.25  E-value=0.26  Score=49.43  Aligned_cols=30  Identities=23%  Similarity=0.264  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        24 is~~i~~Ge~~~l~G~nGsGKSTLl-~~i~G   53 (257)
T PRK10619         24 VSLQANAGDVISIIGSSGSGKSTFL-RCINF   53 (257)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=90.24  E-value=0.24  Score=49.75  Aligned_cols=29  Identities=28%  Similarity=0.319  Sum_probs=25.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|+
T Consensus        32 isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   60 (260)
T PRK10744         32 INLDIAKNQVTAFIGPSGCGKSTLL-RTFN   60 (260)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 6665

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=90.24  E-value=0.24  Score=48.91  Aligned_cols=29  Identities=31%  Similarity=0.452  Sum_probs=25.2

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|+
T Consensus        24 vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   52 (237)
T PRK11614         24 VSLHINQGEIVTLIGANGAGKTTLL-GTLC   52 (237)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHc
Confidence            3477889999999999999999998 6665

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=90.23  E-value=0.24  Score=51.18  Aligned_cols=30  Identities=23%  Similarity=0.408  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|++.+|+|++|+|||||+ .+|..
T Consensus        23 vsl~i~~Ge~~~l~G~NGaGKSTLl-~~l~G   52 (303)
T TIGR01288        23 LSFTIARGECFGLLGPNGAGKSTIA-RMLLG   52 (303)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=90.20  E-value=0.31  Score=51.71  Aligned_cols=33  Identities=21%  Similarity=0.282  Sum_probs=28.6

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+|.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        14 ~~~vsl~i~~Ge~~~l~G~nGsGKSTLl-~~iaG   46 (352)
T PRK11144         14 CLTVNLTLPAQGITAIFGRSGAGKTSLI-NAISG   46 (352)
T ss_pred             EEEEEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3477888999999999999999999998 66664

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=90.20  E-value=0.29  Score=50.55  Aligned_cols=34  Identities=32%  Similarity=0.525  Sum_probs=29.3

Q ss_pred             ceeee-eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAVD-SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraID-~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ++++| .=+.|-+|...+++|.+|+||||++ .+|+
T Consensus        26 v~avd~Vsf~i~~ge~~glVGESG~GKSTlg-r~i~   60 (268)
T COG4608          26 VKAVDGVSFSIKEGETLGLVGESGCGKSTLG-RLIL   60 (268)
T ss_pred             eEEecceeEEEcCCCEEEEEecCCCCHHHHH-HHHH
Confidence            46766 6689999999999999999999998 5555

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.19  E-value=0.25  Score=50.79  Aligned_cols=30  Identities=23%  Similarity=0.423  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|.+|++.+|+|++|+|||||+ ..|+
T Consensus        24 ~vsl~i~~Ge~v~i~G~nGsGKSTLl-~~l~   53 (288)
T PRK13643         24 DIDLEVKKGSYTALIGHTGSGKSTLL-QHLN   53 (288)
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHH-HHHh
Confidence            55678889999999999999999998 5555

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=90.13  E-value=0.27  Score=48.02  Aligned_cols=31  Identities=29%  Similarity=0.369  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|.|++|+|||||+ ..|..
T Consensus        23 ~vs~~i~~G~~~~I~G~nGsGKStLl-~~l~G   53 (220)
T TIGR02982        23 DINLEINPGEIVILTGPSGSGKTTLL-TLIGG   53 (220)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            33467889999999999999999998 66653

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=90.08  E-value=0.25  Score=47.67  Aligned_cols=31  Identities=19%  Similarity=0.351  Sum_probs=25.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ .+|..
T Consensus        26 ~isl~i~~G~~~~i~G~nGsGKSTLl-~~l~G   56 (207)
T cd03369          26 NVSFKVKAGEKIGIVGRTGAGKSTLI-LALFR   56 (207)
T ss_pred             CceEEECCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33467889999999999999999998 66653

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=90.00  E-value=0.26  Score=50.17  Aligned_cols=32  Identities=22%  Similarity=0.254  Sum_probs=27.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|.+|++.+|+|++|+|||||+ .+|+..
T Consensus        42 ~is~~i~~Ge~~~liG~NGsGKSTLl-k~L~Gl   73 (264)
T PRK13546         42 DISLKAYEGDVIGLVGINGSGKSTLS-NIIGGS   73 (264)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            45667889999999999999999998 666643

>PRK14275 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.00  E-value=0.27  Score=50.43  Aligned_cols=31  Identities=23%  Similarity=0.173  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        57 ~vsl~i~~Ge~~~l~G~nGsGKSTLl-~~L~G   87 (286)
T PRK14275         57 KVNADILSKYVTAIIGPSGCGKSTFL-RAINR   87 (286)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            44578899999999999999999998 67764

>PRK14527 adenylate kinase; Provisional

Probab=89.98  E-value=2.6  Score=40.38  Aligned_cols=24  Identities=17%  Similarity=0.379  Sum_probs=20.3

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|+.+.|+|++|+||||++ ..+++
T Consensus         5 ~~~~i~i~G~pGsGKsT~a-~~La~   28 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQA-ERLAQ   28 (191)
T ss_pred             CCcEEEEECCCCCCHHHHH-HHHHH
Confidence            6788999999999999998 45553

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=89.94  E-value=0.29  Score=47.59  Aligned_cols=30  Identities=23%  Similarity=0.374  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ ..|+
T Consensus        16 ~~s~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   45 (213)
T TIGR01277        16 EFDLNVADGEIVAIMGPSGAGKSTLL-NLIA   45 (213)
T ss_pred             eeEEEEeCCcEEEEECCCCCCHHHHH-HHHh
Confidence            56688999999999999999999998 6665

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK06526 transposase; Provisional

Probab=89.93  E-value=0.48  Score=48.31  Aligned_cols=27  Identities=26%  Similarity=0.246  Sum_probs=21.4

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.+.+.|++|||||+|+ ..|.++..
T Consensus        97 ~~~nlll~Gp~GtGKThLa-~al~~~a~  123 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLA-IGLGIRAC  123 (254)
T ss_pred             cCceEEEEeCCCCchHHHH-HHHHHHHH
Confidence            5678899999999999999 45555543

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=89.93  E-value=0.24  Score=48.56  Aligned_cols=30  Identities=33%  Similarity=0.463  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .-+.+-+|+..+|.|++|+|||||+ .+|..
T Consensus        26 vsl~i~~Ge~~~l~G~nGsGKSTLl-k~l~G   55 (226)
T cd03234          26 VSLHVESGQVMAILGSSGSGKTTLL-DAISG   55 (226)
T ss_pred             ceEEEcCCeEEEEECCCCCCHHHHH-HHHhC
Confidence            3567889999999999999999998 66664

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK14265 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.93  E-value=0.27  Score=50.04  Aligned_cols=30  Identities=23%  Similarity=0.226  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ .+|+
T Consensus        38 ~vs~~i~~Ge~~~IiG~nGsGKSTLl-~~l~   67 (274)
T PRK14265         38 DVHLKIPAKKIIAFIGPSGCGKSTLL-RCFN   67 (274)
T ss_pred             eeeeEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34467889999999999999999998 6665

>COG4167 SapF ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=89.91  E-value=0.3  Score=48.44  Aligned_cols=28  Identities=32%  Similarity=0.521  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      -+++-+||..+|+|..|+|||||+ .||+
T Consensus        33 SFtL~~~QTlaiIG~NGSGKSTLa-kMla   60 (267)
T COG4167          33 SFTLREGQTLAIIGENGSGKSTLA-KMLA   60 (267)
T ss_pred             EEEecCCcEEEEEccCCCcHhHHH-HHHh
Confidence            578999999999999999999998 6665

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=89.91  E-value=0.22  Score=48.93  Aligned_cols=26  Identities=27%  Similarity=0.456  Sum_probs=22.8

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+-+|+..+|+|++|+|||||+ ..|+
T Consensus         2 ~i~~Ge~~~l~G~nGsGKSTLl-~~l~   27 (223)
T TIGR03771         2 SADKGELLGLLGPNGAGKTTLL-RAIL   27 (223)
T ss_pred             ccCCCcEEEEECCCCCCHHHHH-HHHh
Confidence            4678999999999999999998 6555

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=89.88  E-value=0.27  Score=49.72  Aligned_cols=30  Identities=30%  Similarity=0.455  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        31 ~vsl~i~~Ge~~~i~G~NGsGKSTLl-~~l~   60 (267)
T PRK15112         31 PLSFTLREGQTLAIIGENGSGKSTLA-KMLA   60 (267)
T ss_pred             eeeEEecCCCEEEEEcCCCCCHHHHH-HHHh
Confidence            44577889999999999999999998 6665

>PRK14235 phosphate transporter ATP-binding protein; Provisional

Probab=89.87  E-value=0.29  Score=49.48  Aligned_cols=31  Identities=19%  Similarity=0.223  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|..
T Consensus        37 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   67 (267)
T PRK14235         37 DVDLDIPEKTVTAFIGPSGCGKSTFL-RCLNR   67 (267)
T ss_pred             EEEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            33467889999999999999999998 66664

>PRK13547 hmuV hemin importer ATP-binding subunit; Provisional

Probab=89.86  E-value=0.26  Score=50.40  Aligned_cols=30  Identities=20%  Similarity=0.377  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 vsl~i~~Ge~~~l~G~nGsGKSTLl-~~laG   49 (272)
T PRK13547         20 LSLRIEPGRVTALLGRNGAGKSTLL-KALAG   49 (272)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66653

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=89.85  E-value=0.25  Score=49.84  Aligned_cols=31  Identities=23%  Similarity=0.427  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        29 ~isl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   59 (265)
T TIGR02769        29 NVSLSIEEGETVGLLGRSGCGKSTLA-RLLLG   59 (265)
T ss_pred             CceeEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44578889999999999999999998 66653

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=89.84  E-value=0.29  Score=47.64  Aligned_cols=30  Identities=23%  Similarity=0.388  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        22 ~i~~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   51 (221)
T cd03244          22 NISFSIKPGEKVGIVGRTGSGKSSLL-LALF   51 (221)
T ss_pred             ceEEEECCCCEEEEECCCCCCHHHHH-HHHH
Confidence            34477889999999999999999998 6665

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PRK14260 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.84  E-value=0.28  Score=49.28  Aligned_cols=30  Identities=27%  Similarity=0.323  Sum_probs=26.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        26 isl~i~~Ge~~~l~G~nGsGKSTLl-k~l~G   55 (259)
T PRK14260         26 ISMDIYRNKVTAIIGPSGCGKSTFI-KTLNR   55 (259)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            3477889999999999999999998 77764

>PRK13651 cobalt transporter ATP-binding subunit; Provisional

Probab=89.83  E-value=0.28  Score=51.08  Aligned_cols=30  Identities=30%  Similarity=0.461  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|.+|+.++|+|++|+|||||+ ..|+
T Consensus        25 ~vsl~i~~Ge~v~iiG~nGsGKSTLl-~~L~   54 (305)
T PRK13651         25 NVSVEINQGEFIAIIGQTGSGKTTFI-EHLN   54 (305)
T ss_pred             eeEEEEeCCCEEEEECCCCCcHHHHH-HHHh
Confidence            44578899999999999999999998 5555

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.83  E-value=0.28  Score=50.22  Aligned_cols=31  Identities=26%  Similarity=0.395  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ ..|+.
T Consensus        25 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~L~G   55 (286)
T PRK13646         25 DVNTEFEQGKYYAIVGQTGSGKSTLI-QNINA   55 (286)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34567889999999999999999998 66664

>PRK09473 oppD oligopeptide transporter ATP-binding component; Provisional

Probab=89.81  E-value=0.26  Score=51.91  Aligned_cols=29  Identities=21%  Similarity=0.350  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        36 sl~i~~Ge~~~ivG~sGsGKSTL~-~~l~G   64 (330)
T PRK09473         36 NFSLRAGETLGIVGESGSGKSQTA-FALMG   64 (330)
T ss_pred             EEEEcCCCEEEEECCCCchHHHHH-HHHHc
Confidence            478889999999999999999998 66653

>KOG0744|consensus

Probab=89.80  E-value=0.38  Score=51.21  Aligned_cols=70  Identities=21%  Similarity=0.365  Sum_probs=46.0

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCc---------cccccccCcchhhhhhhhhhHHHHhhhccc
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM---------GEFFRDNGKHALIIYDDLSKQAVAYRQDEK  279 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~---------~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~  279 (539)
                      +++-||+|||||+|+ ..++ |+-.    +...-+|.-+-|         ...|-+.||-+-.+++++..-+..      
T Consensus       180 iLlhGPPGTGKTSLC-KaLa-QkLS----IR~~~~y~~~~liEinshsLFSKWFsESgKlV~kmF~kI~ELv~d------  247 (423)
T KOG0744|consen  180 ILLHGPPGTGKTSLC-KALA-QKLS----IRTNDRYYKGQLIEINSHSLFSKWFSESGKLVAKMFQKIQELVED------  247 (423)
T ss_pred             EEEeCCCCCChhHHH-HHHH-Hhhe----eeecCccccceEEEEehhHHHHHHHhhhhhHHHHHHHHHHHHHhC------
Confidence            478899999999998 5554 5532    334445544433         335677888887888777544443      


Q ss_pred             CceEEEEEeecc
Q psy13776        280 KKLYCIYVAIGQ  291 (539)
Q Consensus       280 ~~~~~Vy~~IGe  291 (539)
                       .-..|+++|.|
T Consensus       248 -~~~lVfvLIDE  258 (423)
T KOG0744|consen  248 -RGNLVFVLIDE  258 (423)
T ss_pred             -CCcEEEEEeHH
Confidence             34678889976

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=89.79  E-value=0.27  Score=47.57  Aligned_cols=28  Identities=25%  Similarity=0.404  Sum_probs=23.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+| +.+|+|++|+|||||+ .+|+
T Consensus        19 vs~~i~~g-~~~i~G~nGsGKSTLl-~~l~   46 (211)
T cd03264          19 VSLTLGPG-MYGLLGPNGAGKTTLM-RILA   46 (211)
T ss_pred             eeEEEcCC-cEEEECCCCCCHHHHH-HHHh
Confidence            34667789 9999999999999998 6665

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=89.78  E-value=0.22  Score=50.58  Aligned_cols=27  Identities=19%  Similarity=0.217  Sum_probs=23.7

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+|++.+|+|++|+|||||+ .+|..
T Consensus        22 ~i~~Ge~~~IvG~nGsGKSTLl-k~l~G   48 (255)
T cd03236          22 VPREGQVLGLVGPNGIGKSTAL-KILAG   48 (255)
T ss_pred             CCCCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3889999999999999999998 66653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI s are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLIs have an N-terminal Fe-S domain and two nucleotide binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK14249 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.72  E-value=0.29  Score=48.80  Aligned_cols=31  Identities=23%  Similarity=0.255  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ ..|+.
T Consensus        22 ~~s~~i~~G~~~~i~G~nGsGKSTLl-~~l~G   52 (251)
T PRK14249         22 NINMDFPERQITAIIGPSGCGKSTLL-RALNR   52 (251)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            33467889999999999999999998 66653

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1

Probab=89.69  E-value=0.29  Score=50.47  Aligned_cols=31  Identities=29%  Similarity=0.399  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ ..|+.
T Consensus        55 ~vs~~i~~Ge~~~liG~NGsGKSTLl-~~I~G   85 (282)
T cd03291          55 NINLKIEKGEMLAITGSTGSGKTSLL-MLILG   85 (282)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44567889999999999999999998 66664

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PRK14974 cell division protein FtsY; Provisional

Probab=89.69  E-value=2  Score=45.74  Aligned_cols=25  Identities=24%  Similarity=0.323  Sum_probs=19.7

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHH
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +++..+++.|++|+||||++ ..++.
T Consensus       138 ~~~~vi~~~G~~GvGKTTti-akLA~  162 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTI-AKLAY  162 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHH-HHHHH
Confidence            45678999999999999986 44443

>PRK14264 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.64  E-value=0.3  Score=50.64  Aligned_cols=31  Identities=16%  Similarity=0.214  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        63 ~is~~i~~Ge~~~IvG~nGsGKSTLl-~~L~G   93 (305)
T PRK14264         63 GVSMDIPEKSVTALIGPSGCGKSTFL-RCLNR   93 (305)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34577899999999999999999998 66663

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=89.64  E-value=0.29  Score=46.95  Aligned_cols=28  Identities=25%  Similarity=0.383  Sum_probs=24.5

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|.
T Consensus        27 s~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   54 (192)
T cd03232          27 SGYVKPGTLTALMGESGAGKTTLL-DVLA   54 (192)
T ss_pred             EEEEeCCcEEEEECCCCCCHHHHH-HHHh
Confidence            357889999999999999999998 6665

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=89.62  E-value=0.29  Score=48.31  Aligned_cols=30  Identities=27%  Similarity=0.303  Sum_probs=25.7

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      =+.+.+|++.+|.|++|+|||||+ .+|...
T Consensus        20 ~~~i~~Ge~~~i~G~nGsGKSTLl-~~l~g~   49 (232)
T cd03300          20 SLDIKEGEFFTLLGPSGCGKTTLL-RLIAGF   49 (232)
T ss_pred             eEEECCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            467889999999999999999998 666643

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=89.60  E-value=3.3  Score=38.88  Aligned_cols=22  Identities=23%  Similarity=0.447  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +++|+|++|+|||||. ..+.++
T Consensus        20 ~i~ivG~~~~GKStli-n~l~~~   41 (179)
T TIGR03598        20 EIAFAGRSNVGKSSLI-NALTNR   41 (179)
T ss_pred             EEEEEcCCCCCHHHHH-HHHhCC
Confidence            6689999999999997 667654

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=89.60  E-value=0.28  Score=52.21  Aligned_cols=31  Identities=16%  Similarity=0.319  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 ~vsl~i~~Ge~~~llG~sGsGKSTLL-r~iaG   52 (356)
T PRK11650         22 GIDLDVADGEFIVLVGPSGCGKSTLL-RMVAG   52 (356)
T ss_pred             eeeEEEcCCCEEEEECCCCCcHHHHH-HHHHC
Confidence            35578899999999999999999998 77764

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=89.59  E-value=0.29  Score=52.05  Aligned_cols=30  Identities=20%  Similarity=0.305  Sum_probs=26.2

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        25 isl~i~~Ge~~~llGpsGsGKSTLL-r~IaG   54 (351)
T PRK11432         25 LNLTIKQGTMVTLLGPSGCGKTTVL-RLVAG   54 (351)
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHH-HHHHC
Confidence            4577889999999999999999998 77764

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=89.59  E-value=2.7  Score=37.46  Aligned_cols=19  Identities=26%  Similarity=0.490  Sum_probs=15.7

Q ss_pred             eeeeccCCCCchHhHHHHHH
Q psy13776        209 ELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.+.|.+|+||||++ ..+.
T Consensus         2 ii~~G~pgsGKSt~a-~~l~   20 (143)
T PF13671_consen    2 IILCGPPGSGKSTLA-KRLA   20 (143)
T ss_dssp             EEEEESTTSSHHHHH-HHHH
T ss_pred             EEEECCCCCCHHHHH-HHHH
Confidence            468999999999998 5554

...

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=89.55  E-value=0.33  Score=45.70  Aligned_cols=31  Identities=23%  Similarity=0.433  Sum_probs=26.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        21 i~~~i~~G~~~~l~G~nGsGKstLl-~~i~G~   51 (171)
T cd03228          21 VSLTIKPGEKVAIVGPSGSGKSTLL-KLLLRL   51 (171)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHcC
Confidence            3467889999999999999999998 666643

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14252 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.54  E-value=0.31  Score=49.07  Aligned_cols=31  Identities=16%  Similarity=0.200  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ .+|..
T Consensus        34 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   64 (265)
T PRK14252         34 NINMMVHEKQVTALIGPSGCGKSTFL-RCFNR   64 (265)
T ss_pred             eeEEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            44567889999999999999999998 66653

>CHL00176 ftsH cell division protein; Validated

Probab=89.50  E-value=0.85  Score=52.48  Aligned_cols=23  Identities=39%  Similarity=0.554  Sum_probs=19.6

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+++ ..+++...
T Consensus       219 VLL~GPpGTGKT~LA-ralA~e~~  241 (638)
T CHL00176        219 VLLVGPPGTGKTLLA-KAIAGEAE  241 (638)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHhC
Confidence            899999999999999 77776543

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=89.49  E-value=0.3  Score=51.91  Aligned_cols=30  Identities=23%  Similarity=0.312  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+
T Consensus        23 ~vsl~i~~Gei~gIiG~sGaGKSTLl-r~I~   52 (343)
T TIGR02314        23 NVSLHVPAGQIYGVIGASGAGKSTLI-RCVN   52 (343)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            44577889999999999999999998 6555

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK13639 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.49  E-value=0.31  Score=49.59  Aligned_cols=31  Identities=16%  Similarity=0.203  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 ~vsl~i~~Ge~~~l~G~nGsGKSTLl-~~i~G   50 (275)
T PRK13639         20 GINFKAEKGEMVALLGPNGAGKSTLF-LHFNG   50 (275)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34478889999999999999999998 66653

>PRK14254 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.49  E-value=0.31  Score=49.99  Aligned_cols=30  Identities=23%  Similarity=0.274  Sum_probs=25.5

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|-+|++.+|+|++|+|||||+ .+|..
T Consensus        58 is~~i~~Ge~~~I~G~nGsGKSTLl-~~l~G   87 (285)
T PRK14254         58 VSMDIPENQVTAMIGPSGCGKSTFL-RCINR   87 (285)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3467889999999999999999998 66653

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.49  E-value=0.31  Score=49.71  Aligned_cols=32  Identities=25%  Similarity=0.312  Sum_probs=27.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+..
T Consensus        25 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~Gl   56 (279)
T PRK13650         25 DVSFHVKQGEWLSIIGHNGSGKSTTV-RLIDGL   56 (279)
T ss_pred             eeEEEEeCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            44578899999999999999999998 666643

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=89.45  E-value=0.28  Score=45.16  Aligned_cols=28  Identities=29%  Similarity=0.478  Sum_probs=24.1

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        21 ~~~~~Ge~~~i~G~nGsGKStLl-~~l~G   48 (144)
T cd03221          21 LTINPGDRIGLVGRNGAGKSTLL-KLIAG   48 (144)
T ss_pred             EEECCCCEEEEECCCCCCHHHHH-HHHcC
Confidence            46779999999999999999998 66653

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.41  E-value=0.32  Score=49.94  Aligned_cols=32  Identities=22%  Similarity=0.325  Sum_probs=26.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|+..
T Consensus        25 ~vs~~i~~Ge~~~i~G~nGaGKSTLl-~~l~Gl   56 (287)
T PRK13637         25 NVNIEIEDGEFVGLIGHTGSGKSTLI-QHLNGL   56 (287)
T ss_pred             eeEEEEcCCCEEEEECCCCCcHHHHH-HHHhcC
Confidence            33478889999999999999999998 677643

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=89.37  E-value=0.4  Score=50.17  Aligned_cols=24  Identities=38%  Similarity=0.491  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      .+++|||+|.|||||| ..|+|...
T Consensus        54 HvLl~GPPGlGKTTLA-~IIA~Emg   77 (332)
T COG2255          54 HVLLFGPPGLGKTTLA-HIIANELG   77 (332)
T ss_pred             eEEeeCCCCCcHHHHH-HHHHHHhc
Confidence            4679999999999999 56665543

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.37  E-value=0.32  Score=49.48  Aligned_cols=29  Identities=21%  Similarity=0.384  Sum_probs=25.5

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        25 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   53 (274)
T PRK13647         25 SLSIPEGSKTALLGPNGAGKSTLL-LHLNG   53 (274)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHH-HHHhc
Confidence            368889999999999999999998 66664

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.36  E-value=0.32  Score=49.69  Aligned_cols=32  Identities=28%  Similarity=0.438  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        25 ~v~l~i~~Ge~~~I~G~nGaGKSTLl-~~l~G~   56 (282)
T PRK13640         25 DISFSIPRGSWTALIGHNGSGKSTIS-KLINGL   56 (282)
T ss_pred             eEEEEEcCCCEEEEECCCCCcHHHHH-HHHhcc
Confidence            33467889999999999999999998 667643

>PRK14263 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.33  E-value=0.33  Score=49.05  Aligned_cols=30  Identities=30%  Similarity=0.443  Sum_probs=25.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ ..|.
T Consensus        26 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~l~   55 (261)
T PRK14263         26 DSHVPIRKNEITGFIGPSGCGKSTVL-RSLN   55 (261)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHH
Confidence            33567889999999999999999998 5554

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=89.33  E-value=0.32  Score=48.66  Aligned_cols=28  Identities=21%  Similarity=0.381  Sum_probs=24.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+.+|+..+|+|++|+|||||+ ..|.
T Consensus        22 s~~i~~Ge~~~l~G~nGsGKSTLl-~~l~   49 (255)
T PRK11231         22 SLSLPTGKITALIGPNGCGKSTLL-KCFA   49 (255)
T ss_pred             eeEEcCCcEEEEECCCCCCHHHHH-HHHh
Confidence            367889999999999999999998 5555

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.32  E-value=0.31  Score=49.15  Aligned_cols=31  Identities=23%  Similarity=0.269  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ .+|..
T Consensus        28 ~vs~~i~~Ge~~~i~G~nGsGKSTLl-~~iaG   58 (257)
T PRK14246         28 DITIKIPNNSIFGIMGPSGSGKSTLL-KVLNR   58 (257)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34477889999999999999999998 66663

>PRK11022 dppD dipeptide transporter ATP-binding subunit; Provisional

Probab=89.28  E-value=0.31  Score=51.15  Aligned_cols=30  Identities=20%  Similarity=0.329  Sum_probs=26.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|.+|+..+|+|++|+|||||+ .+|+.
T Consensus        26 vsl~i~~Ge~~~lvG~sGsGKSTL~-~~l~G   55 (326)
T PRK11022         26 ISYSVKQGEVVGIVGESGSGKSVSS-LAIMG   55 (326)
T ss_pred             eEEEECCCCEEEEECCCCChHHHHH-HHHHc
Confidence            3488999999999999999999998 56654

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=89.25  E-value=0.33  Score=51.68  Aligned_cols=31  Identities=26%  Similarity=0.405  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-.|+..+|+|++|+|||||+ .+|+.
T Consensus        22 ~vs~~i~~Ge~~~l~GpsGsGKSTLL-r~iaG   52 (353)
T TIGR03265        22 DISLSVKKGEFVCLLGPSGCGKTTLL-RIIAG   52 (353)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHHC
Confidence            35577889999999999999999998 77764

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.20  E-value=0.34  Score=49.54  Aligned_cols=31  Identities=23%  Similarity=0.342  Sum_probs=26.4

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|+..
T Consensus        26 vsl~i~~Ge~~~i~G~nGaGKSTLl-~~i~G~   56 (279)
T PRK13635         26 VSFSVYEGEWVAIVGHNGSGKSTLA-KLLNGL   56 (279)
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHH-HHHhcC
Confidence            3478889999999999999999998 777643

>PRK14259 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.19  E-value=0.32  Score=49.29  Aligned_cols=30  Identities=23%  Similarity=0.414  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        32 is~~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   61 (269)
T PRK14259         32 VFCDIPRGKVTALIGPSGCGKSTVL-RSLNR   61 (269)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3478889999999999999999998 66653

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=89.18  E-value=0.39  Score=39.08  Aligned_cols=20  Identities=40%  Similarity=0.569  Sum_probs=17.8

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      -.+|.|+.|+|||||+ |+|.
T Consensus        25 ~tli~G~nGsGKSTll-DAi~   44 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLL-DAIQ   44 (62)
T ss_pred             EEEEECCCCCCHHHHH-HHHH
Confidence            5789999999999997 8776

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=89.18  E-value=0.35  Score=47.85  Aligned_cols=30  Identities=30%  Similarity=0.499  Sum_probs=25.5

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|-+|++.+|+|++|+|||||+ ..|..
T Consensus        18 is~~i~~Ge~~~i~G~nG~GKStLl-~~l~G   47 (235)
T cd03299          18 VSLEVERGDYFVILGPTGSGKSVLL-ETIAG   47 (235)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3477889999999999999999998 66653

ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK14236 phosphate transporter ATP-binding protein; Provisional

Probab=89.18  E-value=0.35  Score=49.08  Aligned_cols=31  Identities=23%  Similarity=0.290  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        43 ~vs~~i~~Ge~~~I~G~nGsGKSTLl-~~laG   73 (272)
T PRK14236         43 DISMRIPKNRVTAFIGPSGCGKSTLL-RCFNR   73 (272)
T ss_pred             eEEEEEcCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            33467889999999999999999998 66653

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=89.16  E-value=0.34  Score=50.05  Aligned_cols=30  Identities=17%  Similarity=0.224  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|+.|+|||||+ .+|+.
T Consensus        21 is~~i~~Gei~~l~G~NGaGKTTLl-~~l~G   50 (301)
T TIGR03522        21 VSFEAQKGRIVGFLGPNGAGKSTTM-KIITG   50 (301)
T ss_pred             eEEEEeCCeEEEEECCCCCCHHHHH-HHHhC
Confidence            3477889999999999999999998 66764

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=89.02  E-value=0.29  Score=49.31  Aligned_cols=27  Identities=22%  Similarity=0.322  Sum_probs=23.0

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~i~~Ge~~~i~G~NGsGKSTLl-k~L~G   47 (246)
T cd03237          21 SISESEVIGILGPNGIGKTTFI-KMLAG   47 (246)
T ss_pred             CcCCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3568999999999999999998 66653

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.00  E-value=0.36  Score=49.14  Aligned_cols=31  Identities=23%  Similarity=0.250  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ ..|+.
T Consensus        22 ~vsl~i~~Ge~~~i~G~NGsGKSTLl-~~l~G   52 (277)
T PRK13652         22 NINFIAPRNSRIAVIGPNGAGKSTLF-RHFNG   52 (277)
T ss_pred             EeEEEEcCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            34478889999999999999999998 66664

>PRK09580 sufC cysteine desulfurase ATPase component; Reviewed

Probab=88.99  E-value=0.3  Score=48.35  Aligned_cols=29  Identities=24%  Similarity=0.459  Sum_probs=24.9

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|++.+|+|++|+|||||+ .+|+.
T Consensus        21 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   49 (248)
T PRK09580         21 NLEVRPGEVHAIMGPNGSGKSTLS-ATLAG   49 (248)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHH-HHHcC
Confidence            366789999999999999999998 66653

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=88.97  E-value=0.36  Score=49.14  Aligned_cols=32  Identities=28%  Similarity=0.325  Sum_probs=27.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|+..
T Consensus        20 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~Gl   51 (274)
T PRK13644         20 NINLVIKKGEYIGIIGKNGSGKSTLA-LHLNGL   51 (274)
T ss_pred             eeEEEEeCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            44578889999999999999999998 777643

>cd03288 ABCC_SUR2 The SUR domain 2

Probab=88.87  E-value=0.39  Score=48.27  Aligned_cols=29  Identities=28%  Similarity=0.329  Sum_probs=25.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        41 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   69 (257)
T cd03288          41 KAYIKPGQKVGICGRTGSGKSSLS-LAFFR   69 (257)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHHc
Confidence            467889999999999999999998 66653

The sulfonylurea receptor SUR is an ATP binding cassette (ABC) protein of the ABCC/MRP family. Unlike other ABC proteins, it has no intrinsic transport function, neither active nor passive, but associates with the potassium channel proteins Kir6.1 or Kir6.2 to form the ATP-sensitive potassium (K(ATP)) channel. Within the channel complex, SUR serves as a regulatory subunit that fine-tunes the gating of Kir6.x in response to alterations in cellular metabolism. It constitutes a major pharmaceutical target as it binds numerous drugs, K(ATP) channel openers and blockers, capable of up- or down-regulating channel activity.

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=88.83  E-value=0.35  Score=48.43  Aligned_cols=29  Identities=21%  Similarity=0.279  Sum_probs=25.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl-~~i~G   49 (256)
T TIGR03873        21 DVTAPPGSLTGLLGPNGSGKSTLL-RLLAG   49 (256)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHH-HHHcC
Confidence            367789999999999999999998 66654

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=88.81  E-value=0.33  Score=41.88  Aligned_cols=23  Identities=26%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.|+|++|+|||||. ..+++..
T Consensus         1 kI~V~G~~g~GKTsLi-~~l~~~~   23 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLI-RRLCGGE   23 (119)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSS
T ss_pred             CEEEECcCCCCHHHHH-HHHhcCC
Confidence            7899999999999997 6666543

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=88.80  E-value=0.28  Score=49.56  Aligned_cols=24  Identities=29%  Similarity=0.559  Sum_probs=22.1

Q ss_pred             eeeccccceeeeeccCCCCchHhH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      =+.+-+|+.+.|+|++|+|||||+
T Consensus        22 ~l~v~~Gevv~iiGpSGSGKSTlL   45 (240)
T COG1126          22 SLSVEKGEVVVIIGPSGSGKSTLL   45 (240)
T ss_pred             ceeEcCCCEEEEECCCCCCHHHHH
Confidence            467889999999999999999997

>PRK14258 phosphate ABC transporter ATP-binding protein; Provisional

Probab=88.80  E-value=0.37  Score=48.55  Aligned_cols=30  Identities=20%  Similarity=0.261  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        26 is~~i~~Ge~~~I~G~nGsGKSTLl-~~l~G   55 (261)
T PRK14258         26 VSMEIYQSKVTAIIGPSGCGKSTFL-KCLNR   55 (261)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            3467889999999999999999998 66663

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=88.77  E-value=3.7  Score=43.27  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=20.1

Q ss_pred             cccceeeeeccCCCCchHhHHHHHH
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+|+.++++|++|+||||++ ..++
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~-~kLA  135 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTI-GKLA  135 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHH-HHHH
Confidence            56889999999999999998 3444

>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork

Probab=88.70  E-value=0.49  Score=47.52  Aligned_cols=43  Identities=28%  Similarity=0.460  Sum_probs=32.7

Q ss_pred             ccccceeeeeee-eccccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        190 LSAGIKAVDSLV-PIGRGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       190 l~TGIraID~l~-pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +.||++.+|-++ .+-+|+=..|-|.+|.|||++++....|...
T Consensus         2 i~TG~~~LD~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~   45 (259)
T PF03796_consen    2 IPTGFPALDRLLGGLRPGELTVIAARPGVGKTAFALQIALNAAL   45 (259)
T ss_dssp             B-SSTHHHHHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCCChHHHHHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHH
Confidence            469999999887 5677888889999999999999766665443

Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....

>PRK12608 transcription termination factor Rho; Provisional

Probab=88.67  E-value=0.26  Score=53.22  Aligned_cols=45  Identities=20%  Similarity=0.256  Sum_probs=39.5

Q ss_pred             ceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCC
Q psy13776        430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIR  496 (539)
Q Consensus       430 DGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~  496 (539)
                      +.-||+|..+-.+-                   .++.||.|+.|++.   |+|..+||||+|++|..
T Consensus        44 ~~d~yv~~~~i~~~-------------------~l~~Gd~V~~~~r~---~~~~~~LgrV~~~~G~p   88 (380)
T PRK12608         44 PDDVFVPPALIRRF-------------------NLRTGDVVEGVARP---RERYRVLVRVDSVNGTD   88 (380)
T ss_pred             CCCeeeCHHHHHHh-------------------CCCCCCEEEeccCC---CCChhheEEEeccCCcC
Confidence            34678888888776                   58999999999999   99999999999999944

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=88.52  E-value=0.4  Score=48.84  Aligned_cols=29  Identities=31%  Similarity=0.404  Sum_probs=25.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|.|++|+|||||+ ..|+.
T Consensus        27 ~l~i~~Ge~~~I~G~nGsGKSTLl-~~l~G   55 (277)
T PRK13642         27 SFSITKGEWVSIIGQNGSGKSTTA-RLIDG   55 (277)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHH-HHHhc
Confidence            367889999999999999999998 66663

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=88.51  E-value=1.3  Score=47.84  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=19.7

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||++| ..++++..
T Consensus       168 vLL~GppGtGKT~lA-kaia~~~~  190 (389)
T PRK03992        168 VLLYGPPGTGKTLLA-KAVAHETN  190 (389)
T ss_pred             eEEECCCCCChHHHH-HHHHHHhC
Confidence            789999999999998 77777654

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=88.51  E-value=0.4  Score=50.28  Aligned_cols=29  Identities=21%  Similarity=0.346  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|.+|+..+|+|++|+|||||+ ..|..
T Consensus        46 sl~i~~Ge~~~I~G~nGsGKSTLl-~~L~G   74 (320)
T PRK13631         46 SYTFEKNKIYFIIGNSGSGKSTLV-THFNG   74 (320)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            378889999999999999999998 66654

>PRK13634 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=88.50  E-value=0.4  Score=49.28  Aligned_cols=29  Identities=31%  Similarity=0.414  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        27 sl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   55 (290)
T PRK13634         27 NVSIPSGSYVAIIGHTGSGKSTLL-QHLNG   55 (290)
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHH-HHHhc
Confidence            478889999999999999999998 66653

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=88.47  E-value=2.5  Score=41.86  Aligned_cols=24  Identities=29%  Similarity=0.391  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      -+-|+|++|+|||.|+ ..|+|...
T Consensus        36 ~l~l~G~~G~GKTHLL-~Ai~~~~~   59 (219)
T PF00308_consen   36 PLFLYGPSGLGKTHLL-QAIANEAQ   59 (219)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHHHH
T ss_pred             ceEEECCCCCCHHHHH-HHHHHHHH
Confidence            3569999999999997 67776643

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=88.46  E-value=2.5  Score=46.13  Aligned_cols=27  Identities=19%  Similarity=0.139  Sum_probs=21.4

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+|..++++|+.|+||||++ ..++.
T Consensus       202 ~~~~~~ii~lvGptGvGKTTt~-akLA~  228 (407)
T PRK12726        202 DLSNHRIISLIGQTGVGKTTTL-VKLGW  228 (407)
T ss_pred             eecCCeEEEEECCCCCCHHHHH-HHHHH
Confidence            3567888899999999999998 34443

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=88.44  E-value=0.42  Score=46.42  Aligned_cols=30  Identities=20%  Similarity=0.236  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+ +..+|+|++|+|||||+ .+|..
T Consensus        16 ~vsl~i~~-e~~~i~G~nGsGKSTLl-~~l~G   45 (214)
T cd03297          16 KIDFDLNE-EVTGIFGASGAGKSTLL-RCIAG   45 (214)
T ss_pred             CceEEEcc-eeEEEECCCCCCHHHHH-HHHhC
Confidence            77889999 99999999999999998 66653

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=88.36  E-value=0.4  Score=51.58  Aligned_cols=31  Identities=23%  Similarity=0.313  Sum_probs=27.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        32 ~vsl~i~~Ge~~~LlGpsGsGKSTLL-r~IaG   62 (375)
T PRK09452         32 NLDLTINNGEFLTLLGPSGCGKTTVL-RLIAG   62 (375)
T ss_pred             eeEEEEeCCCEEEEECCCCCcHHHHH-HHHhC
Confidence            34578899999999999999999998 77774

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=88.35  E-value=0.51  Score=50.03  Aligned_cols=31  Identities=26%  Similarity=0.288  Sum_probs=27.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        15 ~isl~i~~Gei~~l~G~nGsGKSTLl-~~iaG   45 (354)
T TIGR02142        15 DADFTLPGQGVTAIFGRSGSGKTTLI-RLIAG   45 (354)
T ss_pred             EEEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            66788999999999999999999998 66663

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=88.30  E-value=0.4  Score=51.25  Aligned_cols=31  Identities=26%  Similarity=0.374  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~vsl~i~~Ge~~~l~G~nGsGKSTLL-~~iaG   51 (369)
T PRK11000         21 DINLDIHEGEFVVFVGPSGCGKSTLL-RMIAG   51 (369)
T ss_pred             eeEEEEcCCCEEEEECCCCCcHHHHH-HHHhC
Confidence            34467889999999999999999998 66663

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=88.24  E-value=3.1  Score=45.19  Aligned_cols=125  Identities=13%  Similarity=0.102  Sum_probs=62.9

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHH-----HHhhhcc
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQA-----VAYRQDE  278 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a-----~~~~~~~  278 (539)
                      .+++.+.++|+.|+||||.+ ..+++......                  ...++.+.+|.-|-++.+     ..|...-
T Consensus       172 ~~~~vi~lvGptGvGKTTT~-aKLA~~~~~~~------------------~~~g~~V~lit~Dt~R~aa~eQL~~~a~~l  232 (388)
T PRK12723        172 LKKRVFILVGPTGVGKTTTI-AKLAAIYGINS------------------DDKSLNIKIITIDNYRIGAKKQIQTYGDIM  232 (388)
T ss_pred             CCCeEEEEECCCCCCHHHHH-HHHHHHHHhhh------------------ccCCCeEEEEeccCccHHHHHHHHHHhhcC
Confidence            45678899999999999998 44554322100                  001222222322222211     1111101


Q ss_pred             cCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCC--CcEEEEecChhH
Q psy13776        279 KKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNG--KHALIIYDDLSK  356 (539)
Q Consensus       279 ~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~G--kdVLli~DslTr  356 (539)
                        ++-   +.+..-..++.+.++.+     .++-+|++-|+..++-.    .+.-..+.+++...+  .++++++|-.++
T Consensus       233 --gvp---v~~~~~~~~l~~~L~~~-----~~~DlVLIDTaGr~~~~----~~~l~el~~~l~~~~~~~e~~LVlsat~~  298 (388)
T PRK12723        233 --GIP---VKAIESFKDLKEEITQS-----KDFDLVLVDTIGKSPKD----FMKLAEMKELLNACGRDAEFHLAVSSTTK  298 (388)
T ss_pred             --Ccc---eEeeCcHHHHHHHHHHh-----CCCCEEEEcCCCCCccC----HHHHHHHHHHHHhcCCCCeEEEEEcCCCC
Confidence              111   12233334444444443     24668889888777632    222223444444433  269999999888


Q ss_pred             HHHHh
Q psy13776        357 QAVAY  361 (539)
Q Consensus       357 ~A~A~  361 (539)
                      .....
T Consensus       299 ~~~~~  303 (388)
T PRK12723        299 TSDVK  303 (388)
T ss_pred             HHHHH
Confidence            55544

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=88.20  E-value=1.2  Score=45.54  Aligned_cols=34  Identities=29%  Similarity=0.505  Sum_probs=24.1

Q ss_pred             cccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++-+..|..+-++          ++.|++|||||++. .++++.-
T Consensus        43 t~~Fl~G~pannv----------LL~G~rGtGKSSlV-kall~~y   76 (249)
T PF05673_consen   43 TEQFLQGLPANNV----------LLWGARGTGKSSLV-KALLNEY   76 (249)
T ss_pred             HHHHHcCCCCcce----------EEecCCCCCHHHHH-HHHHHHH
Confidence            5556666555544          57899999999997 5666544

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=88.15  E-value=0.43  Score=50.46  Aligned_cols=31  Identities=26%  Similarity=0.265  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        23 ~vsl~i~~Gei~~iiG~nGsGKSTLl-k~L~G   53 (343)
T PRK11153         23 NVSLHIPAGEIFGVIGASGAGKSTLI-RCINL   53 (343)
T ss_pred             eeEEEEcCCCEEEEECCCCCcHHHHH-HHHhC
Confidence            34477889999999999999999998 66653

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=88.15  E-value=0.37  Score=53.27  Aligned_cols=30  Identities=23%  Similarity=0.378  Sum_probs=26.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+||+++|.|++|+|||||+ +.+.
T Consensus       353 ~isl~i~~G~~vaIvG~SGsGKSTLl-~lL~  382 (529)
T TIGR02868       353 GVSLDLPPGERVAILGPSGSGKSTLL-MLLT  382 (529)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            44578889999999999999999998 6665

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=88.14  E-value=0.42  Score=50.60  Aligned_cols=30  Identities=20%  Similarity=0.357  Sum_probs=25.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|+..+|+|+.|+|||||+ .+|+.
T Consensus        60 is~~i~~Gei~gLlGpNGaGKSTLl-~~L~G   89 (340)
T PRK13536         60 LSFTVASGECFGLLGPNGAGKSTIA-RMILG   89 (340)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHHc
Confidence            3468899999999999999999997 66764

>PRK03695 vitamin B12-transporter ATPase; Provisional

Probab=88.02  E-value=0.39  Score=48.04  Aligned_cols=30  Identities=17%  Similarity=0.279  Sum_probs=25.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        14 ~vsl~i~~Gei~~l~G~nGsGKSTLl-~~l~   43 (248)
T PRK03695         14 PLSAEVRAGEILHLVGPNGAGKSTLL-ARMA   43 (248)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHc
Confidence            33467889999999999999999998 5554

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=87.97  E-value=0.44  Score=48.59  Aligned_cols=32  Identities=22%  Similarity=0.416  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|...
T Consensus        28 ~vs~~i~~Ge~~~l~G~nGsGKSTLl-~~l~Gl   59 (280)
T PRK13633         28 DVNLEVKKGEFLVILGRNGSGKSTIA-KHMNAL   59 (280)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            34567889999999999999999998 666633

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=87.88  E-value=0.41  Score=46.32  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.|+|++|+||||+| ..|.+.
T Consensus         2 riiilG~pGaGK~T~A-~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLA-KKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHH-HHHHHH
Confidence            7899999999999999 666654

>PRK09183 transposase/IS protein; Provisional

Probab=87.82  E-value=0.31  Score=49.68  Aligned_cols=28  Identities=29%  Similarity=0.389  Sum_probs=23.5

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.+|+.+.|+|++|+|||+|+ ..|.++.
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa-~al~~~a  126 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLA-IALGYEA  126 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHH-HHHHHHH
Confidence            778999999999999999999 4555543

>PRK14257 phosphate ABC transporter ATP-binding protein; Provisional

Probab=87.69  E-value=0.48  Score=49.94  Aligned_cols=32  Identities=22%  Similarity=0.294  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|-+|++.+|+|++|+|||||+ .+|+..
T Consensus       100 ~is~~I~~Ge~v~IvG~~GsGKSTLl-~~L~g~  131 (329)
T PRK14257        100 DLNLDIKRNKVTAFIGPSGCGKSTFL-RNLNQL  131 (329)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhcc
Confidence            34567889999999999999999998 666643

>PRK06921 hypothetical protein; Provisional

Probab=87.65  E-value=1.4  Score=45.26  Aligned_cols=26  Identities=27%  Similarity=0.381  Sum_probs=20.9

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.-+.++|++|+|||+|+ ..|+++.
T Consensus       116 ~~~~l~l~G~~G~GKThLa-~aia~~l  141 (266)
T PRK06921        116 RKNSIALLGQPGSGKTHLL-TAAANEL  141 (266)
T ss_pred             CCCeEEEECCCCCcHHHHH-HHHHHHH
Confidence            4667899999999999998 5666543

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=87.64  E-value=0.49  Score=48.41  Aligned_cols=32  Identities=22%  Similarity=0.366  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ ..|...
T Consensus        24 ~vs~~i~~Ge~~~i~G~nGaGKSTLl-~~i~Gl   55 (283)
T PRK13636         24 GININIKKGEVTAILGGNGAGKSTLF-QNLNGI   55 (283)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            34577889999999999999999998 666643

>TIGR00665 DnaB replicative DNA helicase

Probab=87.63  E-value=0.75  Score=49.83  Aligned_cols=45  Identities=20%  Similarity=0.304  Sum_probs=37.4

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ...+.||+..+|-++- +-+|+=+.|-|.+|+|||++++..+.+..
T Consensus       175 ~~gi~tG~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a  220 (434)
T TIGR00665       175 ITGVPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAA  220 (434)
T ss_pred             CCcccCCchhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHH
Confidence            3457899999999874 77899999999999999999977666543

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>TIGR00235 udk uridine kinase

Probab=87.63  E-value=0.43  Score=46.41  Aligned_cols=25  Identities=36%  Similarity=0.377  Sum_probs=20.7

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|..++|.|++|+|||||+ ..|.+.
T Consensus         5 ~g~vi~I~G~sGsGKSTl~-~~l~~~   29 (207)
T TIGR00235         5 KGIIIGIGGGSGSGKTTVA-RKIYEQ   29 (207)
T ss_pred             CeEEEEEECCCCCCHHHHH-HHHHHH
Confidence            5788999999999999998 556543

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK08084 DNA replication initiation factor; Provisional

Probab=87.60  E-value=0.89  Score=45.42  Aligned_cols=25  Identities=8%  Similarity=0.098  Sum_probs=19.8

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +..+.|+|++|+|||+|+ ..++++.
T Consensus        45 ~~~l~l~Gp~G~GKThLl-~a~~~~~   69 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLL-HAACAEL   69 (235)
T ss_pred             CCeEEEECCCCCCHHHHH-HHHHHHH
Confidence            356789999999999998 4566554

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=87.57  E-value=2.1  Score=47.12  Aligned_cols=24  Identities=17%  Similarity=0.308  Sum_probs=19.1

Q ss_pred             cccceeeeeccCCCCchHhHHHHHH
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .++..++++|++|+||||++. .++
T Consensus       221 ~~~~vi~lvGptGvGKTTtaa-KLA  244 (432)
T PRK12724        221 NQRKVVFFVGPTGSGKTTSIA-KLA  244 (432)
T ss_pred             CCCeEEEEECCCCCCHHHHHH-HHH
Confidence            355678999999999999984 444

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=87.55  E-value=0.46  Score=48.49  Aligned_cols=30  Identities=37%  Similarity=0.465  Sum_probs=25.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|.|+||+|..|+|||||+ ..|.
T Consensus        45 disf~i~~Ge~vGiiG~NGaGKSTLl-klia   74 (249)
T COG1134          45 DISFEIYKGERVGIIGHNGAGKSTLL-KLIA   74 (249)
T ss_pred             CceEEEeCCCEEEEECCCCCcHHHHH-HHHh
Confidence            55688999999999999999999997 4444

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=87.54  E-value=0.46  Score=44.67  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=19.8

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.+.|.|++|+|||||+ ..+++.
T Consensus         1 ~~~~~i~G~sGsGKttl~-~~l~~~   24 (179)
T TIGR02322         1 GRLIYVVGPSGAGKDTLL-DYARAR   24 (179)
T ss_pred             CcEEEEECCCCCCHHHHH-HHHHHH
Confidence            567899999999999998 666554

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=87.49  E-value=1.3  Score=49.00  Aligned_cols=23  Identities=35%  Similarity=0.544  Sum_probs=19.4

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+++ ..|++...
T Consensus        91 iLL~GppGtGKT~la-~alA~~~~  113 (495)
T TIGR01241        91 VLLVGPPGTGKTLLA-KAVAGEAG  113 (495)
T ss_pred             EEEECCCCCCHHHHH-HHHHHHcC
Confidence            789999999999998 67776543

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=87.43  E-value=1.9  Score=46.96  Aligned_cols=26  Identities=31%  Similarity=0.450  Sum_probs=21.1

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +.-+++.|++|||||+|+ ..+++...
T Consensus       179 pkgvLL~GppGTGKT~LA-kalA~~l~  204 (398)
T PTZ00454        179 PRGVLLYGPPGTGKTMLA-KAVAHHTT  204 (398)
T ss_pred             CceEEEECCCCCCHHHHH-HHHHHhcC
Confidence            345899999999999998 77776643

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=87.38  E-value=0.48  Score=49.28  Aligned_cols=29  Identities=21%  Similarity=0.328  Sum_probs=25.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|+..+|+|+.|+|||||+ .+|+.
T Consensus        27 sl~i~~Gei~gllGpNGaGKSTLl-~~l~G   55 (306)
T PRK13537         27 SFHVQRGECFGLLGPNGAGKTTTL-RMLLG   55 (306)
T ss_pred             eEEEeCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            467889999999999999999997 66664

>TIGR03269 met_CoM_red_A2 methyl coenzyme M reductase system, component A2

Probab=87.35  E-value=0.47  Score=52.56  Aligned_cols=32  Identities=22%  Similarity=0.299  Sum_probs=26.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ .+|+..
T Consensus        18 ~is~~i~~Ge~~~iiG~nGsGKSTLl-~~l~Gl   49 (520)
T TIGR03269        18 NISFTIEEGEVLGILGRSGAGKSVLM-HVLRGM   49 (520)
T ss_pred             ceeEEEcCCCEEEEECCCCCCHHHHH-HHHhhc
Confidence            34568889999999999999999998 666643

The enzyme that catalyzes the final step in methanogenesis, methyl coenzyme M reductase, contains alpha, beta, and gamma chains. In older literature, the complex of alpha, beta, and gamma chains was termed component C, while this single chain protein was termed methyl coenzyme M reductase system component A2.

>COG1156 NtpB Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

Probab=87.35  E-value=0.37  Score=52.37  Aligned_cols=56  Identities=32%  Similarity=0.516  Sum_probs=48.2

Q ss_pred             hccCcCCCCCCCcccEEecccccccccce-eeeccceeecccccccchhhccccCCC
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDI-VKRTGAIVDVPVGEDLLGRVVDALGIR  496 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~t~~~~~~~~~~~~l~~v~~~lg~~  496 (539)
                      .+|.++.++.+.+=+-||+.-+-+--.+. |+-||..++|||++.+|||+.|.+|..
T Consensus        42 r~gqVle~~~~~a~vQVfegT~Gl~~~~t~vrF~g~~l~i~vs~dllGRifnG~G~P   98 (463)
T COG1156          42 RRGQVLEVRGDKAVVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKP   98 (463)
T ss_pred             eeeeEeeccCceEEEEEeecccCCCCCCceEEEeCceEEEeecHHhhhhhhcCCCCc
Confidence            35666777778888889998888887777 999999999999999999999999954

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=87.32  E-value=0.48  Score=47.83  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=23.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      |.=+.|-+|.-+.|.|++|+|||||+
T Consensus        23 ~v~l~i~~Ge~vaI~GpSGSGKSTLL   48 (226)
T COG1136          23 DVNLEIEAGEFVAIVGPSGSGKSTLL   48 (226)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH
Confidence            45678999999999999999999998

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=87.29  E-value=0.47  Score=50.83  Aligned_cols=35  Identities=31%  Similarity=0.422  Sum_probs=28.7

Q ss_pred             cceeee-eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        193 GIKAVD-SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       193 GIraID-~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +..++| .=+.|-+|.-..+.||+||||||++ -+|+
T Consensus        17 ~~~av~~isl~i~~Gef~~lLGPSGcGKTTlL-R~IA   52 (352)
T COG3842          17 DFTAVDDISLDIKKGEFVTLLGPSGCGKTTLL-RMIA   52 (352)
T ss_pred             CeeEEecceeeecCCcEEEEECCCCCCHHHHH-HHHh
Confidence            345555 6678999999999999999999998 5565

>KOG0733|consensus

Probab=87.21  E-value=1.9  Score=49.38  Aligned_cols=163  Identities=21%  Similarity=0.217  Sum_probs=81.1

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhhccccccccccccCC-CccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEE
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGC-AMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYV  287 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~-~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~  287 (539)
                      +++-||+|||||.|| .+|+++...  +-+.-=|+-.-. ..||    .++.    .++++.+|..+.      .++||.
T Consensus       226 vLlHGPPGCGKT~lA-~AiAgel~v--Pf~~isApeivSGvSGE----SEkk----iRelF~~A~~~a------PcivFi  288 (802)
T KOG0733|consen  226 VLLHGPPGCGKTSLA-NAIAGELGV--PFLSISAPEIVSGVSGE----SEKK----IRELFDQAKSNA------PCIVFI  288 (802)
T ss_pred             eeeeCCCCccHHHHH-HHHhhhcCC--ceEeecchhhhcccCcc----cHHH----HHHHHHHHhccC------CeEEEe
Confidence            468999999999999 889988653  111111111111 1222    2222    356666777532      244554


Q ss_pred             ----eeccchhHH---------HHHHHHHhc---CCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEe
Q psy13776        288 ----AIGQKRSTV---------AQIVKRLTD---SGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIY  351 (539)
Q Consensus       288 ----~IGer~~ev---------~e~~~~l~~---~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~  351 (539)
                          ||+-++.+.         ++++.-+.+   .+.-...|+|.+..+.|-.+     .-|+-.|=+|   -+..-+=+
T Consensus       289 DeIDAI~pkRe~aqreMErRiVaQLlt~mD~l~~~~~~g~~VlVIgATnRPDsl-----DpaLRRaGRF---drEI~l~v  360 (802)
T KOG0733|consen  289 DEIDAITPKREEAQREMERRIVAQLLTSMDELSNEKTKGDPVLVIGATNRPDSL-----DPALRRAGRF---DREICLGV  360 (802)
T ss_pred             ecccccccchhhHHHHHHHHHHHHHHHhhhcccccccCCCCeEEEecCCCCccc-----CHHHhccccc---cceeeecC
Confidence                788776553         333333322   11112346666666665432     1122222222   00111112


Q ss_pred             cChhHHHHHhHHhhhccCCCCC------CCCCCCchhhchhHHHHhhhccc
Q psy13776        352 DDLSKQAVAYRQMSLLLRRPPG------REAYPGDVFYLHSRLLERSAKMS  396 (539)
Q Consensus       352 DslTr~A~A~Reisl~lgepP~------r~gyPg~vf~~~srLlERag~~~  396 (539)
                      =|=+.-.+-++-|..-|+-.+.      .+.-||+|-..+..|.-+||...
T Consensus       361 P~e~aR~~IL~~~~~~lrl~g~~d~~qlA~lTPGfVGADL~AL~~~Aa~vA  411 (802)
T KOG0733|consen  361 PSETAREEILRIICRGLRLSGDFDFKQLAKLTPGFVGADLMALCREAAFVA  411 (802)
T ss_pred             CchHHHHHHHHHHHhhCCCCCCcCHHHHHhcCCCccchhHHHHHHHHHHHH
Confidence            2223333444444444433332      25678888899998888887654

>COG4172 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]

Probab=87.13  E-value=0.53  Score=51.52  Aligned_cols=34  Identities=29%  Similarity=0.690  Sum_probs=28.6

Q ss_pred             ceeeeee-eeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAVDSL-VPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraID~l-~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ++++|.+ +++-+||..||.|.+|+||||+.. +++
T Consensus       300 ~~AVd~isl~L~~gqTlGlVGESGSGKsTlG~-all  334 (534)
T COG4172         300 LRAVDGISLTLRRGQTLGLVGESGSGKSTLGL-ALL  334 (534)
T ss_pred             eEEeccceeEecCCCeEEEEecCCCCcchHHH-HHH
Confidence            5777765 789999999999999999999984 444

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=87.08  E-value=0.49  Score=48.66  Aligned_cols=31  Identities=26%  Similarity=0.411  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=++|-+|.-.+|+|+.|+|||||+ ..|.+
T Consensus        20 ~ls~~i~~G~i~~iiGpNG~GKSTLL-k~l~g   50 (258)
T COG1120          20 DLSFSIPKGEITGILGPNGSGKSTLL-KCLAG   50 (258)
T ss_pred             cceEEecCCcEEEEECCCCCCHHHHH-HHHhc
Confidence            44678889999999999999999998 66653

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=86.98  E-value=0.46  Score=54.39  Aligned_cols=31  Identities=26%  Similarity=0.440  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|++++|+|+.|+|||||+ .+|+.
T Consensus        19 ~vs~~i~~Ge~v~LvG~NGsGKSTLL-kiL~G   49 (638)
T PRK10636         19 NATATINPGQKVGLVGKNGCGKSTLL-ALLKN   49 (638)
T ss_pred             CcEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44578899999999999999999998 66654

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=86.96  E-value=3.1  Score=47.18  Aligned_cols=28  Identities=25%  Similarity=0.425  Sum_probs=22.9

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -++.+|+.++|+|+.|+||||++ ..++.
T Consensus       345 ~~l~~G~vIaLVGPtGvGKTTta-akLAa  372 (559)
T PRK12727        345 DPLERGGVIALVGPTGAGKTTTI-AKLAQ  372 (559)
T ss_pred             ccccCCCEEEEECCCCCCHHHHH-HHHHH
Confidence            45678999999999999999998 44443

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=86.84  E-value=0.56  Score=48.19  Aligned_cols=29  Identities=28%  Similarity=0.480  Sum_probs=25.0

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.|-+|++.+|+|++|+|||||+ .+|..
T Consensus        24 sl~I~~Ge~~~IvG~nGsGKSTLl-~~L~g   52 (275)
T cd03289          24 SFSISPGQRVGLLGRTGSGKSTLL-SAFLR   52 (275)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHH-HHHhh
Confidence            378899999999999999999998 55553

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=86.81  E-value=0.55  Score=50.37  Aligned_cols=30  Identities=23%  Similarity=0.380  Sum_probs=25.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|.+|+..+|+|++|+|||||+ .+|+
T Consensus        11 ~vs~~i~~Gei~~l~G~sGsGKSTLL-r~L~   40 (363)
T TIGR01186        11 DADLAIAKGEIFVIMGLSGSGKSTTV-RMLN   40 (363)
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHH-HHHh
Confidence            44578889999999999999999998 5555

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>TIGR03263 guanyl_kin guanylate kinase

Probab=86.79  E-value=0.46  Score=44.50  Aligned_cols=24  Identities=25%  Similarity=0.475  Sum_probs=20.3

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.+.|.|++|+|||||+ ..+++.
T Consensus         1 g~ii~l~G~~GsGKsTl~-~~L~~~   24 (180)
T TIGR03263         1 GLLIVISGPSGVGKSTLV-KALLEE   24 (180)
T ss_pred             CcEEEEECCCCCCHHHHH-HHHHcc
Confidence            678899999999999998 666653

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>cd04148 RGK RGK subfamily

Probab=86.79  E-value=1.2  Score=43.90  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=17.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.++|++|+|||+|+ ..+.+
T Consensus         2 KI~lvG~~gvGKTsLi-~~~~~   22 (221)
T cd04148           2 RVVMLGSPGVGKSSLA-SQFTS   22 (221)
T ss_pred             EEEEECCCCCcHHHHH-HHHhc
Confidence            6889999999999998 55543

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=86.77  E-value=0.5  Score=52.89  Aligned_cols=32  Identities=19%  Similarity=0.354  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.|=+||+.+|.|++|+|||||+ +.|...
T Consensus       361 ~i~l~i~~G~~~aIvG~sGsGKSTLl-~ll~gl  392 (582)
T PRK11176        361 NINFKIPAGKTVALVGRSGSGKSTIA-NLLTRF  392 (582)
T ss_pred             CceEEeCCCCEEEEECCCCCCHHHHH-HHHHhc
Confidence            34556779999999999999999998 667643

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=86.74  E-value=0.54  Score=46.65  Aligned_cols=28  Identities=25%  Similarity=0.388  Sum_probs=23.6

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+++-.||+..|+|++|+|||||+ +.|+
T Consensus        19 dl~v~~ge~vAi~GpSGaGKSTLL-nLIA   46 (231)
T COG3840          19 DLTVPAGEIVAILGPSGAGKSTLL-NLIA   46 (231)
T ss_pred             EEeecCCcEEEEECCCCccHHHHH-HHHH
Confidence            345668999999999999999997 6555

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=86.73  E-value=7.5  Score=37.20  Aligned_cols=52  Identities=19%  Similarity=0.216  Sum_probs=34.4

Q ss_pred             ChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHH-----HhHHhhhccCCCCC
Q psy13776        322 AAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV-----AYRQMSLLLRRPPG  373 (539)
Q Consensus       322 ~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~-----A~Reisl~lgepP~  373 (539)
                      .+.+....+..+...|......|..=|+|+|.+.--..     .-.-+.++-.||+.
T Consensus        72 ~~~~~~~~a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~  128 (159)
T cd00561          72 NDEEDIAAAAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPED  128 (159)
T ss_pred             ChHHHHHHHHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCC
Confidence            35566677788888888887888888899999864311     11223455556665

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=86.64  E-value=0.51  Score=52.92  Aligned_cols=30  Identities=27%  Similarity=0.455  Sum_probs=25.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ +.+.
T Consensus       368 ~i~l~i~~G~~vaIvG~SGsGKSTL~-~lL~  397 (588)
T PRK11174        368 PLNFTLPAGQRIALVGPSGAGKTSLL-NALL  397 (588)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            33478889999999999999999998 5555

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=86.64  E-value=0.41  Score=44.47  Aligned_cols=22  Identities=36%  Similarity=0.581  Sum_probs=15.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.|.|+++||||||+ ..+..+
T Consensus         1 rI~i~G~~stGKTTL~-~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLI-EALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHH-HHHHHH
T ss_pred             CEEEECCCCCCHHHHH-HHHHHc
Confidence            7899999999999998 556544

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=86.53  E-value=0.48  Score=54.08  Aligned_cols=31  Identities=19%  Similarity=0.379  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|++++|+|++|+|||||+ .+|+.
T Consensus        21 ~is~~i~~Ge~v~LvG~NGsGKSTLL-riiaG   51 (635)
T PRK11147         21 NAELHIEDNERVCLVGRNGAGKSTLM-KILNG   51 (635)
T ss_pred             CcEEEECCCCEEEEECCCCCCHHHHH-HHHcC
Confidence            44578889999999999999999998 66654

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=86.52  E-value=0.6  Score=50.22  Aligned_cols=30  Identities=20%  Similarity=0.320  Sum_probs=26.0

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        38 vsl~i~~Ge~~~llGpsGsGKSTLL-r~IaG   67 (377)
T PRK11607         38 VSLTIYKGEIFALLGASGCGKSTLL-RMLAG   67 (377)
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHH-HHHhC
Confidence            4477889999999999999999998 77763

>PLN03073 ABC transporter F family; Provisional

Probab=86.49  E-value=0.47  Score=55.22  Aligned_cols=30  Identities=27%  Similarity=0.402  Sum_probs=26.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|..|+|++|+|++|+|||||+ .+|+
T Consensus       195 ~isl~i~~Ge~~gLvG~NGsGKSTLL-r~l~  224 (718)
T PLN03073        195 DASVTLAFGRHYGLVGRNGTGKTTFL-RYMA  224 (718)
T ss_pred             CCEEEECCCCEEEEECCCCCCHHHHH-HHHc
Confidence            66789999999999999999999998 5555

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=86.45  E-value=0.6  Score=49.94  Aligned_cols=31  Identities=32%  Similarity=0.413  Sum_probs=26.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        23 ~vsl~i~~Ge~~~llGpsGsGKSTLL-r~iaG   53 (362)
T TIGR03258        23 DLSLEIEAGELLALIGKSGCGKTTLL-RAIAG   53 (362)
T ss_pred             eeEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34567889999999999999999998 77764

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=86.43  E-value=3.4  Score=45.56  Aligned_cols=21  Identities=19%  Similarity=0.346  Sum_probs=16.6

Q ss_pred             ceeeeeccCCCCchHhHHHHHH
Q psy13776        207 QRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ..++++|..|+||||++ ..++
T Consensus       101 ~vi~lvG~~GvGKTTta-aKLA  121 (429)
T TIGR01425       101 NVIMFVGLQGSGKTTTC-TKLA  121 (429)
T ss_pred             eEEEEECCCCCCHHHHH-HHHH
Confidence            35689999999999998 4444

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=86.42  E-value=0.53  Score=52.32  Aligned_cols=30  Identities=27%  Similarity=0.380  Sum_probs=26.0

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|-+|++.+|+|++|+|||||+ ..|+.
T Consensus        20 vsl~i~~Ge~~~liG~NGsGKSTLl-~~l~G   49 (530)
T PRK15064         20 ISVKFGGGNRYGLIGANGCGKSTFM-KILGG   49 (530)
T ss_pred             CEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            4578899999999999999999998 66663

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=86.36  E-value=0.54  Score=52.75  Aligned_cols=32  Identities=19%  Similarity=0.238  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+..|++.+|+|++|+|||||+ .+|+..
T Consensus        25 ~vs~~i~~Ge~~~iiG~NGsGKSTLl-k~i~G~   56 (556)
T PRK11819         25 DISLSFFPGAKIGVLGLNGAGKSTLL-RIMAGV   56 (556)
T ss_pred             CceEEECCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            34478999999999999999999998 666643

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=86.32  E-value=0.59  Score=40.54  Aligned_cols=21  Identities=29%  Similarity=0.325  Sum_probs=16.7

Q ss_pred             eeeeccCCCCchHhHHHHHHHh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ++|.|.+|+|||||+ ..+...
T Consensus         1 I~i~G~~GsGKtTia-~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIA-KELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHH-HHHHHH
T ss_pred             CEEECCCCCCHHHHH-HHHHHH
Confidence            579999999999998 445443

...

>PRK00300 gmk guanylate kinase; Provisional

Probab=86.31  E-value=0.58  Score=44.90  Aligned_cols=25  Identities=24%  Similarity=0.508  Sum_probs=21.3

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|+-+.|.|++|+|||||+ ..++..
T Consensus         4 ~g~~i~i~G~sGsGKstl~-~~l~~~   28 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLV-KALLER   28 (205)
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            6889999999999999998 566643

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=86.30  E-value=0.54  Score=47.49  Aligned_cols=28  Identities=21%  Similarity=0.207  Sum_probs=21.4

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-..+..+++.|++|||||++| ..++++
T Consensus        38 ~~~~~~~vll~GppGtGKTtlA-~~ia~~   65 (261)
T TIGR02881        38 TSKQVLHMIFKGNPGTGKTTVA-RILGKL   65 (261)
T ss_pred             CCCCcceEEEEcCCCCCHHHHH-HHHHHH
Confidence            3345567889999999999999 555544

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=86.30  E-value=0.56  Score=51.75  Aligned_cols=31  Identities=13%  Similarity=0.369  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 ~is~~i~~Ge~~~l~G~NGsGKSTLl-~~l~G   52 (501)
T PRK10762         22 GAALNVYPGRVMALVGENGAGKSTMM-KVLTG   52 (501)
T ss_pred             eeeEEEcCCeEEEEECCCCCCHHHHH-HHHhC
Confidence            34568889999999999999999998 66653

>PRK15134 microcin C ABC transporter ATP-binding protein YejF; Provisional

Probab=86.24  E-value=0.58  Score=52.04  Aligned_cols=31  Identities=26%  Similarity=0.458  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        27 ~isl~i~~Ge~~~iiG~nGsGKSTLl-~~i~G   57 (529)
T PRK15134         27 DVSLQIEAGETLALVGESGSGKSVTA-LSILR   57 (529)
T ss_pred             ceEEEEeCCCEEEEECCCCCcHHHHH-HHHhc
Confidence            44577889999999999999999998 65653

>PRK05480 uridine/cytidine kinase; Provisional

Probab=86.12  E-value=0.61  Score=45.18  Aligned_cols=26  Identities=31%  Similarity=0.319  Sum_probs=21.2

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .++..++|.|++|+|||||+ ..|...
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~-~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVA-STIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHH-HHHHHH
Confidence            46778899999999999998 556543

>PRK10938 putative molybdenum transport ATP-binding protein ModF; Provisional

Probab=86.10  E-value=0.56  Score=51.50  Aligned_cols=29  Identities=24%  Similarity=0.440  Sum_probs=25.2

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        22 vsl~i~~Ge~~~liG~nGsGKSTLl-~~l~   50 (490)
T PRK10938         22 PSLTLNAGDSWAFVGANGSGKSALA-RALA   50 (490)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3478899999999999999999998 5555

>PRK14531 adenylate kinase; Provisional

Probab=86.03  E-value=0.6  Score=44.53  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=19.2

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ||+.|+|++|+||||++ ..++..
T Consensus         3 ~~i~i~G~pGsGKsT~~-~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQA-ARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHH-HHHHHH
Confidence            68999999999999998 555543

>TIGR02633 xylG D-xylose ABC transporter, ATP-binding protein

Probab=86.02  E-value=0.59  Score=51.44  Aligned_cols=30  Identities=17%  Similarity=0.267  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        20 isl~i~~Ge~~~liG~nGsGKSTLl-~~i~G   49 (500)
T TIGR02633        20 IDLEVRPGECVGLCGENGAGKSTLM-KILSG   49 (500)
T ss_pred             eEEEEeCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            4578889999999999999999998 66653

Several bacterial species have enzymes xylose isomerase and xylulokinase enzymes for xylose utilization. Members of this protein family are the ATP-binding cassette (ABC) subunit of the known or predicted high-affinity xylose ABC transporter for xylose import. These genes, which closely resemble other sugar transport ABC transporter genes, typically are encoded near xylose utilization enzymes and regulatory proteins. Note that this form of the transporter contains two copies of the ABC transporter domain (pfam00005).

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=85.99  E-value=0.59  Score=52.66  Aligned_cols=33  Identities=30%  Similarity=0.462  Sum_probs=27.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |.=+.|-+|+|++|+|+.|+|||||+ .+|+.+.
T Consensus       340 ~~s~~i~~g~riaiiG~NG~GKSTLl-k~l~g~~  372 (530)
T COG0488         340 DLSFRIDRGDRIAIVGPNGAGKSTLL-KLLAGEL  372 (530)
T ss_pred             CceEEecCCCEEEEECCCCCCHHHHH-HHHhhhc
Confidence            45567889999999999999999998 7776554

>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

Probab=85.90  E-value=0.34  Score=54.10  Aligned_cols=119  Identities=24%  Similarity=0.415  Sum_probs=83.6

Q ss_pred             eeeeeecccccee----------eeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhh
Q psy13776        197 VDSLVPIGRGQRE----------LIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  266 (539)
Q Consensus       197 ID~l~pIGrGQR~----------lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~  266 (539)
                      .|..+-||+|.|-          +=.=|++|||+-.--..++++..+-+-....-..|+|-+++|||+|.|.+++...|-
T Consensus       250 adiVVyigCGERGNEmtevL~eFPeL~Dp~tg~~lm~RT~liaNTSnMPVAAREasIYtGiTiaEY~RDmGy~v~lmADS  329 (588)
T COG1155         250 GDIVIYVGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIAEYYRDMGYDVALMADS  329 (588)
T ss_pred             CCEEEEEecCCccchHHHHHHhCccccCCCCCCcccceeeEeecCccchHHHhhhhhhhhhhHHHHHHhhhhhhHHhhch
Confidence            5788889999763          223379999963322222233322233333445689999999999999999999998


Q ss_pred             hhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCc
Q psy13776        267 LSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKH  346 (539)
Q Consensus       267 ~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~Gkd  346 (539)
                      -|++|-+.|                      |+-.+|                .+-|.+...-+|.+.-+|||+...|.-
T Consensus       330 TSRWAEAlR----------------------EisgRl----------------eEmPgeegyPaYL~srlA~fYERaG~v  371 (588)
T COG1155         330 TSRWAEALR----------------------EISGRL----------------EEMPGEEGYPAYLGSRLAEFYERAGRV  371 (588)
T ss_pred             HHHHHHHHH----------------------HHhccc----------------ccCCcccccchHHHHHHHHHHHhcCee
Confidence            888888742                      122222                245778888899999999999989988


Q ss_pred             EEEEecC
Q psy13776        347 ALIIYDD  353 (539)
Q Consensus       347 VLli~Ds  353 (539)
                      +++=.++
T Consensus       372 ~~~~~~~  378 (588)
T COG1155         372 RLVSPEE  378 (588)
T ss_pred             eecCCCc
Confidence            7777766

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=85.85  E-value=0.6  Score=52.49  Aligned_cols=30  Identities=17%  Similarity=0.319  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+||+++|+|++|+|||||+ +.+.
T Consensus       359 ~i~l~i~~Ge~iaIvG~SGsGKSTLl-~lL~  388 (592)
T PRK10790        359 NINLSVPSRGFVALVGHTGSGKSTLA-SLLM  388 (592)
T ss_pred             ceeEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            45578899999999999999999998 6665

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=85.83  E-value=6  Score=39.32  Aligned_cols=22  Identities=32%  Similarity=0.495  Sum_probs=17.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -..|.|++|+||||++ ..+.++
T Consensus        45 ~~~l~G~~G~GKTtl~-~~l~~~   66 (269)
T TIGR03015        45 FILITGEVGAGKTTLI-RNLLKR   66 (269)
T ss_pred             EEEEEcCCCCCHHHHH-HHHHHh
Confidence            5789999999999998 445443

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>PRK08233 hypothetical protein; Provisional

Probab=85.71  E-value=0.65  Score=43.24  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=18.5

Q ss_pred             cceeeeeccCCCCchHhHHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.-++|.|++|+||||++ ..++.
T Consensus         3 ~~iI~I~G~~GsGKtTla-~~L~~   25 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLT-ERLTH   25 (182)
T ss_pred             ceEEEEECCCCCCHHHHH-HHHHh
Confidence            456789999999999998 55553

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=85.60  E-value=0.67  Score=49.42  Aligned_cols=29  Identities=24%  Similarity=0.367  Sum_probs=25.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.|-.|.-..++||+||||||++ .+|+
T Consensus        22 i~l~i~~Gef~vllGPSGcGKSTlL-r~IA   50 (338)
T COG3839          22 VNLDIEDGEFVVLLGPSGCGKSTLL-RMIA   50 (338)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            4567889999999999999999998 7776

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=85.52  E-value=0.66  Score=51.77  Aligned_cols=30  Identities=17%  Similarity=0.371  Sum_probs=25.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|++++|.|++|+|||||+ +.|+.
T Consensus       359 inl~i~~Ge~i~IvG~sGsGKSTLl-klL~g  388 (576)
T TIGR02204       359 LNLTVRPGETVALVGPSGAGKSTLF-QLLLR  388 (576)
T ss_pred             eeEEecCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            3478899999999999999999998 66653

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=85.51  E-value=0.62  Score=53.65  Aligned_cols=31  Identities=26%  Similarity=0.438  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+||+++|.|++|+|||||+ ..+..
T Consensus       492 ~isl~i~~G~~vaIvG~SGsGKSTLl-klL~g  522 (708)
T TIGR01193       492 DISLTIKMNSKTTIVGMSGSGKSTLA-KLLVG  522 (708)
T ss_pred             ceeEEECCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            44578889999999999999999998 66653

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>PRK06217 hypothetical protein; Validated

Probab=85.51  E-value=0.65  Score=44.24  Aligned_cols=23  Identities=26%  Similarity=0.408  Sum_probs=19.0

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|+.|+|.+|+||||++ ..+.+.
T Consensus         2 ~~I~i~G~~GsGKSTla-~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLG-AALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHH-HHHHHH
Confidence            57999999999999998 555543

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=85.45  E-value=1.7  Score=50.73  Aligned_cols=27  Identities=33%  Similarity=0.410  Sum_probs=20.6

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++-..+++.|++||||||+| ..|.++.
T Consensus        50 ~~~~slLL~GPpGtGKTTLA-~aIA~~~   76 (725)
T PRK13341         50 DRVGSLILYGPPGVGKTTLA-RIIANHT   76 (725)
T ss_pred             CCCceEEEECCCCCCHHHHH-HHHHHHh
Confidence            44456789999999999998 5566543

>PF13245 AAA_19: Part of AAA domain

Probab=85.44  E-value=0.71  Score=38.53  Aligned_cols=26  Identities=27%  Similarity=0.285  Sum_probs=18.6

Q ss_pred             ccee-eeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRE-LIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~-lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++. .|.|++|+|||++++..+....
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            3444 4599999999988766666443

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=85.44  E-value=0.63  Score=51.74  Aligned_cols=30  Identities=33%  Similarity=0.508  Sum_probs=25.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .-+.+-+|++.+|+|++|+|||||+ .+|+.
T Consensus       338 is~~i~~Ge~~~l~G~NGsGKSTLl-~~i~G  367 (530)
T PRK15064        338 LNLLLEAGERLAIIGENGVGKTTLL-RTLVG  367 (530)
T ss_pred             cEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            4578899999999999999999998 66653

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=85.35  E-value=1.9  Score=42.54  Aligned_cols=99  Identities=14%  Similarity=0.203  Sum_probs=58.6

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEE
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYC  284 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~  284 (539)
                      +|.=+.|.||+|+|||||. .++......     .+-.-+|=.                         ..|..|.+++-.
T Consensus         3 ~G~l~vlsgPSG~GKsTl~-k~L~~~~~l-----~~SVS~TTR-------------------------~pR~gEv~G~dY   51 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLV-KALLEDDKL-----RFSVSATTR-------------------------KPRPGEVDGVDY   51 (191)
T ss_pred             CceEEEEECCCCCCHHHHH-HHHHhhcCe-----EEEEEeccC-------------------------CCCCCCcCCcee
Confidence            6778899999999999998 666654421     111111110                         112222233333


Q ss_pred             EEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEec
Q psy13776        285 IYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYD  352 (539)
Q Consensus       285 Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~D  352 (539)
                      -|+       +..||.+-+.....+++..++-+        .|-.|..   -.|--.++|+||++-+|
T Consensus        52 ~Fv-------s~~EF~~~i~~~~fLE~a~~~gn--------yYGT~~~---~ve~~~~~G~~vildId  101 (191)
T COG0194          52 FFV-------TEEEFEELIERDEFLEWAEYHGN--------YYGTSRE---PVEQALAEGKDVILDID  101 (191)
T ss_pred             EeC-------CHHHHHHHHhcCCcEEEEEEcCC--------cccCcHH---HHHHHHhcCCeEEEEEe
Confidence            332       45678888888888899887652        2222222   12333578999999998

>PRK09700 D-allose transporter ATP-binding protein; Provisional

Probab=85.29  E-value=0.66  Score=51.26  Aligned_cols=30  Identities=20%  Similarity=0.262  Sum_probs=25.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus       282 isl~i~~Ge~~~l~G~NGsGKSTLl-k~i~G  311 (510)
T PRK09700        282 ISFSVCRGEILGFAGLVGSGRTELM-NCLFG  311 (510)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999998 66664

>PRK10261 glutathione transporter ATP-binding protein; Provisional

Probab=85.22  E-value=0.7  Score=52.73  Aligned_cols=32  Identities=22%  Similarity=0.406  Sum_probs=27.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+..
T Consensus        34 ~is~~v~~Ge~~~lvG~nGsGKSTLl-~~l~Gl   65 (623)
T PRK10261         34 NLSFSLQRGETLAIVGESGSGKSVTA-LALMRL   65 (623)
T ss_pred             eeEEEECCCCEEEEECCCCChHHHHH-HHHHcC
Confidence            45678889999999999999999998 666643

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=85.20  E-value=0.66  Score=51.95  Aligned_cols=31  Identities=19%  Similarity=0.262  Sum_probs=26.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|++.+|+|++|+|||||+ .+|+.
T Consensus        23 ~is~~i~~Ge~~~liG~NGsGKSTLl-~~i~G   53 (552)
T TIGR03719        23 DISLSFFPGAKIGVLGLNGAGKSTLL-RIMAG   53 (552)
T ss_pred             CceEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            44578999999999999999999998 66664

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=85.18  E-value=0.73  Score=50.12  Aligned_cols=29  Identities=24%  Similarity=0.327  Sum_probs=25.2

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+..+|+|++|+|||||+ .+|..
T Consensus        23 s~~i~~Geiv~liGpNGaGKSTLL-k~LaG   51 (402)
T PRK09536         23 DLSVREGSLVGLVGPNGAGKTTLL-RAING   51 (402)
T ss_pred             EEEECCCCEEEEECCCCchHHHHH-HHHhc
Confidence            467889999999999999999997 66663

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=85.11  E-value=1.6  Score=42.90  Aligned_cols=29  Identities=28%  Similarity=0.345  Sum_probs=24.0

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +-+|+-..|.|++|+|||++++..+.+..
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~   38 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIA   38 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            56889999999999999999976655544

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=85.09  E-value=0.56  Score=47.90  Aligned_cols=32  Identities=31%  Similarity=0.477  Sum_probs=27.7

Q ss_pred             ccceeeee-eeeccccceeeeeccCCCCchHhH
Q psy13776        192 AGIKAVDS-LVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       192 TGIraID~-l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      -|++++|. =+.+-+|+..++|||.|.||||+-
T Consensus        15 GGl~Al~~Vsl~v~~Gei~~LIGPNGAGKTTlf   47 (250)
T COG0411          15 GGLTAVNDVSLEVRPGEIVGLIGPNGAGKTTLF   47 (250)
T ss_pred             CCEEEEeceeEEEcCCeEEEEECCCCCCceeee
Confidence            47788765 478999999999999999999985

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=85.08  E-value=0.66  Score=53.14  Aligned_cols=31  Identities=19%  Similarity=0.326  Sum_probs=26.2

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .=+.+-+|++++|+|+.|+|||||+ .+|+..
T Consensus       331 isl~i~~Ge~~~l~G~NGsGKSTLl-k~l~G~  361 (638)
T PRK10636        331 IKLNLVPGSRIGLLGRNGAGKSTLI-KLLAGE  361 (638)
T ss_pred             ceEEECCCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            3467889999999999999999998 666643

>PRK10522 multidrug transporter membrane component/ATP-binding component; Provisional

Probab=85.06  E-value=0.69  Score=51.65  Aligned_cols=31  Identities=29%  Similarity=0.433  Sum_probs=25.7

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+||+.+|+|++|+|||||+ +.|+.
T Consensus       341 ~i~~~i~~G~~~aivG~sGsGKSTL~-~ll~g  371 (547)
T PRK10522        341 PINLTIKRGELLFLIGGNGSGKSTLA-MLLTG  371 (547)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            33456779999999999999999998 66663

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	539
2w6e_A	553	Low Resolution Structures Of Bovine Mitochondrial F		1e-114
2w6e_A	553	Low Resolution Structures Of Bovine Mitochondrial F		2e-23
2jiz_A	510	The Structure Of F1-Atpase Inhibited By Resveratrol		1e-114
2jiz_A	510	The Structure Of F1-Atpase Inhibited By Resveratrol		3e-23
1cow_A	510	Bovine Mitochondrial F1-Atpase Complexed With Aurov		1e-114
1cow_A	510	Bovine Mitochondrial F1-Atpase Complexed With Aurov		3e-23
1bmf_A	510	Bovine Mitochondrial F1-Atpase Length = 510		1e-114
1bmf_A	510	Bovine Mitochondrial F1-Atpase Length = 510		3e-23
2xnd_A	492	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		1e-114
2xnd_A	492	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		4e-23
1ohh_B	487	Bovine Mitochondrial F1-Atpase Complexed With The I		1e-114
1ohh_B	487	Bovine Mitochondrial F1-Atpase Complexed With The I		4e-23
2f43_A	510	Rat Liver F1-atpase Length = 510		1e-113
2f43_A	510	Rat Liver F1-atpase Length = 510		9e-23
1mab_A	510	Rat Liver F1-Atpase Length = 510		1e-113
1mab_A	510	Rat Liver F1-Atpase Length = 510		1e-22
2xok_A	545	Refined Structure Of Yeast F1c10 Atpase Complex To		1e-101
2xok_A	545	Refined Structure Of Yeast F1c10 Atpase Complex To		2e-18
3oee_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		1e-101
3oee_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		2e-18
2hld_A	510	Crystal Structure Of Yeast Mitochondrial F1-Atpase		1e-101
2hld_A	510	Crystal Structure Of Yeast Mitochondrial F1-Atpase		2e-18
3ofn_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		1e-101
3ofn_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		4e-17
4b2q_B	486	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		1e-100
4b2q_B	486	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		3e-18
4b2q_A	485	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		1e-100
4b2q_A	485	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		3e-18
2qe7_A	502	Crystal Structure Of The F1-Atpase From The Thermoa		2e-90
2qe7_A	502	Crystal Structure Of The F1-Atpase From The Thermoa		5e-12
1sky_B	502	Crystal Structure Of The Nucleotide Free Alpha3beta		3e-87
1sky_B	502	Crystal Structure Of The Nucleotide Free Alpha3beta		5e-12
3oaa_A	513	Structure Of The E.Coli F1-Atp Synthase Inhibited B		2e-85
3oaa_A	513	Structure Of The E.Coli F1-Atp Synthase Inhibited B		2e-07
2r9v_A	515	Crystal Structure Of Atp Synthase Subunit Alpha (Tm		1e-83
2r9v_A	515	Crystal Structure Of Atp Synthase Subunit Alpha (Tm		3e-12
1fx0_A	507	Crystal Structure Of The Chloroplast F1-Atpase From		8e-83
1fx0_A	507	Crystal Structure Of The Chloroplast F1-Atpase From		2e-09
2dpy_A	438	Crystal Structure Of The Flagellar Type Iii Atpase		4e-14
3vr6_D	465	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		2e-12
2rkw_A	469	Intermediate Position Of Atp On Its Trail To The Bi		4e-12
3tgw_A	460	Crystal Structure Of Subunit B Mutant H156a Of The		4e-12
3ssa_A	460	Crystal Structure Of Subunit B Mutant N157t Of The		4e-12
2c61_A	469	Crystal Structure Of The Non-Catalytic B Subunit Of		4e-12
3tiv_A	460	Crystal Structure Of Subunit B Mutant N157a Of The		4e-12
3vr2_D	465	Crystal Structure Of Nucleotide-free A3b3 Complex F		8e-12
3vr6_A	600	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		2e-11
3gqb_B	464	Crystal Structure Of The A3b3 Complex From V-atpase		8e-11
2obl_A	347	Structural And Biochemical Analysis Of A Prototypic		1e-10
3a5c_D	478	Inter-Subunit Interaction And Quaternary Rearrangem		1e-10
3vr2_A	600	Crystal Structure Of Nucleotide-free A3b3 Complex F		5e-10
3m4y_A	588	Structural Characterization Of The Subunit A Mutant		5e-08
3se0_A	588	Structural Characterization Of The Subunit A Mutant		5e-08
3sdz_A	588	Structural Characterization Of The Subunit A Mutant		5e-08
1vdz_A	588	Crystal Structure Of A-Type Atpase Catalytic Subuni		5e-08
3nd8_A	588	Structural Characterization For The Nucleotide Bind		6e-08
3qjy_A	588	Crystal Structure Of P-Loop G234a Mutant Of Subunit		6e-08
3qia_A	588	Crystal Structure Of P-Loop G237a Mutant Of Subunit		6e-08
3ikj_A	588	Structural Characterization For The Nucleotide Bind		6e-08
3nd9_A	588	Structural Characterization For The Nucleotide Bind		6e-08
3i4l_A	588	Structural Characterization For The Nucleotide Bind		6e-08
3mfy_A	588	Structural Characterization Of The Subunit A Mutant		6e-08
3qg1_A	588	Crystal Structure Of P-Loop G239a Mutant Of Subunit		6e-08
3a5c_A	578	Inter-Subunit Interaction And Quaternary Rearrangem		4e-07
3gqb_A	578	Crystal Structure Of The A3b3 Complex From V-atpase		6e-07
1sky_E	473	Crystal Structure Of The Nucleotide Free Alpha3beta		1e-05
3oaa_D	459	Structure Of The E.Coli F1-Atp Synthase Inhibited B		3e-05
2qe7_D	462	Crystal Structure Of The F1-Atpase From The Thermoa		3e-05

>pdb|2W6E|A Chain A, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 553

Iteration: 1
 Score =  409 bits (1051), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/327 (67%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 192 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 231
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 232 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 272
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 273 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 332
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 333 GREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 392
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 393 IFLETELFYKG------------------------------------------------- 403
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 404 --IRPAINVGLSVSRVGSAAQTRAMKQ 428

>pdb|2W6E|A Chain A, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 553

Iteration: 1
 Score =  107 bits (266), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 103 KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 155

>pdb|2JIZ|A Chain A, The Structure Of F1-Atpase Inhibited By Resveratrol. Length = 510

Iteration: 1
 Score =  408 bits (1049), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/327 (67%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 149 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 189 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 229
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 230 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 289
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 290 GREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 349
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 350 IFLETELFYKG------------------------------------------------- 360
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 361 --IRPAINVGLSVSRVGSAAQTRAMKQ 385

>pdb|2JIZ|A Chain A, The Structure Of F1-Atpase Inhibited By Resveratrol. Length = 510

Iteration: 1
 Score =  106 bits (265), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 60  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 112

>pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 510

Iteration: 1
 Score =  408 bits (1048), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/327 (67%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 149 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 189 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 229
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 230 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 289
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 290 GREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 349
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 350 IFLETELFYKG------------------------------------------------- 360
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 361 --IRPAINVGLSVSRVGSAAQTRAMKQ 385

>pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 510

Iteration: 1
 Score =  106 bits (265), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 60  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 112

>pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score =  408 bits (1048), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/327 (67%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 149 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 189 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 229
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 230 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 289
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 290 GREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 349
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 350 IFLETELFYKG------------------------------------------------- 360
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 361 --IRPAINVGLSVSRVGSAAQTRAMKQ 385

>pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score =  106 bits (265), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 60  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 112

>pdb|2XND|A Chain A, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 492

Iteration: 1
 Score =  407 bits (1046), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/327 (67%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 131 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 170
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 171 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 211
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 212 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 271
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 272 GREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 331
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 332 IFLETELFYKG------------------------------------------------- 342
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 343 --IRPAINVGLSVSRVGSAAQTRAMKQ 367

>pdb|2XND|A Chain A, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 492

Iteration: 1
 Score =  106 bits (264), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 42  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 94

>pdb|1OHH|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Inhibitor Protein If1 Length = 487

Iteration: 1
 Score =  407 bits (1046), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 220/327 (67%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 126 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 165
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 166 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 206
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 207 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 266
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 267 GREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 326
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 327 IFLETELFYKG------------------------------------------------- 337
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 338 --IRPAINVGLSVSRVGSAAQTRAMKQ 362

>pdb|1OHH|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Inhibitor Protein If1 Length = 487

Iteration: 1
 Score =  106 bits (264), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 50/53 (94%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 37  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 89

>pdb|2F43|A Chain A, Rat Liver F1-atpase Length = 510

Iteration: 1
 Score =  406 bits (1044), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 219/327 (66%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 149 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 189 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 229
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 230 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 289
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM+++ GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 290 GREAYPGDVFYLHSRLLERAAKMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 349
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 350 IFLETELFYKG------------------------------------------------- 360
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 361 --IRPAINVGLSVSRVGSAAQTRAMKQ 385

>pdb|2F43|A Chain A, Rat Liver F1-atpase Length = 510

Iteration: 1
 Score =  105 bits (261), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 49/53 (92%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVG++LLGRVVDALG
Sbjct: 60  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALG 112

>pdb|1MAB|A Chain A, Rat Liver F1-Atpase Length = 510

Iteration: 1
 Score =  406 bits (1044), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 219/327 (66%), Positives = 230/327 (70%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 149 GIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKR-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
           F D                     DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM YT
Sbjct: 189 FNDG-------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYT 229
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP
Sbjct: 230 IVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 289
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AKM+++ GGGSLTALPVIETQAGDVSAYIPTNVISITDGQ
Sbjct: 290 GREAYPGDVFYLHSRLLERAAKMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 349
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLETELFYKG                                                 
Sbjct: 350 IFLETELFYKG------------------------------------------------- 360
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQTRAMKQ
Sbjct: 361 --IRPAINVGLSVSRVGSAAQTRAMKQ 385

>pdb|1MAB|A Chain A, Rat Liver F1-Atpase Length = 510

Iteration: 1
 Score =  104 bits (260), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 49/53 (92%), Positives = 53/53 (100%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVG++LLGRVVDALG
Sbjct: 60  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALG 112

>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 545

Iteration: 1
 Score =  365 bits (937), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 219/327 (66%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+KAVD+LVPIGRGQRELIIGDRQTGKTA+A+DTI+NQK                     
Sbjct: 186 GLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRW------------------- 226
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
             +NG                   DE KKLYC+YVA+GQKRSTVAQ+V+ L    AM Y+
Sbjct: 227 --NNGS------------------DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYS 266
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           IIV+ATAS+AAPLQYLAP++  ++GE+FRDNGKHALI+YDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 267 IIVAATASEAAPLQYLAPFTAASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPP 326
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+SE  G GSLTALPVIETQ GDVSAYIPTNVISITDGQ
Sbjct: 327 GREAYPGDVFYLHSRLLERAAKLSEKEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQ 386
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE ELFYKG                                                 
Sbjct: 387 IFLEAELFYKG------------------------------------------------- 397
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQ +A+KQ
Sbjct: 398 --IRPAINVGLSVSRVGSAAQVKALKQ 422

>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 545

Iteration: 1
 Score = 90.5 bits (223), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/53 (79%), Positives = 48/53 (90%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGMALNLEP  VG+V+FG+DRL+KEG++VKRTG IVDVPVG  LLGRVVDALG
Sbjct: 97  KGMALNLEPGQVGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALG 149

>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-F405s Length = 510

Iteration: 1
 Score =  365 bits (936), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 219/327 (66%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+KAVD+LVPIGRGQRELIIGDRQTGKTA+A+DTI+NQK                     
Sbjct: 151 GLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRW------------------- 191
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
             +NG                   DE KKLYC+YVA+GQKRSTVAQ+V+ L    AM Y+
Sbjct: 192 --NNGS------------------DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYS 231
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           IIV+ATAS+AAPLQYLAP++  ++GE+FRDNGKHALI+YDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 232 IIVAATASEAAPLQYLAPFTAASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPP 291
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+SE  G GSLTALPVIETQ GDVSAYIPTNVISITDGQ
Sbjct: 292 GREAYPGDVFYLHSRLLERAAKLSEKEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQ 351
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE ELFYKG                                                 
Sbjct: 352 IFLEAELFYKG------------------------------------------------- 362
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQ +A+KQ
Sbjct: 363 --IRPAINVGLSVSRVGSAAQVKALKQ 387

>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-F405s Length = 510

Iteration: 1
 Score = 90.5 bits (223), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/53 (79%), Positives = 48/53 (90%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGMALNLEP  VG+V+FG+DRL+KEG++VKRTG IVDVPVG  LLGRVVDALG
Sbjct: 62  KGMALNLEPGQVGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALG 114

>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score =  364 bits (935), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 219/327 (66%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+KAVD+LVPIGRGQRELIIGDRQTGKTA+A+DTI+NQK                     
Sbjct: 151 GLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRW------------------- 191
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
             +NG                   DE KKLYC+YVA+GQKRSTVAQ+V+ L    AM Y+
Sbjct: 192 --NNGS------------------DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYS 231
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           IIV+ATAS+AAPLQYLAP++  ++GE+FRDNGKHALI+YDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 232 IIVAATASEAAPLQYLAPFTAASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPP 291
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+SE  G GSLTALPVIETQ GDVSAYIPTNVISITDGQ
Sbjct: 292 GREAYPGDVFYLHSRLLERAAKLSEKEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQ 351
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE ELFYKG                                                 
Sbjct: 352 IFLEAELFYKG------------------------------------------------- 362
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQ +A+KQ
Sbjct: 363 --IRPAINVGLSVSRVGSAAQVKALKQ 387

>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 90.1 bits (222), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 42/53 (79%), Positives = 48/53 (90%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGMALNLEP  VG+V+FG+DRL+KEG++VKRTG IVDVPVG  LLGRVVDALG
Sbjct: 62  KGMALNLEPGQVGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALG 114

>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67i Length = 510

Iteration: 1
 Score =  364 bits (935), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 219/327 (66%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+KAVD+LVPIGRGQRELIIGDRQTGKTA+A+DTI+NQK                     
Sbjct: 151 GLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRW------------------- 191
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
             +NG                   DE KKLYC+YVA+GQKRSTVAQ+V+ L    AM Y+
Sbjct: 192 --NNGS------------------DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYS 231
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           IIV+ATAS+AAPLQYLAP++  ++GE+FRDNGKHALI+YDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 232 IIVAATASEAAPLQYLAPFTAASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPP 291
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+SE  G GSLTALPVIETQ GDVSAYIPTNVISITDGQ
Sbjct: 292 GREAYPGDVFYLHSRLLERAAKLSEKEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQ 351
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE ELFYKG                                                 
Sbjct: 352 IFLEAELFYKG------------------------------------------------- 362
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQ +A+KQ
Sbjct: 363 --IRPAINVGLSVSRVGSAAQVKALKQ 387

>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67i Length = 510

Iteration: 1
 Score = 86.3 bits (212), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 41/53 (77%), Positives = 47/53 (88%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGMAL LEP  VG+V+FG+DRL+KEG++VKRTG IVDVPVG  LLGRVVDALG
Sbjct: 62  KGMALILEPGQVGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALG 114

>pdb|4B2Q|B Chain B, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 486

Iteration: 1
 Score =  363 bits (933), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 219/327 (66%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+KAVD+LVPIGRGQRELIIGDRQTGKTA+A+DTI+NQK                     
Sbjct: 127 GLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRW------------------- 167
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
             +NG                   DE KKLYC+YVA+GQKRSTVAQ+V+ L    AM Y+
Sbjct: 168 --NNGS------------------DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYS 207
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           IIV+ATAS+AAPLQYLAP++  ++GE+FRDNGKHALI+YDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 208 IIVAATASEAAPLQYLAPFTAASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPP 267
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+SE  G GSLTALPVIETQ GDVSAYIPTNVISITDGQ
Sbjct: 268 GREAYPGDVFYLHSRLLERAAKLSEKEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQ 327
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE ELFYKG                                                 
Sbjct: 328 IFLEAELFYKG------------------------------------------------- 338
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQ +A+KQ
Sbjct: 339 --IRPAINVGLSVSRVGSAAQVKALKQ 363

>pdb|4B2Q|B Chain B, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 486

Iteration: 1
 Score = 90.1 bits (222), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 42/53 (79%), Positives = 48/53 (90%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGMALNLEP  VG+V+FG+DRL+KEG++VKRTG IVDVPVG  LLGRVVDALG
Sbjct: 38  KGMALNLEPGQVGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALG 90

>pdb|4B2Q|A Chain A, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 485

Iteration: 1
 Score =  363 bits (933), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 195/327 (59%), Positives = 219/327 (66%), Gaps = 90/327 (27%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+KAVD+LVPIGRGQRELIIGDRQTGKTA+A+DTI+NQK                     
Sbjct: 126 GLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRW------------------- 166
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
             +NG                   DE KKLYC+YVA+GQKRSTVAQ+V+ L    AM Y+
Sbjct: 167 --NNGS------------------DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYS 206
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           IIV+ATAS+AAPLQYLAP++  ++GE+FRDNGKHALI+YDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 207 IIVAATASEAAPLQYLAPFTAASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPP 266
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+SE  G GSLTALPVIETQ GDVSAYIPTNVISITDGQ
Sbjct: 267 GREAYPGDVFYLHSRLLERAAKLSEKEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQ 326
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE ELFYKG                                                 
Sbjct: 327 IFLEAELFYKG------------------------------------------------- 337
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQ 519
             IRPAINVGLSVSRVGSAAQ +A+KQ
Sbjct: 338 --IRPAINVGLSVSRVGSAAQVKALKQ 362

>pdb|4B2Q|A Chain A, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 485

Iteration: 1
 Score = 90.1 bits (222), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 42/53 (79%), Positives = 48/53 (90%)
Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGMALNLEP  VG+V+FG+DRL+KEG++VKRTG IVDVPVG  LLGRVVDALG
Sbjct: 37  KGMALNLEPGQVGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALG 89

>pdb|2QE7|A Chain A, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 502

Iteration: 1
 Score =  329 bits (844), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 178/333 (53%), Positives = 209/333 (62%), Gaps = 99/333 (29%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKA+DS++PIGRGQRELIIGDRQTGKT +AIDTIINQK                     
Sbjct: 149 GIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQKG-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                                      + + CIYVAIGQK+STVA +V+ L    A+ YT
Sbjct: 189 ---------------------------QDVICIYVAIGQKQSTVAGVVETLRQHDALDYT 221
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+V+A+AS+ APL YLAPY+GCAMGE+F   GKHAL++YDDLSKQA AYR++SLLLRRPP
Sbjct: 222 IVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAAAYRELSLLLRRPP 281
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+S+  GGGSLTALP IETQAGDVSAYIPTNVISITDGQ
Sbjct: 282 GREAYPGDVFYLHSRLLERAAKLSDEKGGGSLTALPFIETQAGDVSAYIPTNVISITDGQ 341
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFLE++LFY G                                                 
Sbjct: 342 IFLESDLFYSG------------------------------------------------- 352
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQT-GKIR 524
             +RPA+NVG+SVSRVG AAQ +AMK+  G +R
Sbjct: 353 --VRPAVNVGISVSRVGGAAQIKAMKKVAGTLR 383

>pdb|2QE7|A Chain A, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 502

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 38/61 (62%), Positives = 43/61 (70%)
Query: 434 FLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDAL 493
            LE E    GMA NLE DNVGVV+ G    I+EG  VKRTG I++VPVGE LLGRVV+ L
Sbjct: 52  LLEFENGVMGMAQNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPL 111
Query: 494 G 494
           G
Sbjct: 112 G 112

>pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3 Length = 502

Iteration: 1
 Score =  318 bits (816), Expect = 3e-87,   Method: Compositional matrix adjust.
 Identities = 174/333 (52%), Positives = 205/333 (61%), Gaps = 99/333 (29%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKA+D+LVPIGRGQRELIIGDRQTGKT++AIDTIINQK                     
Sbjct: 149 GIKAIDALVPIGRGQRELIIGDRQTGKTSVAIDTIINQKD-------------------- 188
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                                      + + CIYVAIGQK STVA +V+ L   GA  YT
Sbjct: 189 ---------------------------QNMICIYVAIGQKESTVATVVETLAKHGAPDYT 221
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+V+A+AS  APL +LAPY+G AMGE+F   GKH L++ DDLSKQA AYRQ+SLLLRRPP
Sbjct: 222 IVVTASASQPAPLLFLAPYAGVAMGEYFMIMGKHVLVVIDDLSKQAAAYRQLSLLLRRPP 281
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGD+FYLHSRLLER+AK+S+A GGGSLTALP +ETQAGD+SAYIPTNVISITDGQ
Sbjct: 282 GREAYPGDIFYLHSRLLERAAKLSDAKGGGSLTALPFVETQAGDISAYIPTNVISITDGQ 341
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFL+++LF+ G                                                 
Sbjct: 342 IFLQSDLFFSG------------------------------------------------- 352
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQT-GKIR 524
             +RPAIN GLSVSRVG AAQ +AMK+  G +R
Sbjct: 353 --VRPAINAGLSVSRVGGAAQIKAMKKVAGTLR 383

>pdb|1SKY|B Chain B, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3 Length = 502

Iteration: 1
 Score = 69.3 bits (168), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 34/52 (65%), Positives = 42/52 (80%)
Query: 443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           GMALNLE +NVG+V+ G    IKEGD V+RTG I++VPVGE L+GRVV+ LG
Sbjct: 61  GMALNLEENNVGIVILGPYTGIKEGDEVRRTGRIMEVPVGETLIGRVVNPLG 112

>pdb|3OAA|A Chain A, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 513

Iteration: 1
 Score =  313 bits (801), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 179/345 (51%), Positives = 212/345 (61%), Gaps = 110/345 (31%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G KAVDS++PIGRGQRELIIGDRQTGKTALAID IINQ                      
Sbjct: 149 GYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQ---------------------- 186
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
            RD+G                        + CIYVAIGQK ST++ +V++L + GA+  T
Sbjct: 187 -RDSG------------------------IKCIYVAIGQKASTISNVVRKLEEHGALANT 221
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+V ATAS++A LQYLAPY+GCAMGE+FRD G+ ALIIYDDLSKQAVAYRQ+SLLLRRPP
Sbjct: 222 IVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQAVAYRQISLLLRRPP 281
Query: 373 GREAYPGDVFYLHSRLLERSAKMS----------EAHGG-GSLTALPVIETQAGDVSAYI 421
           GREA+PGDVFYLHSRLLER+A+++          E  G  GSLTALP+IETQAGDVSA++
Sbjct: 282 GREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTALPIIETQAGDVSAFV 341
Query: 422 PTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPV 481
           PTNVISITDGQIFLET LF  G+                                     
Sbjct: 342 PTNVISITDGQIFLETNLFNAGI------------------------------------- 364
Query: 482 GEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIRS 525
                         RPA+N G+SVSRVG AAQT+ MK+ +G IR+
Sbjct: 365 --------------RPAVNPGISVSRVGGAAQTKIMKKLSGGIRT 395

>pdb|3OAA|A Chain A, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 513

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 30/51 (58%), Positives = 36/51 (70%)
Query: 444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           +ALNLE D+VG VV G    + EG  VK TG I++VPVG  LLGRVV+ LG
Sbjct: 62  IALNLERDSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLG 112

>pdb|2R9V|A Chain A, Crystal Structure Of Atp Synthase Subunit Alpha (Tm1612) From Thermotoga Maritima At 2.10 A Resolution Length = 515

Iteration: 1
 Score =  307 bits (786), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 166/328 (50%), Positives = 198/328 (60%), Gaps = 98/328 (29%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           GIKA+DS +PIGRGQRELIIGDRQTGKTA+AIDTIINQK                     
Sbjct: 162 GIKAIDSXIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG-------------------- 201
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                                      + +YCIYVAIGQK+S +A+I+ +L   GA  YT
Sbjct: 202 ---------------------------QGVYCIYVAIGQKKSAIARIIDKLRQYGAXEYT 234
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
            +V A+ASD A LQY+APY+GCA GE+F  +G+ AL++YDDLSK AVAYRQ+SLL RRPP
Sbjct: 235 TVVVASASDPASLQYIAPYAGCAXGEYFAYSGRDALVVYDDLSKHAVAYRQLSLLXRRPP 294
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGD+FYLHSRLLER+ ++++  GGGSLTALP++ETQA D+SAYIPTNVISITDGQ
Sbjct: 295 GREAYPGDIFYLHSRLLERAVRLNDKLGGGSLTALPIVETQANDISAYIPTNVISITDGQ 354
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           I+LE  LFY G                                                 
Sbjct: 355 IYLEPGLFYAGQ------------------------------------------------ 366
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQT 520
              RPAINVGLSVSRVG +AQ +A KQ 
Sbjct: 367 ---RPAINVGLSVSRVGGSAQIKAXKQV 391

>pdb|2R9V|A Chain A, Crystal Structure Of Atp Synthase Subunit Alpha (Tm1612) From Thermotoga Maritima At 2.10 A Resolution Length = 515

Iteration: 1
 Score = 70.1 bits (170), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 47/117 (40%), Positives = 69/117 (58%), Gaps = 8/117 (6%)
Query: 378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLET 437
           PG++    +++LE   K  E       T   VI+   G   AY   N + +++   F+ET
Sbjct: 17  PGEI----TKVLEEKIKSFEEKIDLEDTG-KVIQVGDGIARAY-GLNKVXVSELVEFVET 70
Query: 438 ELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
            +  KG+A NLE DNVG+++ G  + IKEG  V+R   I++VPVGE+LLGRVV+ LG
Sbjct: 71  GV--KGVAFNLEEDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLG 125

>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 507

Iteration: 1
 Score =  304 bits (779), Expect = 8e-83,   Method: Compositional matrix adjust.
 Identities = 166/333 (49%), Positives = 199/333 (59%), Gaps = 99/333 (29%)
Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
           G+ A+D+++P+GRGQRELIIGDRQTGKTA+A DTI+NQ+                     
Sbjct: 150 GLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQG-------------------- 189
Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                                      + + C+YVAIGQK S+VAQ+V    + GAM YT
Sbjct: 190 ---------------------------QNVICVYVAIGQKASSVAQVVTNFQERGAMEYT 222
Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
           I+V+ TA   A LQYLAPY+G A+ E+F    +H LIIYDDLSKQA AYRQMSLLLRRPP
Sbjct: 223 IVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLLLRRPP 282
Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
           GREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDVSAYIPTNVISITDGQ
Sbjct: 283 GREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQ 342
Query: 433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDA 492
           IFL  +LF  G+                                                
Sbjct: 343 IFLSADLFNAGI------------------------------------------------ 354
Query: 493 LGIRPAINVGLSVSRVGSAAQTRAMKQT-GKIR 524
              RPAINVG+SVSRVGSAAQ +AMK+  GK++
Sbjct: 355 ---RPAINVGISVSRVGSAAQIKAMKKVAGKLK 384

>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 507

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 29/52 (55%), Positives = 38/52 (73%)
Query: 443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           G+ALNLE +NVGVV+ G+  +I+EG  VK TG I  +PV E  LGRV++AL 
Sbjct: 62  GIALNLESNNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALA 113

>pdb|2DPY|A Chain A, Crystal Structure Of The Flagellar Type Iii Atpase Flii Length = 438

Iteration: 1
 Score = 76.3 bits (186), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/157 (31%), Positives = 82/157 (52%), Gaps = 6/157 (3%)
Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYL--APYSGCAMGEFFRDNGKH 346
           IG++   V   ++ +        +++++A A D +PL  +  A Y+   + E FRD G+H
Sbjct: 191 IGERGREVKDFIENILGPDGRARSVVIAAPA-DVSPLLRMQGAAYA-TRIAEDFRDRGQH 248
Query: 347 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTA 406
            L+I D L++ A+A R+++L +  PP  + YP  VF     L+ER+   +  HGGGS+TA
Sbjct: 249 VLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAG--NGIHGGGSITA 306
Query: 407 LPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
              + T+  D    I  +  +I DG I L   L   G
Sbjct: 307 FYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAG 343

>pdb|3VR6|D Chain D, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 465

Iteration: 1
 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 78/169 (46%), Gaps = 3/169 (1%)
Query: 277 DEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
           D       ++ AIG         ++    +GA+  +++    A+D A  +   P      
Sbjct: 179 DSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTA 238
Query: 337 GEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKM 395
            E+   + G H L+I  D++  A A R++S   R  PGR  YPG ++   + L ER+ ++
Sbjct: 239 AEYLAYEKGMHVLVIMTDMTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRI 298
Query: 396 SEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
                 GS+T +P++     D +  IP     IT+GQI L  EL+  G+
Sbjct: 299 RGLK--GSVTQIPILTMPEDDKTHPIPDLTGYITEGQIILTRELYKSGI 345

>pdb|2RKW|A Chain A, Intermediate Position Of Atp On Its Trail To The Binding Pocket Inside The Subunit B Mutant R416w Of The Energy Converter A1ao Atp Synthase Length = 469

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 75/162 (46%), Gaps = 3/162 (1%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-D 342
            ++ A+G         +     +GA+   ++    A D A  + + P       E+   +
Sbjct: 187 VVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYE 246
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           +G H L+I  D++  A A RQM       PGR  YPG ++   + L ER+  +  A   G
Sbjct: 247 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAK--G 304
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           S+T +P++     D++  IP     IT+GQI +  EL  KG+
Sbjct: 305 SVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGI 346

>pdb|3TGW|A Chain A, Crystal Structure Of Subunit B Mutant H156a Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 75/162 (46%), Gaps = 3/162 (1%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-D 342
            ++ A+G         +     +GA+   ++    A D A  + + P       E+   +
Sbjct: 178 VVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYE 237
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           +G H L+I  D++  A A RQM       PGR  YPG ++   + L ER+  +  A   G
Sbjct: 238 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAK--G 295
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           S+T +P++     D++  IP     IT+GQI +  EL  KG+
Sbjct: 296 SVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGI 337

>pdb|3SSA|A Chain A, Crystal Structure Of Subunit B Mutant N157t Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score = 69.7 bits (169), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 75/162 (46%), Gaps = 3/162 (1%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-D 342
            ++ A+G         +     +GA+   ++    A D A  + + P       E+   +
Sbjct: 178 VVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYE 237
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           +G H L+I  D++  A A RQM       PGR  YPG ++   + L ER+  +  A   G
Sbjct: 238 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAK--G 295
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           S+T +P++     D++  IP     IT+GQI +  EL  KG+
Sbjct: 296 SVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGI 337

>pdb|2C61|A Chain A, Crystal Structure Of The Non-Catalytic B Subunit Of A-Type Atpase From M. Mazei Go1 Length = 469

Iteration: 1
 Score = 69.3 bits (168), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 75/162 (46%), Gaps = 3/162 (1%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-D 342
            ++ A+G         +     +GA+   ++    A D A  + + P       E+   +
Sbjct: 187 VVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYE 246
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           +G H L+I  D++  A A RQM       PGR  YPG ++   + L ER+  +  A   G
Sbjct: 247 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAK--G 304
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           S+T +P++     D++  IP     IT+GQI +  EL  KG+
Sbjct: 305 SVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGI 346

>pdb|3TIV|A Chain A, Crystal Structure Of Subunit B Mutant N157a Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score = 69.3 bits (168), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 75/162 (46%), Gaps = 3/162 (1%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-D 342
            ++ A+G         +     +GA+   ++    A D A  + + P       E+   +
Sbjct: 178 VVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYE 237
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
           +G H L+I  D++  A A RQM       PGR  YPG ++   + L ER+  +  A   G
Sbjct: 238 HGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAK--G 295
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
           S+T +P++     D++  IP     IT+GQI +  EL  KG+
Sbjct: 296 SVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGI 337

>pdb|3VR2|D Chain D, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 465

Iteration: 1
 Score = 68.6 bits (166), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 75/169 (44%), Gaps = 3/169 (1%)
Query: 277 DEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
           D       ++ AIG          +    +GA+  ++     A+D A  +   P      
Sbjct: 179 DSSDDFAVVFAAIGITFEEAEFFXEDFRQTGAIDRSVXFXNLANDPAIERIATPRXALTA 238
Query: 337 GEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKM 395
            E+   + G H L+I  D +  A A R++S   R  PGR  YPG ++   + L ER+ ++
Sbjct: 239 AEYLAYEKGXHVLVIXTDXTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRI 298
Query: 396 SEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGM 444
                 GS+T +P++     D +  IP     IT+GQI L  EL+  G+
Sbjct: 299 RGLK--GSVTQIPILTXPEDDKTHPIPDLTGYITEGQIILTRELYKSGI 345

>pdb|3VR6|A Chain A, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 600

Iteration: 1
 Score = 67.4 bits (163), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/158 (28%), Positives = 74/158 (46%), Gaps = 16/158 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            +YV  G++ + +  +V          T    M  T++++ T++     +  + Y+G  +
Sbjct: 261 VVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGITI 320
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSA 393
            E+FRD G    I+ D  S+ A A R+MS  L   PG E YP    YL SRL    ERS 
Sbjct: 321 AEYFRDMGYDVAIMADSTSRWAEALREMSGRLEEMPGDEGYPA---YLGSRLAEYYERSG 377
Query: 394 K---MSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI 428
           +   +      GS+TA+  +    GD+S  +  N + +
Sbjct: 378 RVIALGSDQREGSITAISAVSPSGGDISEPVTQNTLRV 415

>pdb|3GQB|B Chain B, Crystal Structure Of The A3b3 Complex From V-atpase Length = 464

Iteration: 1
 Score = 65.5 bits (158), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 41/175 (23%), Positives = 84/175 (48%), Gaps = 3/175 (1%)
Query: 277 DEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
           ++++    ++ A+G  +  ++  ++    +GA+  +++    A D    + L P     +
Sbjct: 182 EKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTV 241
Query: 337 GEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKM 395
            E+   ++  H L+I  D++  + A R++       PGR  YPG ++   + + ER+  +
Sbjct: 242 AEYLAFEHDYHVLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVV 301
Query: 396 SEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEP 450
               G  S+T +P++     D +  IP     IT+GQI L  EL  KG+   ++P
Sbjct: 302 EGKKG--SVTQIPILSMPDDDRTHPIPDLTGYITEGQIQLSRELHRKGIYPPIDP 354

>pdb|2OBL|A Chain A, Structural And Biochemical Analysis Of A Prototypical Atpase From The Type Iii Secretion System Of Pathogenic Bacteria Length = 347

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 77/152 (50%), Gaps = 7/152 (4%)
Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYL-APYSGCAMGEFFRDNGKHA 347
           IG++   V + +  L  S      ++V  T SD   L+ + A ++   + E+FRD GK+ 
Sbjct: 105 IGERGREVNEFLALLPQSTLSKCVLVV--TTSDRPALERMKAAFTATTIAEYFRDQGKNV 162
Query: 348 LIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTAL 407
           L++ D +++ A A R + L    P  R  +P  VF    +LLER+    +    GS+TA+
Sbjct: 163 LLMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAGPAPK----GSITAI 218
Query: 408 PVIETQAGDVSAYIPTNVISITDGQIFLETEL 439
             +  ++ +V+  I   V SI DG I L  EL
Sbjct: 219 YTVLLESDNVNDPIGDEVRSILDGHIVLTREL 250

>pdb|3A5C|D Chain D, Inter-Subunit Interaction And Quaternary Rearrangement Defined By The Central Stalk Of Prokaryotic V1-Atpase Length = 478

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 41/175 (23%), Positives = 83/175 (47%), Gaps = 3/175 (1%)
Query: 277 DEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
           ++++    ++ A+G  +  ++  ++    +GA+  +++    A D    + L P     +
Sbjct: 182 EKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTV 241
Query: 337 GEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKM 395
            E+   ++  H L+I  D++    A R++       PGR  YPG ++   + + ER+  +
Sbjct: 242 AEYLAFEHDYHVLVILTDMTNYCEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVV 301
Query: 396 SEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEP 450
               G  S+T +P++     D +  IP     IT+GQI L  EL  KG+   ++P
Sbjct: 302 EGKKG--SVTQIPILSMPDDDRTHPIPDLTGYITEGQIQLSRELHRKGIYPPIDP 354

>pdb|3VR2|A Chain A, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 600

Iteration: 1
 Score = 62.4 bits (150), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 43/158 (27%), Positives = 70/158 (44%), Gaps = 16/158 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            +YV  G++ +    +V          T       T++++ T++     +  + Y+G  +
Sbjct: 261 VVYVGCGERGNEXTDVVNEFPELIDPNTGESLXERTVLIANTSNXPVAAREASIYTGITI 320
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSA 393
            E+FRD G    I  D  S+ A A R+ S  L   PG E YP    YL SRL    ERS 
Sbjct: 321 AEYFRDXGYDVAIXADSTSRWAEALREXSGRLEEXPGDEGYPA---YLGSRLAEYYERSG 377
Query: 394 K---MSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI 428
           +   +      GS+TA+  +    GD+S  +  N + +
Sbjct: 378 RVIALGSDQREGSITAISAVSPSGGDISEPVTQNTLRV 415

>pdb|3M4Y|A Chain A, Structural Characterization Of The Subunit A Mutant P235a Of The A-Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3SE0|A Chain A, Structural Characterization Of The Subunit A Mutant F508w Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3SDZ|A Chain A, Structural Characterization Of The Subunit A Mutant F427w Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|1VDZ|A Chain A, Crystal Structure Of A-Type Atpase Catalytic Subunit A From Pyrococcus Horikoshii Ot3 Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3ND8|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3QJY|A Chain A, Crystal Structure Of P-Loop G234a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3QIA|A Chain A, Crystal Structure Of P-Loop G237a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3IKJ|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Mutant S238a Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3ND9|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3I4L|A Chain A, Structural Characterization For The Nucleotide Binding Ability Of Subunit A With Amp-Pnp Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3MFY|A Chain A, Structural Characterization Of The Subunit A Mutant F236a Of The A-Atp Synthase From Pyrococcus Horikoshii Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3QG1|A Chain A, Crystal Structure Of P-Loop G239a Mutant Of Subunit A Of The A1ao Atp Synthase Length = 588

Iteration: 1
 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/159 (23%), Positives = 72/159 (45%), Gaps = 16/159 (10%)
Query: 284 CIYVAIGQKRSTVAQIVKRL-------TDSGAMGYTIIVSATASDAAPLQYLAPYSGCAM 336
            IY+  G++ + +  +++         T    M  T++++ T++     +  + Y+G  +
Sbjct: 256 VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITI 315
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLE------ 390
            E+FRD G    ++ D  S+ A A R++S  L   PG E YP    YL S+L E      
Sbjct: 316 AEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAG 372
Query: 391 RSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           R   +   +  GS++ +  +    GD S  +  N + + 
Sbjct: 373 RVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV 411

>pdb|3A5C|A Chain A, Inter-Subunit Interaction And Quaternary Rearrangement Defined By The Central Stalk Of Prokaryotic V1-Atpase Length = 578

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 43/170 (25%), Positives = 79/170 (46%), Gaps = 14/170 (8%)
Query: 284 CIYVAIGQKRSTVAQIV---KRLTDSGA----MGYTIIVSATASDAAPLQYLAPYSGCAM 336
            +YV  G++ + +  ++     LTD       M  T++++ T++     +  + Y G  +
Sbjct: 250 VVYVGCGERGNEMTDVLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTI 309
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSA 393
            E+FRD G    ++ D  S+ A A R++S  L   P  E YP    YL +RL    ER+ 
Sbjct: 310 AEYFRDQGFSVALMADSTSRWAEALREISSRLEEMPAEEGYPP---YLAARLAAFYERAG 366
Query: 394 KMSEAHG-GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK 442
           K+    G  G++T +  +    GD+S  +  + + I      L+  L ++
Sbjct: 367 KVITLGGEEGAVTIVGAVSPPGGDMSEPVTQSTLRIVGAFWRLDASLAFR 416

>pdb|3GQB|A Chain A, Crystal Structure Of The A3b3 Complex From V-atpase Length = 578

Iteration: 1
 Score = 52.4 bits (124), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 43/170 (25%), Positives = 79/170 (46%), Gaps = 14/170 (8%)
Query: 284 CIYVAIGQKRSTVAQIV---KRLTDSGA----MGYTIIVSATASDAAPLQYLAPYSGCAM 336
            +YV  G++ + +  ++     LTD       M  T++++ T++     +  + Y G  +
Sbjct: 250 VVYVGSGERGNEMTDVLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTI 309
Query: 337 GEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSA 393
            E+FRD G    ++ D  S+ A A R++S  L   P  E YP    YL +RL    ER+ 
Sbjct: 310 AEYFRDQGFSVALMADSTSRWAEALREISSRLEEMPAEEGYPP---YLAARLAAFYERAG 366
Query: 394 KMSEAHG-GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK 442
           K+    G  G++T +  +    GD+S  +  + + I      L+  L ++
Sbjct: 367 KVITLGGEEGAVTIVGAVSPPGGDMSEPVTQSTLRIVGAFWRLDASLAFR 416

>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3 Sub-Complex Of F1-Atpase From The Thermophilic Bacillus Ps3 Length = 473

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 39/168 (23%), Positives = 72/168 (42%), Gaps = 5/168 (2%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN 343
            ++  +G++      +   + DSG +  T +V    ++    +     +G  M E+FRD 
Sbjct: 183 SVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDE 242
Query: 344 -GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
            G+  L+  D++ +   A  ++S LL R P    Y   +     +L ER    ++    G
Sbjct: 243 QGQDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQERITSTAK----G 298
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEP 450
           S+T++  I   A D +   P    S  D    LE +L   G+   ++P
Sbjct: 299 SITSIQAIYVPADDYTDPAPATTFSHLDATTNLERKLAEMGIYPAVDP 346

>pdb|3OAA|D Chain D, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 459

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 35/168 (20%), Positives = 69/168 (41%), Gaps = 4/168 (2%)
Query: 283 YCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD 342
           Y ++  +G++          +TDS  +    +V    ++    +     +G  M E FRD
Sbjct: 173 YSVFAGVGERTREGNDFYHEMTDSNVIDKVSLVYGQMNEPPGNRLRVALTGLTMAEKFRD 232
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
            G+  L+  D++ +  +A  ++S LL R P    Y   +      L ER          G
Sbjct: 233 EGRDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQERITSTKT----G 288
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEP 450
           S+T++  +   A D++   P    +  D  + L  ++   G+   ++P
Sbjct: 289 SITSVQAVYVPADDLTDPSPATTFAHLDATVVLSRQIASLGIYPAVDP 336

>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 462

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 38/168 (22%), Positives = 71/168 (42%), Gaps = 5/168 (2%)
Query: 284 CIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD- 342
            ++  +G++      +   + DSG +  T +V    ++    +     +G  M E+FRD 
Sbjct: 176 SVFAGVGERTREGNDLYHEMKDSGVISKTSMVFGQMNEPPGARLRVALTGLTMAEYFRDR 235
Query: 343 NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGG 402
            G+  L+  D++ +   A  ++S LL R P    Y   +     +L ER     +    G
Sbjct: 236 EGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITSTKK----G 291
Query: 403 SLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEP 450
           S+T++  I   A D +   P    +  D    LE +L   G+   ++P
Sbjct: 292 SITSIQAIYVPADDYTDPAPATTFAHLDATTNLERKLAEMGIYPAVDP 339

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	539
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	1e-177
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	1e-65
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	1e-25
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	1e-173
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	5e-65
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	6e-38
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	2e-25
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	1e-173
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	7e-63
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	7e-39
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	8e-26
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	1e-172
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	4e-65
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	8e-38
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	3e-25
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	1e-172
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	5e-65
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	4e-38
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	2e-25
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	9e-30
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	3e-12
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	7e-05
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	4e-27
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	9e-12
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	8e-06
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	6e-18
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	3e-06
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	3e-05
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	4e-04
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	3e-17
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	1e-05
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	5e-05
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	4e-17
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	2e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-08

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ... Length = 510

 Score =  507 bits (1307), Expect = e-177
 Identities = 219/336 (65%), Positives = 232/336 (69%), Gaps = 91/336 (27%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK                  
Sbjct: 146 MQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDG------------- 192

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                      DEKKKLYCIYVAIGQKRSTVAQ+VKRLTD+ AM
Sbjct: 193 --------------------------TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAM 226

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYRQMSLLLR
Sbjct: 227 KYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 286

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIPTNVISIT
Sbjct: 287 RPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISIT 346

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLETELFYK                                               
Sbjct: 347 DGQIFLETELFYK----------------------------------------------- 359

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               GIRPAINVGLSVSRVGSAAQTRAMKQ  G ++
Sbjct: 360 ----GIRPAINVGLSVSRVGSAAQTRAMKQVAGTMK 391

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ... Length = 510

 Score =  220 bits (563), Expect = 1e-65
 Identities = 85/94 (90%), Positives = 89/94 (94%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDV
Sbjct: 275 AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDV 334

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFLETELFYK  R +IN G
Sbjct: 335 SAYIPTNVISITDGQIFLETELFYKGIRPAINVG 368

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ... Length = 510

 Score =  109 bits (275), Expect = 1e-25
 Identities = 50/53 (94%), Positives = 53/53 (100%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KGM+LNLEPDNVGVVVFGND+LIKEGDIVKRTGAIVDVPVGE+LLGRVVDALG
Sbjct: 60  KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG 112

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515

 Score =  497 bits (1282), Expect = e-173
 Identities = 172/336 (51%), Positives = 207/336 (61%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIKA+DS++PIGRGQRELIIGDRQTGKTA+AIDTIINQK                  
Sbjct: 159 LQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK------------------ 200

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                         + +YCIYVAIGQK+S +A+I+ +L   GAM
Sbjct: 201 -----------------------------GQGVYCIYVAIGQKKSAIARIIDKLRQYGAM 231

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YT +V A+ASD A LQY+APY+GCAMGE+F  +G+ AL++YDDLSK AVAYRQ+SLL+R
Sbjct: 232 EYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKHAVAYRQLSLLMR 291

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGD+FYLHSRLLER+ ++++  GGGSLTALP++ETQA D+SAYIPTNVISIT
Sbjct: 292 RPPGREAYPGDIFYLHSRLLERAVRLNDKLGGGSLTALPIVETQANDISAYIPTNVISIT 351

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQI+LE  LFY                                                
Sbjct: 352 DGQIYLEPGLFYA----------------------------------------------- 364

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               G RPAINVGLSVSRVG +AQ +AMKQ  G +R
Sbjct: 365 ----GQRPAINVGLSVSRVGGSAQIKAMKQVAGMLR 396

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515

 Score =  219 bits (559), Expect = 5e-65
 Identities = 70/94 (74%), Positives = 83/94 (88%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           AVAYRQ+SLL+RRPPGREAYPGD+FYLHSRLLER+ ++++  GGGSLTALP++ETQA D+
Sbjct: 280 AVAYRQLSLLMRRPPGREAYPGDIFYLHSRLLERAVRLNDKLGGGSLTALPIVETQANDI 339

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQI+LE  LFY   R +IN G
Sbjct: 340 SAYIPTNVISITDGQIYLEPGLFYAGQRPAINVG 373

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515

 Score =  145 bits (367), Expect = 6e-38
 Identities = 59/130 (45%), Positives = 77/130 (59%), Gaps = 26/130 (20%)

Query: 154 GQ--LIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI 211
           GQ  LIIGDRQTGKTA+AIDTIINQK +              +  +   V I  GQ++  
Sbjct: 175 GQRELIIGDRQTGKTAIAIDTIINQKGQG-------------VYCI--YVAI--GQKKSA 217

Query: 212 IGDRQTGKT-----ALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD 266
           I   +         A+   T++   +   A LQY+APY+GCAMGE+F  +G+ AL++YDD
Sbjct: 218 I--ARIIDKLRQYGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDD 275

Query: 267 LSKQAVAYRQ 276
           LSK AVAYRQ
Sbjct: 276 LSKHAVAYRQ 285

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8} Length = 515

 Score =  108 bits (272), Expect = 2e-25
 Identities = 31/53 (58%), Positives = 41/53 (77%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
           KG+A NLE DNVG+++ G  + IKEG  V+R   I++VPVGE+LLGRVV+ LG
Sbjct: 73  KGVAFNLEEDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLG 125

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A Length = 513

 Score =  497 bits (1281), Expect = e-173
 Identities = 175/347 (50%), Positives = 208/347 (59%), Gaps = 110/347 (31%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           +  G KAVDS++PIGRGQRELIIGDRQTGKTALAID IINQ+                  
Sbjct: 146 VQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR------------------ 187

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                           + CIYVAIGQK ST++ +V++L + GA+
Sbjct: 188 -----------------------------DSGIKCIYVAIGQKASTISNVVRKLEEHGAL 218

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
             TI+V ATAS++A LQYLAPY+GCAMGE+FRD G+ ALIIYDDLSKQAVAYRQ+SLLLR
Sbjct: 219 ANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQAVAYRQISLLLR 278

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAH-----------GGGSLTALPVIETQAGDVS 418
           RPPGREA+PGDVFYLHSRLLER+A+++  +             GSLTALP+IETQAGDVS
Sbjct: 279 RPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTALPIIETQAGDVS 338

Query: 419 AYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVD 478
           A++PTNVISITDGQIFLET LF                                      
Sbjct: 339 AFVPTNVISITDGQIFLETNLFNA------------------------------------ 362

Query: 479 VPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
                          GIRPA+N G+SVSRVG AAQT+ MK+ +G IR
Sbjct: 363 ---------------GIRPAVNPGISVSRVGGAAQTKIMKKLSGGIR 394

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A Length = 513

 Score =  213 bits (544), Expect = 7e-63
 Identities = 71/105 (67%), Positives = 83/105 (79%), Gaps = 11/105 (10%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAH-----------GGGSLTA 109
           AVAYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER+A+++  +             GSLTA
Sbjct: 267 AVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTA 326

Query: 110 LPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           LP+IETQAGDVSA++PTNVISITDGQIFLET LF    R ++N G
Sbjct: 327 LPIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPG 371

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A Length = 513

 Score =  147 bits (374), Expect = 7e-39
 Identities = 68/130 (52%), Positives = 79/130 (60%), Gaps = 26/130 (20%)

Query: 154 GQ--LIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI 211
           GQ  LIIGDRQTGKTALAID IINQ+               GIK +   V I  GQ+   
Sbjct: 162 GQRELIIGDRQTGKTALAIDAIINQRDS-------------GIKCI--YVAI--GQKAST 204

Query: 212 IGDRQTGKT-----ALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD 266
           I      +      ALA   ++   +  +A LQYLAPY+GCAMGE+FRD G+ ALIIYDD
Sbjct: 205 I--SNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDD 262

Query: 267 LSKQAVAYRQ 276
           LSKQAVAYRQ
Sbjct: 263 LSKQAVAYRQ 272

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A Length = 513

 Score =  109 bits (275), Expect = 8e-26
 Identities = 30/53 (56%), Positives = 36/53 (67%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
             +ALNLE D+VG VV G    + EG  VK TG I++VPVG  LLGRVV+ LG
Sbjct: 60  YAIALNLERDSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLG 112

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502

 Score =  496 bits (1279), Expect = e-172
 Identities = 179/336 (53%), Positives = 210/336 (62%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  GIKA+DS++PIGRGQRELIIGDRQTGKT +AIDTIINQK                  
Sbjct: 146 LQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK------------------ 187

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                         + + CIYVAIGQK+STVA +V+ L    A+
Sbjct: 188 -----------------------------GQDVICIYVAIGQKQSTVAGVVETLRQHDAL 218

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V+A+AS+ APL YLAPY+GCAMGE+F   GKHAL++YDDLSKQA AYR++SLLLR
Sbjct: 219 DYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAAAYRELSLLLR 278

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AK+S+  GGGSLTALP IETQAGDVSAYIPTNVISIT
Sbjct: 279 RPPGREAYPGDVFYLHSRLLERAAKLSDEKGGGSLTALPFIETQAGDVSAYIPTNVISIT 338

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFLE++LFY                                                
Sbjct: 339 DGQIFLESDLFYS----------------------------------------------- 351

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               G+RPA+NVG+SVSRVG AAQ +AMK+  G +R
Sbjct: 352 ----GVRPAVNVGISVSRVGGAAQIKAMKKVAGTLR 383

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502

 Score =  219 bits (559), Expect = 4e-65
 Identities = 76/94 (80%), Positives = 85/94 (90%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AYR++SLLLRRPPGREAYPGDVFYLHSRLLER+AK+S+  GGGSLTALP IETQAGDV
Sbjct: 267 AAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDEKGGGSLTALPFIETQAGDV 326

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFLE++LFY   R ++N G
Sbjct: 327 SAYIPTNVISITDGQIFLESDLFYSGVRPAVNVG 360

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502

 Score =  144 bits (366), Expect = 8e-38
 Identities = 58/124 (46%), Positives = 78/124 (62%), Gaps = 18/124 (14%)

Query: 155 QLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD 214
           +LIIGDRQTGKT +AIDTIINQK +              +  +   V IG+ ++  + G 
Sbjct: 165 ELIIGDRQTGKTTIAIDTIINQKGQD-------------VICI--YVAIGQ-KQSTVAGV 208

Query: 215 RQTGKTALAID--TIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV 272
            +T +   A+D   ++   +   APL YLAPY+GCAMGE+F   GKHAL++YDDLSKQA 
Sbjct: 209 VETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAA 268

Query: 273 AYRQ 276
           AYR+
Sbjct: 269 AYRE 272

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B Length = 502

 Score =  107 bits (270), Expect = 3e-25
 Identities = 35/53 (66%), Positives = 40/53 (75%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
            GMA NLE DNVGVV+ G    I+EG  VKRTG I++VPVGE LLGRVV+ LG
Sbjct: 60  MGMAQNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLG 112

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A* Length = 507

 Score =  496 bits (1278), Expect = e-172
 Identities = 168/336 (50%), Positives = 200/336 (59%), Gaps = 99/336 (29%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           L  G+ A+D+++P+GRGQRELIIGDRQTGKTA+A DTI+NQ+                  
Sbjct: 147 LQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQG----------------- 189

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                                         + + C+YVAIGQK S+VAQ+V    + GAM
Sbjct: 190 ------------------------------QNVICVYVAIGQKASSVAQVVTNFQERGAM 219

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR 369
            YTI+V+ TA   A LQYLAPY+G A+ E+F    +H LIIYDDLSKQA AYRQMSLLLR
Sbjct: 220 EYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLLLR 279

Query: 370 RPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT 429
           RPPGREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDVSAYIPTNVISIT
Sbjct: 280 RPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNVISIT 339

Query: 430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRV 489
           DGQIFL  +LF                                                 
Sbjct: 340 DGQIFLSADLFNA----------------------------------------------- 352

Query: 490 VDALGIRPAINVGLSVSRVGSAAQTRAMKQ-TGKIR 524
               GIRPAINVG+SVSRVGSAAQ +AMK+  GK++
Sbjct: 353 ----GIRPAINVGISVSRVGSAAQIKAMKKVAGKLK 384

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A* Length = 507

 Score =  219 bits (559), Expect = 5e-65
 Identities = 74/94 (78%), Positives = 81/94 (86%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDV
Sbjct: 268 AQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDV 327

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCG 154
           SAYIPTNVISITDGQIFL  +LF    R +IN G
Sbjct: 328 SAYIPTNVISITDGQIFLSADLFNAGIRPAINVG 361

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A* Length = 507

 Score =  145 bits (368), Expect = 4e-38
 Identities = 53/127 (41%), Positives = 70/127 (55%), Gaps = 24/127 (18%)

Query: 155 QLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD 214
           +LIIGDRQTGKTA+A DTI+NQ+ +              +  V   V I  GQ+   +  
Sbjct: 166 ELIIGDRQTGKTAVATDTILNQQGQ-------------NVICV--YVAI--GQKASSV-- 206

Query: 215 RQTGKT-----ALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSK 269
            Q         A+    ++ + +   A LQYLAPY+G A+ E+F    +H LIIYDDLSK
Sbjct: 207 AQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSK 266

Query: 270 QAVAYRQ 276
           QA AYRQ
Sbjct: 267 QAQAYRQ 273

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A* Length = 507

 Score =  108 bits (272), Expect = 2e-25
 Identities = 29/53 (54%), Positives = 38/53 (71%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALG 494
            G+ALNLE +NVGVV+ G+  +I+EG  VK TG I  +PV E  LGRV++AL 
Sbjct: 61  IGIALNLESNNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALA 113

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D* Length = 464

 Score =  120 bits (304), Expect = 9e-30
 Identities = 50/263 (19%), Positives = 96/263 (36%), Gaps = 39/263 (14%)

Query: 182 RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYL 241
            R      +  GI  +D +  + RGQ+  I          +A                 +
Sbjct: 123 ARRKPEQFIQTGISTIDVMNTLVRGQKLPIFSGSGLPANEIA---------------AQI 167

Query: 242 APYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVK 301
           A  +            +    +                     ++ A+G  +  ++  ++
Sbjct: 168 ARQATVRPDLSGEGEKEEPFAV---------------------VFAAMGITQRELSYFIQ 206

Query: 302 RLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVA 360
               +GA+  +++    A D    + L P     + E+   ++  H L+I  D++  + A
Sbjct: 207 EFERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSEA 266

Query: 361 YRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAY 420
            R++       PGR  YPG ++   + + ER+  +      GS+T +P++     D +  
Sbjct: 267 LREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVE--GKKGSVTQIPILSMPDDDRTHP 324

Query: 421 IPTNVISITDGQIFLETELFYKG 443
           IP     IT+GQI L  EL  KG
Sbjct: 325 IPDLTGYITEGQIQLSRELHRKG 347

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D* Length = 464

 Score = 67.8 bits (166), Expect = 3e-12
 Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 2/85 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           + A R++       PGR  YPG ++   + + ER+  +      GS+T +P++     D 
Sbjct: 264 SEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVE--GKKGSVTQIPILSMPDDDR 321

Query: 121 SAYIPTNVISITDGQIFLETELFYK 145
           +  IP     IT+GQI L  EL  K
Sbjct: 322 THPIPDLTGYITEGQIQLSRELHRK 346

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D* Length = 464

 Score = 44.3 bits (105), Expect = 7e-05
 Identities = 16/95 (16%), Positives = 33/95 (34%), Gaps = 12/95 (12%)

Query: 451 DNVGVVVFGNDRLIKEGD-IVKRTGAIVDVPVGEDLLGRVVDALGI----RPAINVGLSV 505
           +   + VF     +      V     +  + V +++LGR  + +G      P I     +
Sbjct: 53  EYAVIQVFEETTGLDLATTSVSLVEDVARLGVSKEMLGRRFNGIGKPIDGLPPITPEKRL 112

Query: 506 SRVGSA------AQTRAMKQTGKIRSWNGWLSLLK 534
              G         +     QTG I + +   +L++
Sbjct: 113 PITGLPLNPVARRKPEQFIQTG-ISTIDVMNTLVR 146

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A* Length = 469

 Score =  113 bits (284), Expect = 4e-27
 Identities = 54/255 (21%), Positives = 92/255 (36%), Gaps = 46/255 (18%)

Query: 190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAM 249
           +  GI  +D    + RGQ+  I          +A                          
Sbjct: 136 IQTGISTIDGTNTLVRGQKLPIFSASGLPHNEIA------------------------LQ 171

Query: 250 GEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAM 309
                            +++QA     +       ++ A+G         +     +GA+
Sbjct: 172 -----------------IARQASVPGSESA--FAVVFAAMGITNEEAQYFMSDFEKTGAL 212

Query: 310 GYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLL 368
              ++    A D A  + + P       E+   ++G H L+I  D++  A A RQM    
Sbjct: 213 ERAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAAR 272

Query: 369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISI 428
              PGR  YPG ++   + L ER+  +      GS+T +P++     D++  IP     I
Sbjct: 273 NEVPGRRGYPGYMYTDLATLYERAGIVK--GAKGSVTQIPILSMPGDDITHPIPDLSGYI 330

Query: 429 TDGQIFLETELFYKG 443
           T+GQI +  EL  KG
Sbjct: 331 TEGQIVVARELHRKG 345

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A* Length = 469

 Score = 66.2 bits (162), Expect = 9e-12
 Identities = 29/85 (34%), Positives = 42/85 (49%), Gaps = 2/85 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A RQM       PGR  YPG ++   + L ER+  +      GS+T +P++     D+
Sbjct: 262 AEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVK--GAKGSVTQIPILSMPGDDI 319

Query: 121 SAYIPTNVISITDGQIFLETELFYK 145
           +  IP     IT+GQI +  EL  K
Sbjct: 320 THPIPDLSGYITEGQIVVARELHRK 344

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A* Length = 469

 Score = 47.4 bits (113), Expect = 8e-06
 Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 11/103 (10%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGI----RP 497
           +G  L+   D V V VF     + +   V  TG  + +P   DLLGR++   G      P
Sbjct: 50  RGQVLDSSADIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGP 109

Query: 498 AINVGLSVSRVGSA------AQTRAMKQTGKIRSWNGWLSLLK 534
            I     +   G+A         +   QTG I + +G  +L++
Sbjct: 110 RIVPDQLLDINGAAMNPYARLPPKDFIQTG-ISTIDGTNTLVR 151

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score = 85.5 bits (212), Expect = 6e-18
 Identities = 46/155 (29%), Positives = 76/155 (49%), Gaps = 2/155 (1%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHAL 348
           IG++   V   ++ +        +++++A A  +  L+         + E FRD G+H L
Sbjct: 191 IGERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVL 250

Query: 349 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALP 408
           +I D L++ A+A R+++L +  PP  + YP  VF     L+ER+      HGGGS+TA  
Sbjct: 251 LIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGN--GIHGGGSITAFY 308

Query: 409 VIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
            + T+  D    I  +  +I DG I L   L   G
Sbjct: 309 TVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAG 343

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score = 48.9 bits (117), Expect = 3e-06
 Identities = 29/82 (35%), Positives = 42/82 (51%), Gaps = 2/82 (2%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A+A R+++L +  PP  + YP  VF     L+ER+      HGGGS+TA   + T+  D 
Sbjct: 260 AMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGN--GIHGGGSITAFYTVLTEGDDQ 317

Query: 121 SAYIPTNVISITDGQIFLETEL 142
              I  +  +I DG I L   L
Sbjct: 318 QDPIADSARAILDGHIVLSRRL 339

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score = 45.8 bits (109), Expect = 3e-05
 Identities = 30/135 (22%), Positives = 53/135 (39%), Gaps = 40/135 (29%)

Query: 180 KRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI---------------------------- 211
           +R  +    +L  G++A+++L+ +GRGQR  +                            
Sbjct: 133 QRTPIEH--VLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYTRADVIVVGL 190

Query: 212 IGDR----------QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHAL 261
           IG+R            G    A   +I   +  +  L+         + E FRD G+H L
Sbjct: 191 IGERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVL 250

Query: 262 IIYDDLSKQAVAYRQ 276
           +I D L++ A+A R+
Sbjct: 251 LIMDSLTRYAMAQRE 265

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score = 42.0 bits (99), Expect = 4e-04
 Identities = 21/88 (23%), Positives = 36/88 (40%), Gaps = 14/88 (15%)

Query: 410 IETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDI 469
           IE Q G  +  + + V+     ++FL        M L    +  G++     R+      
Sbjct: 36  IERQDGPETKEVESEVVGFNGQRLFL--------MPLE---EVEGILP--GARVYARNGH 82

Query: 470 VKRTGAIVDVPVGEDLLGRVVDALGIRP 497
                +   +P+G  LLGRV+D  G +P
Sbjct: 83  GDGLQSGKQLPLGPALLGRVLDGGG-KP 109

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* Length = 347

 Score = 81.9 bits (203), Expect = 3e-17
 Identities = 45/155 (29%), Positives = 76/155 (49%), Gaps = 5/155 (3%)

Query: 289 IGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHAL 348
           IG++   V + +  L  S  +   ++V  T+   A  +  A ++   + E+FRD GK+ L
Sbjct: 105 IGERGREVNEFLALLPQST-LSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQGKNVL 163

Query: 349 IIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALP 408
           ++ D +++ A A R + L    P  R  +P  VF    +LLER+         GS+TA+ 
Sbjct: 164 LMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAGP----APKGSITAIY 219

Query: 409 VIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
            +  ++ +V+  I   V SI DG I L  EL  + 
Sbjct: 220 TVLLESDNVNDPIGDEVRSILDGHIVLTRELAEEN 254

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* Length = 347

 Score = 46.5 bits (111), Expect = 1e-05
 Identities = 27/123 (21%), Positives = 48/123 (39%), Gaps = 37/123 (30%)

Query: 190 LSAGIKAVDSLVPIGRGQRELI----------------------------IGDR------ 215
              G++A+D L+  G GQR  I                            IG+R      
Sbjct: 55  FILGVRAIDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNGASADIIVLALIGERGREVNE 114

Query: 216 ---QTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAV 272
                 ++ L+   ++   S   A  +  A ++   + E+FRD GK+ L++ D +++ A 
Sbjct: 115 FLALLPQSTLSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQGKNVLLMMDSVTRYAR 174

Query: 273 AYR 275
           A R
Sbjct: 175 AAR 177

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* Length = 347

 Score = 44.6 bits (106), Expect = 5e-05
 Identities = 28/82 (34%), Positives = 39/82 (47%), Gaps = 4/82 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A A R + L    P  R  +P  VF    +LLER+         GS+TA+  +  ++ +V
Sbjct: 173 ARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAGP----APKGSITAIYTVLLESDNV 228

Query: 121 SAYIPTNVISITDGQIFLETEL 142
           +  I   V SI DG I L  EL
Sbjct: 229 NDPIGDEVRSILDGHIVLTREL 250

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C Length = 578

 Score = 83.6 bits (207), Expect = 4e-17
 Identities = 56/274 (20%), Positives = 101/274 (36%), Gaps = 49/274 (17%)

Query: 174 INQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSI 233
           + + R  +R+L        G++ +D L P+  G    I G   +GK+           + 
Sbjct: 189 VRRARPVQRKLDPNTPFLTGMRILDVLFPVAMGGTAAIPGPFGSGKSVTQQSLAKWSNAD 248

Query: 234 YAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKR 293
                     Y G   GE                       R +E   +   +  +   +
Sbjct: 249 VVV-------YVGS--GE-----------------------RGNEMTDVLVEFPELTDPK 276

Query: 294 STVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD 353
                     T    M  T++++ T++     +  + Y G  + E+FRD G    ++ D 
Sbjct: 277 ----------TGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADS 326

Query: 354 LSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSAKMSEAHGG-GSLTALPV 409
            S+ A A R++S  L   P  E YP    YL +RL    ER+ K+    G  G++T +  
Sbjct: 327 TSRWAEALREISSRLEEMPAEEGYPP---YLAARLAAFYERAGKVITLGGEEGAVTIVGA 383

Query: 410 IETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
           +    GD+S  +  + + I      L+  L ++ 
Sbjct: 384 VSPPGGDMSEPVTQSTLRIVGAFWRLDASLAFRR 417

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A Length = 588

 Score = 75.2 bits (185), Expect = 2e-14
 Identities = 57/276 (20%), Positives = 101/276 (36%), Gaps = 51/276 (18%)

Query: 174 INQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSI 233
           +  KR  + +L     L  G + +D+  P  +G    I G   +GKT           + 
Sbjct: 195 VRVKRPYKEKLPPEVPLITGQRVIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWSDAQ 254

Query: 234 YAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKR 293
                     Y GC  GE                       R +E   +   +  +   +
Sbjct: 255 VVI-------YIGC--GE-----------------------RGNEMTDVLEEFPKLKDPK 282

Query: 294 STVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD 353
                     T    M  T++++ T++     +  + Y+G  + E+FRD G    ++ D 
Sbjct: 283 ----------TGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADS 332

Query: 354 LSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRL---LERSAKMSEAHGG---GSLTAL 407
            S+ A A R++S  L   PG E YP    YL S+L    ER+ ++         GS++ +
Sbjct: 333 TSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAGRVVTLGSDYRVGSVSVI 389

Query: 408 PVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG 443
             +    GD S  +  N + +      L+ +L  + 
Sbjct: 390 GAVSPPGGDFSEPVVQNTLRVVKVFWALDADLARRR 425

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 61.8 bits (149), Expect = 4e-10
 Identities = 65/453 (14%), Positives = 141/453 (31%), Gaps = 135/453 (29%)

Query: 44  AEISSILEERILGSAPKAVAYRQMSLLLRRPP-GREAYPGDVF-----YLHSRLLERSAK 97
            EI  I+  +       +   R    LL +     + +  +V      +L S +     +
Sbjct: 49  EEIDHIIMSK----DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQ 104

Query: 98  MSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRG-------- 149
                        P + T+      YI        D Q+F +    Y V R         
Sbjct: 105 -------------PSMMTRM-----YIEQRDRLYNDNQVFAK----YNVSRLQPYLKLRQ 142

Query: 150 ---SINCGQLII--GDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIG 204
               +   + ++  G   +GKT +A+D  ++ K + +        +   I  ++    + 
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK--------MDFKIFWLN----LK 190

Query: 205 RGQR-ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNG-KHALI 262
                E ++   Q       ID     +S +++ ++         +    +    ++ L+
Sbjct: 191 NCNSPETVLEMLQK--LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 263 IYDDL-SKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIV-----KRLTDSGAMGYTIIVS 316
           +  ++ + +A          L C             +I+     K++TD  +   T  +S
Sbjct: 249 VLLNVQNAKAW-----NAFNLSC-------------KILLTTRFKQVTDFLSAATTTHIS 290

Query: 317 -----ATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAY--RQMSL--- 366
                 T +       L  Y  C                  DL ++ +    R++S+   
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRP---------------QDLPREVLTTNPRRLSIIAE 335

Query: 367 LLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAG-------DVSA 419
            +R             + H    ++   + E+    SL  L   E +           SA
Sbjct: 336 SIRDGLATWDN-----WKHVN-CDKLTTIIES----SLNVLEPAEYRKMFDRLSVFPPSA 385

Query: 420 YIPTNVISI-------TDGQIFLETELFYKGMA 445
           +IPT ++S+       +D  + +  +L    + 
Sbjct: 386 HIPTILLSLIWFDVIKSDVMVVVN-KLHKYSLV 417

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.4 bits (135), Expect = 2e-08
 Identities = 66/513 (12%), Positives = 137/513 (26%), Gaps = 138/513 (26%)

Query: 24  NWAATQIASRKFNVSASSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGD 83
            +  + I + +      S    +     +R+         Y      + R          
Sbjct: 92  KFLMSPIKTEQ---RQPSMMTRMYIEQRDRLYNDNQVFAKYN-----VSRLQ-------P 136

Query: 84  VFYLHSRLLE-RSAKMSEAHG-GGS-LTALPVIET-QAGDVSAYIPTNVISITDGQIFLE 139
              L   LLE R AK     G  GS  T +  ++   +  V   +   +  +        
Sbjct: 137 YLKLRQALLELRPAKNVLIDGVLGSGKTWV-ALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195

Query: 140 TELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDS 199
             +   + +      Q+          +  I   I+  + + RRLLK           + 
Sbjct: 196 ETVLEMLQK---LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY------ENC 246

Query: 200 LVPIGRGQRELIIGDRQTGKTALAID----TII--NQKSI--YAAPLQYLAPYSGCAMGE 251
           L         L++ + Q  K   A +     ++    K +  + +               
Sbjct: 247 L---------LVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297

Query: 252 FFRDNGKHAL-----IIYDDLSKQAV-----------AYRQDEKKKL-YCIYVAIGQKRS 294
              D  K  L         DL ++ +              +D         +V   +  +
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357

Query: 295 TVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGK---HAL-II 350
            +   +  L                    P +Y   +   ++   F  +       L +I
Sbjct: 358 IIESSLNVLE-------------------PAEYRKMFDRLSV---FPPSAHIPTILLSLI 395

Query: 351 YDDLSKQAV-----AYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLT 405
           + D+ K  V        + SL+ ++P            + S  LE   K+          
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKES------TISIPSIYLELKVKLEN------EY 443

Query: 406 AL--PVIE----TQAGDVSAYIPTNVISITDGQIFL-------------ETELFYKGMAL 446
           AL   +++     +  D    IP  +    D   +                 LF   + L
Sbjct: 444 ALHRSIVDHYNIPKTFDSDDLIPPYL----DQYFYSHIGHHLKNIEHPERMTLFRM-VFL 498

Query: 447 NLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDV 479
           +          F   ++  +      +G+I++ 
Sbjct: 499 DFR--------FLEQKIRHDSTAWNASGSILNT 523

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.5 bits (130), Expect = 7e-08
 Identities = 77/547 (14%), Positives = 151/547 (27%), Gaps = 172/547 (31%)

Query: 8   LAAALAK--NIPSS-----LNQAN--WAATQIASRKFNVSASSRAAEISSILEERILGSA 58
           L + +      PS      + Q +  +   Q+ + K+NVS      ++   L E  L  A
Sbjct: 94  LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA-KYNVSRLQPYLKLRQALLE--LRPA 150

Query: 59  PKAVAYRQM-----SLL----LRRPPGREAYPGDVFYLHSR-------LLERSAKMSEAH 102
              +    +     + +          +      +F+L+ +       +LE   K+    
Sbjct: 151 KNVLID-GVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL---- 205

Query: 103 GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYK--------------VDR 148
               L  +    T   D S+ I   + SI      L     Y+               + 
Sbjct: 206 ----LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA 261

Query: 149 GSINCGQLIIGDRQTGKTALAIDTIINQKRKKRRR---------------LLKYNLLSAG 193
            +++C  L+     T    +  D +                         LLKY      
Sbjct: 262 FNLSCKILLT----TRFKQVT-DFLSAATTTHISLDHHSMTLTPDEVKSLLLKY----LD 312

Query: 194 IKAVD------SLVP-----IGRGQRELIIGDR-------QTGKTALAIDTIINQKSIYA 235
            +  D      +  P     I    R+ +              K    I++ +N      
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIAESIRDGL--ATWDNWKHVNCDKLTTIIESSLNVLE--- 367

Query: 236 APLQYLAPYSGCAMGEFFRDNGK---HALIIY-------------DDLSKQAVAYRQDEK 279
            P +Y   +   ++   F  +       L +              + L K ++  +Q ++
Sbjct: 368 -PAEYRKMFDRLSV---FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE 423

Query: 280 KK--LYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPL---QYLAPYSG- 333
               +  IY+ +  K      + + + D     Y I  +  + D  P    QY   + G 
Sbjct: 424 STISIPSIYLELKVKLENEYALHRSIVDH----YNIPKTFDSDDLIPPYLDQYFYSHIGH 479

Query: 334 ----CAMGE---FFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHS 386
                   E    FR        ++ D        R +   +R         G +     
Sbjct: 480 HLKNIEHPERMTLFRM-------VFLDF-------RFLEQKIRHDSTAWNASGSILNTLQ 525

Query: 387 RLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIP-----------TNVISIT----DG 431
           +L      + +          P  E     +  ++P           T+++ I     D 
Sbjct: 526 QLKFYKPYICDND--------PKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDE 577

Query: 432 QIFLETE 438
            IF E  
Sbjct: 578 AIFEEAH 584

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	539
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	100.0
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	100.0
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	100.0
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	100.0
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	100.0
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	100.0
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	100.0
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	100.0
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	100.0
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	100.0
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	100.0
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	100.0
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	100.0
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	100.0
3l0o_A	427	Transcription termination factor RHO; helicase, RH	100.0
3ice_A	422	Transcription termination factor RHO; transcriptio	100.0
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	100.0
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	100.0
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	98.51
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	98.39
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	98.36
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	98.35
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	98.33
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	97.98
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	97.95
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	97.9
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	97.88
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	97.59
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	97.59
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	97.59
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	97.51
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	97.5
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.48
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.21
3io5_A	333	Recombination and repair protein; storage dimer, i	97.03
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.71
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.66
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.56
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.41
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.38
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.38
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.33
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.29
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.18
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.11
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.07
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.04
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.63
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.59
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	95.56
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.33
3l0o_A	427	Transcription termination factor RHO; helicase, RH	95.31
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.31
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	95.05
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.79
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.79
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	94.73
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.73
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	94.58
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	94.57
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	94.52
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.44
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	94.41
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	94.34
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.07
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	93.83
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	93.8
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	93.7
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	93.64
3ice_A	422	Transcription termination factor RHO; transcriptio	93.49
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	93.47
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	93.47
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	93.44
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.42
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	92.97
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	92.73
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.69
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	92.5
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.45
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	92.41
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.34
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	92.3
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	92.11
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	91.9
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	91.88
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	91.85
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	91.85
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	91.75
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	91.73
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	91.62
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	91.62
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	91.51
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.43
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	91.42
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	91.39
1b0u_A	262	Histidine permease; ABC transporter, transport pro	91.38
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	91.33
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	91.24
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	91.23
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	91.23
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	91.22
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	91.16
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.16
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	91.15
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	91.13
1sgw_A	214	Putative ABC transporter; structural genomics, P p	91.09
1ji0_A	240	ABC transporter; ATP binding protein, structural g	91.05
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.05
2ghi_A	260	Transport protein; multidrug resistance protein, M	91.05
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	91.03
1g6h_A	257	High-affinity branched-chain amino acid transport	91.0
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	90.9
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	90.9
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	90.76
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	90.73
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	90.48
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	90.37
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	90.23
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	90.22
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	90.21
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	90.21
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	90.18
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	90.16
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	90.05
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	90.04
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	90.03
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	90.01
3pvs_A	447	Replication-associated recombination protein A; ma	90.0
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	89.94
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	89.87
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	89.84
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	89.84
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	89.71
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	89.69
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	89.69
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	89.57
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	89.57
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	89.46
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	89.4
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	89.35
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	89.32
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	89.29
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	89.27
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	89.2
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	89.01
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	88.9
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	88.82
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	88.8
3bos_A	242	Putative DNA replication factor; P-loop containing	88.77
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	88.76
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	88.75
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	88.66
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	88.54
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	88.45
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	88.16
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	88.12
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	87.95
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	87.92
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	87.84
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	87.73
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	87.73
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	87.64
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	87.59
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	87.48
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	87.48
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	87.43
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	87.34
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	87.06
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	87.0
3kta_A	182	Chromosome segregation protein SMC; structural mai	86.98
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	86.93
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	86.91
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	86.76
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	86.5
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	86.41
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	86.09
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	86.07
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	86.07
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	86.06
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	86.05
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	86.02
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	86.0
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	85.97
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	85.87
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	85.87
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	85.87
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	85.82
2eyu_A	261	Twitching motility protein PILT; pilus retraction	85.71
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	85.67
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	85.24
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	84.97
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	84.9
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	84.8
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	84.7
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	84.42
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	84.23
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	84.07
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	84.07
2chg_A	226	Replication factor C small subunit; DNA-binding pr	84.07
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	83.89
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	83.77
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	83.53
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	83.45
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	83.39
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	83.37
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	83.34
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	83.33
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	83.27
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	83.19
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	83.06
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	83.03
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	82.99
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	82.95
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	82.85
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	82.78
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	82.65
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	82.53
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	82.5
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	82.49
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	82.37
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	82.31
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	82.25
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	82.01
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	82.0
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	81.98
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	81.89
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	81.81
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	81.8
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	81.8
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	81.72
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	81.68
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	81.59
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	81.54
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	81.5
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	81.45
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	81.34
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	81.25
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	81.24
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	81.23
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	81.19
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	81.16
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	81.16
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	81.13
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	81.11
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	81.03
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	80.97
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	80.91
2og2_A	359	Putative signal recognition particle receptor; nuc	80.91
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	80.91
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	80.9
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	80.88
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	80.63
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	80.63
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	80.63
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	80.56
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	80.51
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	80.51
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	80.5
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	80.48
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	80.46
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	80.43
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	80.38
2vli_A	183	Antibiotic resistance protein; transferase, tunica	80.38
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	80.38
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	80.38
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	80.27
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	80.21
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	80.19
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	80.18
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	80.09
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	80.04

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=100.00  E-value=6.8e-107  Score=872.47  Aligned_cols=382  Identities=53%  Similarity=0.774  Sum_probs=335.5

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEecccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIET  115 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~  115 (539)
                      +++++||+++++++|.+|++.+..         ++.|++.+|+++    +|+.++   .++|++.|+++..|+|+++++ 
T Consensus         2 ~~~~~~~~~~~~~~i~~~~~~~~~---------~~~G~V~~v~g~i~~v~Gl~~~---~~gElv~~~~~~~g~v~~l~~-   68 (513)
T 3oaa_A            2 QLNSTEISELIKQRIAQFNVVSEA---------HNEGTIVSVSDGVIRIHGLADC---MQGEMISLPGNRYAIALNLER-   68 (513)
T ss_dssp             ----------------------CC---------TTEEEEEEEETTEEEEEECTTC---BTTCEEEETTTEEEEEEEECS-
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCc---------eeEEEEEEEECcEEEEECCccC---CcCCEEEECCCCEEEEEEeeC-
Confidence            567899999999999999988877         889999999999    677777   999999999999999999999 


Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLL  190 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl  190 (539)
                        |++++++|+++.|+++|++|++||++++||||++|||||+  +|+||||++++..+...+   .+|++..|.++++||
T Consensus        69 --d~v~~~~~~~~~gi~~G~~V~~tg~~~~VpvG~~lLGRV~d~lG~PiDg~g~i~~~~~~pi~~~ap~~~~R~~v~epl  146 (513)
T 3oaa_A           69 --DSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFSAVEAIAPGVIERQSVDQPV  146 (513)
T ss_dssp             --SCEEEEESSCCSSCCTTCEEECCSCSSEEECSGGGTTCEEETTSCBTTCSCSCCCSCEEESSCCCCCSSSCCCCCCBC
T ss_pred             --CEEEEEEeCCccCCCCCCEEEEcCCCCeEeeCHHHhccchhhcCcCccCCCCCCccceeecccCCCCccccCCcCccc
Confidence              9999999999999999999999999999999999999999  999999999987665432   234444454559999


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      +||||+||+|+|||||||++|||++|||||+|++++|+||+..                                     
T Consensus       147 ~TGikaID~l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~~~-------------------------------------  189 (513)
T 3oaa_A          147 QTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQRDS-------------------------------------  189 (513)
T ss_dssp             CCSCHHHHHHSCCBTTCBCEEEESSSSSHHHHHHHHHHTTSSS-------------------------------------
T ss_pred             ccceeeeccccccccCCEEEeecCCCCCcchHHHHHHHhhccC-------------------------------------
Confidence            9999999999999999999999999999999999999998643                                     


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                                +++|||++||||++||++|+++++++|+|+||++|++|+|+||.+|+++||+|||+||||||+|+|||++
T Consensus       190 ----------dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli  259 (513)
T 3oaa_A          190 ----------GIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALII  259 (513)
T ss_dssp             ----------SCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             ----------CceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHHHHHHHHHHHHHHhcCCCEEEE
Confidence                      4789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCC----------CC-CccceeeeEEEeeCCCcCC
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEA----------HG-GGSLTALPVIETQAGDVSA  419 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~----------~g-~GSITal~~v~~~~~D~s~  419 (539)
                      |||+||||+||||||+++||||+++|||||+||+||||+||||++++.          .| +||||+||+|++|+||++|
T Consensus       260 ~Dsltr~A~A~REisl~lgepP~r~gYP~~vf~~~srLlERAg~~~~~~~~~~~~~~~~g~~GSITal~~V~~~~dD~s~  339 (513)
T 3oaa_A          260 YDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTALPIIETQAGDVSA  339 (513)
T ss_dssp             EETHHHHHHHHHHHHHHTTCCBCTTSCBTTHHHHHHHHHTTCSEECHHHHHHHHTTSCCSCCEEEEECCEEECGGGCCSS
T ss_pred             ecChHHHHHHHHHHHHhcCCCCcccCCCchhhhhcchHHHHHhhcccccchhccccccCCCCcceEEEEEEEcCCCCccC
Confidence            999999999999999999999999999999999999999999998632          35 8999999999999999999


Q ss_pred             ccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        420 YIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       420 pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      |||||++|||||||||||+||++|                                                   +||||
T Consensus       340 pIp~~~~si~DGqIvLsr~La~~g---------------------------------------------------iyPAI  368 (513)
T 3oaa_A          340 FVPTNVISITDGQIFLETNLFNAG---------------------------------------------------IRPAV  368 (513)
T ss_dssp             HHHHHHHHHSSEEEEECHHHHTTS---------------------------------------------------CCSCB
T ss_pred             cchHhhhccCCeEEEEehhHHhCC---------------------------------------------------CCCcc
Confidence            999999999999999999999999                                                   79999


Q ss_pred             cccccccccCchhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        500 NVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       500 ~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      |++.|+||+|+++|+++| +.+.++|+   +|+.|+|+.
T Consensus       369 dvl~SvSRv~~~~~~~~~~~va~~lr~---~la~y~el~  404 (513)
T 3oaa_A          369 NPGISVSRVGGAAQTKIMKKLSGGIRT---ALAQYRELA  404 (513)
T ss_dssp             CTTTCEESSGGGGSCHHHHHHHHHHHH---HHHHHHHHH
T ss_pred             CccccccccCcccccHHHHHHHHHHHH---HHHHHHHHH
Confidence            999999999999999999 45666777   899999873

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=100.00  E-value=1e-103  Score=849.14  Aligned_cols=382  Identities=54%  Similarity=0.802  Sum_probs=333.5

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEecccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIET  115 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~  115 (539)
                      +++++|++++++++|++|+..++.         +..|.+.+|+++    .|++++   .++|++.|+++..|+|+++++ 
T Consensus         2 ~~~~~~~~~~~~~~i~~~~~~~~~---------~~~G~V~~v~g~iv~v~gl~~~---~~ge~~~i~~g~~g~v~~l~~-   68 (502)
T 2qe7_A            2 SIRPEEISALIKKQIENYEADLEV---------VEVGTVIQVGDGIARVHGLEKV---MAGELLEFENGVMGMAQNLEE-   68 (502)
T ss_dssp             ----------------------------------CEEEEEEEETTEEEEECCTTC---BTTEEEEETTSCEEEEEEEET-
T ss_pred             CCCHHHHHHHHHHHHHhcCCCcce---------eEEEEEEEecCcEEEEEECCCC---CCCCEEEECCCCEEEEEEecC-
Confidence            457889999999999999998887         789999999998    566666   899999998777899999999 


Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLL  190 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl  190 (539)
                        |++++++|+++.|+++|+.|++||++++||||++|||||+  +|+||||++++.....++   .+|++..|.++++||
T Consensus        69 --~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R~~v~epl  146 (502)
T 2qe7_A           69 --DNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLGQPLDGRGPIETAEYRPIESPAPGVMDRKSVHEPL  146 (502)
T ss_dssp             --TEEEEEECSCCSSCCTTCEEEEEEEESEEECSGGGTTCEECTTCCBSSCSCCCCCCCEEESSCCCCCTTSBCCCCSBC
T ss_pred             --CeEEEEEecCccCCcCCCEEEEeCCcceEEcccccceEEEccCCCCCCCCCCCCCCceeeccCCCCCcccccCCCCcc
Confidence              9999999999999999999999999999999999999999  999999999987654332   234444454559999


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      +||||+||+|+|||||||++|||++|+|||+|++++|+||+..                                     
T Consensus       147 ~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~-------------------------------------  189 (502)
T 2qe7_A          147 QTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQKGQ-------------------------------------  189 (502)
T ss_dssp             CCSCHHHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGGSC-------------------------------------
T ss_pred             ccceeecccccccccCCEEEEECCCCCCchHHHHHHHHHhhcC-------------------------------------
Confidence            9999999999999999999999999999999999999999742                                     


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                                +++|||++||||++||++|+++++++++|+||++|++|+|+||.+|+++||+|||+||||||+|+|||++
T Consensus       190 ----------dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~  259 (502)
T 2qe7_A          190 ----------DVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVV  259 (502)
T ss_dssp             ----------SEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEE
T ss_pred             ----------CcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEE
Confidence                      4789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccc
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITD  430 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitD  430 (539)
                      |||+||||+||||||+++||||+++||||++||+|+||+||||++++..++||||++|+|++|+||++||||||++||||
T Consensus       260 ~Dsltr~A~A~REisl~lgepP~~~gYpg~vf~~~~rL~ERAg~~~~~~~~GSITal~~v~~~~dD~s~pI~~~~~si~D  339 (502)
T 2qe7_A          260 YDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDEKGGGSLTALPFIETQAGDVSAYIPTNVISITD  339 (502)
T ss_dssp             EECHHHHHHHHHHHHTTTTCCCCSTTSCTTHHHHHHHHHTSCCBBCTTTTCCEEEEEEEEECSTTCCSSHHHHHHHTTSS
T ss_pred             EecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHHHHHHHhhhcccccCCCcceeEEEEEEccCCCcccchhHHHhhhcC
Confidence            99999999999999999999999999999999999999999999987657899999999999999999999999999999


Q ss_pred             eeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCc
Q psy13776        431 GQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGS  510 (539)
Q Consensus       431 GqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~  510 (539)
                      |||||||+||++|                                                   +|||||++.|+||+|+
T Consensus       340 gqI~Lsr~La~~g---------------------------------------------------~~PAIdvl~S~SRv~~  368 (502)
T 2qe7_A          340 GQIFLESDLFYSG---------------------------------------------------VRPAVNVGISVSRVGG  368 (502)
T ss_dssp             EEEEECHHHHTTT---------------------------------------------------CSSCBCTTTCEESSGG
T ss_pred             cEEEEehhHhhCC---------------------------------------------------CCceeCcccccccCCC
Confidence            9999999999999                                                   7999999999999999


Q ss_pred             hhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        511 AAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       511 ~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +++.++| +.+.++|+   .|+.|+++.
T Consensus       369 ~~~~~~~~~~a~~lr~---~la~y~el~  393 (502)
T 2qe7_A          369 AAQIKAMKKVAGTLRL---DLAQYRELQ  393 (502)
T ss_dssp             GGSCHHHHHHHHHHHH---HHHHHHHGG
T ss_pred             ccCCHHHHHHHHHHHH---HHhhhHHHH
Confidence            9999999 55677777   899999874

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=100.00  E-value=1e-103  Score=849.86  Aligned_cols=382  Identities=52%  Similarity=0.799  Sum_probs=342.3

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccc-cCCeEEEEEeccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEA-HGGGSLTALPVIE  114 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f-~~g~~G~vl~l~~  114 (539)
                      .++++|++++++++|++|+..++.         +..|.+.+|+++    .|++++   .++|++.| +++..|+|+++++
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~---------~~~G~V~~V~g~iv~v~gl~~~---~~gEl~~i~~~g~~g~v~~l~~   81 (515)
T 2r9v_A           14 RINPGEITKVLEEKIKSFEEKIDL---------EDTGKVIQVGDGIARAYGLNKV---MVSELVEFVETGVKGVAFNLEE   81 (515)
T ss_dssp             ---------------CTTCCCSCT---------TTEEEEEEEETTEEEEEECTTC---CTTEEEEETTTCCEEEEEECCT
T ss_pred             ccCHHHHHHHHHHHHHhcCCCCcc---------eeeeEEEEEECcEEEEecCCCC---CCCCEEEEecCCeEEEEEEecC
Confidence            678999999999999999999887         789999999998    677777   89999999 6667899999999


Q ss_pred             cCCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---cccccccccccccc
Q psy13776        115 TQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNL  189 (539)
Q Consensus       115 ~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~ep  189 (539)
                         |++++++|+++.|+++|+.|++||++++||||++|||||+  +|+|+||++++.....++   .+|++..|.++++|
T Consensus        82 ---~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~P~~~~R~~v~ep  158 (515)
T 2r9v_A           82 ---DNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFRPIEIKAPGVIYRKPVDTP  158 (515)
T ss_dssp             ---TCEEEEEESCCTTCCTTCEEEEEEEECEEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESCCCCCCGGGBCCCCSE
T ss_pred             ---CeEEEEEecCcccccCCCEEEEeCCcceeecCccceeeEEcCCCCCcCCCCCCCccceeecccCCCCcccccCCCcc
Confidence               9999999999999999999999999999999999999999  999999999987654332   23444455555999


Q ss_pred             ccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhh
Q psy13776        190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSK  269 (539)
Q Consensus       190 l~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~  269 (539)
                      |+||||+||+|+|||||||++|||++|+|||+|++++|+||+..                                    
T Consensus       159 l~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~~------------------------------------  202 (515)
T 2r9v_A          159 LQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGQ------------------------------------  202 (515)
T ss_dssp             ECCSCHHHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTTTT------------------------------------
T ss_pred             hhcCccccccccccccCCEEEEEcCCCCCccHHHHHHHHHhhcC------------------------------------
Confidence            99999999999999999999999999999999999999999743                                    


Q ss_pred             HHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEE
Q psy13776        270 QAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALI  349 (539)
Q Consensus       270 ~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLl  349 (539)
                                 +++|||++||||++||++|+++++++++|+||+||++|+|+||.+|+++||+|||+||||||+|+|||+
T Consensus       203 -----------dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl  271 (515)
T 2r9v_A          203 -----------GVYCIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALV  271 (515)
T ss_dssp             -----------TEEEEEEEESCCHHHHHHHHHHHHHTTGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEE
T ss_pred             -----------CcEEEEEEcCCCcHHHHHHHHHHHhCCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEE
Confidence                       478999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCcccccccccc
Q psy13776        350 IYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISIT  429 (539)
Q Consensus       350 i~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sit  429 (539)
                      +|||+||||+||||||+++||||+++||||++||+|+||+||||++++..++||||+||+|++|+||++||||||++|||
T Consensus       272 i~DslTr~A~A~REisl~lgepP~r~gYp~~vf~~~~rLlERAg~~~~~~~~GSITal~~v~~~~~D~s~pI~~~~~si~  351 (515)
T 2r9v_A          272 VYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRLLERAVRLNDKLGGGSLTALPIVETQANDISAYIPTNVISIT  351 (515)
T ss_dssp             EEETHHHHHHHHHHHHHTSCCCTTCCCCCCCHHHHHHHHHTTCEEBCTTTTSCEEEEEEEEEESTTCTTSHHHHHHHHTS
T ss_pred             EeccHHHHHHHHHHHhhhcCCCCCcccCChhHHHHhHHHHHHHhhccccCCCcceEEeeeeeccCCCccccchhhhcccc
Confidence            99999999999999999999999999999999999999999999998766789999999999999999999999999999


Q ss_pred             ceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccC
Q psy13776        430 DGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVG  509 (539)
Q Consensus       430 DGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~  509 (539)
                      ||||||||+||++|                                                   +|||||++.|+||+|
T Consensus       352 DGqI~Lsr~La~~g---------------------------------------------------~yPAIdvl~SvSRv~  380 (515)
T 2r9v_A          352 DGQIYLEPGLFYAG---------------------------------------------------QRPAINVGLSVSRVG  380 (515)
T ss_dssp             SEEEEBCHHHHHHT---------------------------------------------------CSSCBCTTTCEEGGG
T ss_pred             ceEEEEchHHHhCC---------------------------------------------------CCCeeccccccccCC
Confidence            99999999999999                                                   799999999999999


Q ss_pred             chhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        510 SAAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       510 ~~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +++|+++| +.+.++|+   +|+.|+|+.
T Consensus       381 ~~~~~~~~~~~a~~lr~---~la~y~el~  406 (515)
T 2r9v_A          381 GSAQIKAMKQVAGMLRI---DLAQYRELE  406 (515)
T ss_dssp             TTTSCHHHHHHHHHHHH---HHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHHH---HHhhhhHHH
Confidence            99999999 55667788   889998864

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=100.00  E-value=8.7e-104  Score=851.05  Aligned_cols=390  Identities=65%  Similarity=0.910  Sum_probs=338.4

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEecccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIET  115 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~  115 (539)
                      +++++|++++++++|++|+.+++.         +..|.+.+|+++    .|++++   .++|++.|+++..|+|+++++ 
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~---------~~~G~V~~v~g~iv~v~gl~~~---~~ge~~~i~~g~~g~v~~l~~-   68 (510)
T 2ck3_A            2 KTGTAEVSSILEERILGADTSVDL---------EETGRVLSIGDGIARVHGLRNV---QAEEMVEFSSGLKGMSLNLEP-   68 (510)
T ss_dssp             ----------------------CC---------SSEEEEEEEETTEEEEEECTTC---BTTCEEEETTSCEEEEEEECS-
T ss_pred             CCCHHHHHHHHHHHHHhcCCCcce---------eEEeEEEEEECcEEEEeeCCCC---CCCCEEEECCCCeEEEEeccC-
Confidence            467899999999999999998887         789999999998    677777   899999998777899999999 


Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLL  190 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl  190 (539)
                        |++++++|+++.||++|+.|++||++++||||++|||||+  +|+||||++++......+   .+|++..|.++++||
T Consensus        69 --~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R~~v~epl  146 (510)
T 2ck3_A           69 --DNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKAPGIIPRISVREPM  146 (510)
T ss_dssp             --SCEEEEESSCGGGCCTTCEEEECCCCCEEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESSCCCCCSTTBCCCCSBC
T ss_pred             --CeEEEEEECCcccccCCCEEEEeCCcceeecCccceeeEEccCCcCcCCCCCCCccceeecccCCCCcccccccCccc
Confidence              9999999999999999999999999999999999999999  999999999987554332   234444455559999


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      +||||+||+|+|||||||++|||++|+|||+|++++|+||+..+          .                         
T Consensus       147 ~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~----------~-------------------------  191 (510)
T 2ck3_A          147 QTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN----------D-------------------------  191 (510)
T ss_dssp             CCSCHHHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHH----------T-------------------------
T ss_pred             cccceeeccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhc----------c-------------------------
Confidence            99999999999999999999999999999999999999998631          0                         


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                          .++++++++|||++||||++||++|+++++++++|+||+||++|+|+||.+|+++||+|||+||||||+|+|||++
T Consensus       192 ----~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli  267 (510)
T 2ck3_A          192 ----GTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALII  267 (510)
T ss_dssp             ----SCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEE
T ss_pred             ----ccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEE
Confidence                0112346899999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccc
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITD  430 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitD  430 (539)
                      ||||||||+||||||+++||||+++||||++||+|+||+||||++++..++||||+||+|++|+||++||||||++||||
T Consensus       268 ~Dsltr~A~A~REisl~lgepP~r~gYpg~vf~~~~rLlERAg~~~~~~~~GSITal~~v~~~~dD~s~pI~~~~~si~D  347 (510)
T 2ck3_A          268 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITD  347 (510)
T ss_dssp             EETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCEEBCGGGTSCEEEEEEEEECSTTCTTSHHHHHHHHHSS
T ss_pred             EcCHHHHHHHHHHHHHhcCCCCccCCcCchHHHhhHHHHHhhhcccccCCCcceeEeeeeccCCCCccccchHhhhcccc
Confidence            99999999999999999999999999999999999999999999976557899999999999999999999999999999


Q ss_pred             eeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCc
Q psy13776        431 GQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGS  510 (539)
Q Consensus       431 GqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~  510 (539)
                      |||||||+||++|                                                   +|||||++.|+||+|+
T Consensus       348 gqI~Lsr~La~~g---------------------------------------------------i~PAIdvl~SvSRv~~  376 (510)
T 2ck3_A          348 GQIFLETELFYKG---------------------------------------------------IRPAINVGLSVSRVGS  376 (510)
T ss_dssp             EEEEBCHHHHHHT---------------------------------------------------CSSCBCTTTCEESSGG
T ss_pred             eEEEEehhHhhCC---------------------------------------------------CCCcccchhccccccc
Confidence            9999999999999                                                   7999999999999999


Q ss_pred             hhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        511 AAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       511 ~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      ++|.++| +.+.++|+   .|+.|+++.
T Consensus       377 ~~~~~~~~~~a~~lr~---~la~y~el~  401 (510)
T 2ck3_A          377 AAQTRAMKQVAGTMKL---ELAQYREVA  401 (510)
T ss_dssp             GGSCHHHHHHHHHHHH---HHHHHHHHG
T ss_pred             ccCCHHHHHHHHHHHH---HHHhhhHHH
Confidence            9999999 55667787   899998864

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=100.00  E-value=1.1e-103  Score=849.63  Aligned_cols=382  Identities=52%  Similarity=0.757  Sum_probs=336.2

Q ss_pred             CCChHHHHHHHHHHHhcCcchhhhhhhhcccccccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEecccc
Q psy13776         40 SSRAAEISSILEERILGSAPKAVAYRQMSLLLRRPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIET  115 (539)
Q Consensus        40 ~~~~~ei~~~l~~~i~~~~~~~~~~~ei~g~~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~  115 (539)
                      +++++|++++++++|++|+..++.         +..|.+.+|+++    .|++++   .++|++.|+++..|+|+++++ 
T Consensus         3 ~~~~~~~~~~~~~~i~~~~~~~~~---------~~~G~V~~v~g~iv~v~gl~~~---~~ge~~~i~~g~~g~v~~l~~-   69 (507)
T 1fx0_A            3 TIRADEISKIIRERIEGYNREVKV---------VNTGTVLQVGDGIARIHGLDEV---MAGELVEFEEGTIGIALNLES-   69 (507)
T ss_dssp             ----------------------CT---------TTEEEECCCCSSEEEEEECTTC---CTTCCEEETTCCEEEEEEECS-
T ss_pred             CCCHHHHHHHHHHHHHhccCCcce---------eEEEEEEEEeCCEEEEEECCCc---cCCCEEEECCCceEEEEeccC-
Confidence            567899999999999999998887         789999999998    677777   899999998777899999999 


Q ss_pred             CCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccc
Q psy13776        116 QAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLL  190 (539)
Q Consensus       116 ~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl  190 (539)
                        |++++++|+++.|+++|+.|++||++++||||++|||||+  +|+||||++++......+   .+|++..|.++++||
T Consensus        70 --~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R~~v~epl  147 (507)
T 1fx0_A           70 --NNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEITASESRLIESPAPGIMSRRSVYEPL  147 (507)
T ss_dssp             --SEEEEEECSCGGGCCTTCEEECCCCCCEEEESSSCSSCCCCSSSCCSSSSCCCCCSEEEESSCCCCCSSSBCCCCSBC
T ss_pred             --CeEEEEEecCccCCcCCCEEEEeCCcceeecCccceeEEEccCCcCCCCCCCCCCCceeeccCCCCCcccccccCCcc
Confidence              9999999999999999999999999999999999999999  999999999987654332   234444555559999


Q ss_pred             cccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhH
Q psy13776        191 SAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQ  270 (539)
Q Consensus       191 ~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~  270 (539)
                      +||||+||+|+|||||||++|||++|+|||+|++++|+||+..                                     
T Consensus       148 ~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~~-------------------------------------  190 (507)
T 1fx0_A          148 QTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQGQ-------------------------------------  190 (507)
T ss_dssp             CCSCTTTTTTSCCBTTCBCBEEESSSSSHHHHHHHHHHTCCTT-------------------------------------
T ss_pred             cccceecccccccccCCEEEEecCCCCCccHHHHHHHHHhhcC-------------------------------------
Confidence            9999999999999999999999999999999999999998743                                     


Q ss_pred             HHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEE
Q psy13776        271 AVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALII  350 (539)
Q Consensus       271 a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli  350 (539)
                                +++|||++||||++||++|+++++++++|+||++|++|+|+||.+|+++||+|||+||||||+|+|||++
T Consensus       191 ----------dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli  260 (507)
T 1fx0_A          191 ----------NVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLII  260 (507)
T ss_dssp             ----------TCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEE
T ss_pred             ----------CcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEE
Confidence                      4789999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccc
Q psy13776        351 YDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITD  430 (539)
Q Consensus       351 ~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitD  430 (539)
                      |||+||||+||||||+++||||+++||||++||+|+||+||||++++..++||||++|+|++|+||++||||||++||||
T Consensus       261 ~Dsltr~A~A~REisl~lge~P~~~gYp~~vf~~~srLlERAg~~~~~~~~GSITal~~v~~~~~D~s~pI~~~~~si~D  340 (507)
T 1fx0_A          261 YDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNVISITD  340 (507)
T ss_dssp             EECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTCTTSHHHHHHHTTSS
T ss_pred             EecHHHHHHHHHHHHHhcCCCCccccCCchHhhhhHHHHHhhhhccccCCCcceeeeeeeeccCCCcccchHHHHHhhcC
Confidence            99999999999999999999999999999999999999999999987657899999999999999999999999999999


Q ss_pred             eeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCc
Q psy13776        431 GQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGS  510 (539)
Q Consensus       431 GqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~  510 (539)
                      |||||||+||++|                                                   +|||||++.|+||+|+
T Consensus       341 gqIvLsr~La~~g---------------------------------------------------~yPAIdvl~S~SR~~~  369 (507)
T 1fx0_A          341 GQIFLSADLFNAG---------------------------------------------------IRPAINVGISVSRVGS  369 (507)
T ss_dssp             CBCCCCSSSSSSS---------------------------------------------------CSSCCCTTTCCCTTGG
T ss_pred             cEEEEehhHhhCC---------------------------------------------------CCCccchhhhhccccc
Confidence            9999999999999                                                   7999999999999999


Q ss_pred             hhhhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        511 AAQTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       511 ~~~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +++.++| +.+.++|+   +|+.|+++.
T Consensus       370 ~~~~~~~~~~a~~lr~---~la~y~el~  394 (507)
T 1fx0_A          370 AAQIKAMKKVAGKLKL---ELAQFAELE  394 (507)
T ss_dssp             GGSCHHHHHHHHHHHH---HHHHHHHHT
T ss_pred             cCCCHHHHHHHHHHHH---HHHhhhHHH
Confidence            9999999 55667888   889998864

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=100.00  E-value=7.3e-95  Score=773.56  Aligned_cols=368  Identities=19%  Similarity=0.267  Sum_probs=324.8

Q ss_pred             ccccCceeeecCCe----eEEccchhhhhcccccc--cCCe--EEEEEeccccCCCcEEEEcccCCcCCC-CCCEEEEec
Q psy13776         71 LRRPPGREAYPGDV----FYLHSRLLERSAKMSEA--HGGG--SLTALPVIETQAGDVSAYIPTNVISIT-DGQIFLETE  141 (539)
Q Consensus        71 ~~e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f--~~g~--~G~vl~l~~~~~d~v~l~~~g~~~gi~-~G~~V~~tg  141 (539)
                      +..+.|.+.+|.+.    .|+.++   .++|++.|  +++.  .|+|+++++   |++.+++|+++.|++ .|+.|++||
T Consensus         4 ~~~~~g~V~~v~g~~v~v~gl~~~---~~ge~v~i~~~~g~~~~geVv~~~~---~~~~~~~~~~~~gl~~~g~~V~~tg   77 (464)
T 3gqb_B            4 LKKEYTGITYISGPLLFVENAKDL---AYGAIVDIKDGTGRVRGGQVIEVSE---EYAVIQVFEETTGLDLATTSVSLVE   77 (464)
T ss_dssp             -CCCBCCEEEEETTEEEEESCTTS---CTTCEEEEECTTSCEEEEEEEEEES---SEEEEEESSCCTTCCSSSCEEEEEE
T ss_pred             ccceeeEEEEEECCEEEEecCCCC---CcCCEEEEEcCCCCEEEEEEEEEeC---CeEEEEEecCccccccCCCEEEECC
Confidence            44677888888776    445555   88999988  3443  899999999   999999999999999 999999999


Q ss_pred             ccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCC
Q psy13776        142 LFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQ  216 (539)
Q Consensus       142 ~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~g  216 (539)
                      ++++||||++|||||+  +|+|+||++++..+...+   .++++..|.++++||+||||+||+|+|||||||++|||++|
T Consensus        78 ~~~~vpvg~~lLGRV~d~lG~PiD~~~~i~~~~~~~i~~~~p~p~~R~~~~e~l~TGiraID~l~pigrGQr~~Ifgg~G  157 (464)
T 3gqb_B           78 DVARLGVSKEMLGRRFNGIGKPIDGLPPITPEKRLPITGLPLNPVARRKPEQFIQTGISTIDVMNTLVRGQKLPIFSGSG  157 (464)
T ss_dssp             SSCEEEECSTTTTEEEETTCCBCSSSCCCCCSEEEETTCCCBCGGGBCCCCCBCBCSCHHHHTTSCCBTTCBCCEEEETT
T ss_pred             CCcEEEeChHhcCCEeccCCcccCCCccccCcceeeccCCCCChhhccCccccccCcceeeecccccccCCEEEEecCCC
Confidence            9999999999999999  999999999886654322   23445555556999999999999999999999999999999


Q ss_pred             CCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhc-ccCceEEEEEeeccchhH
Q psy13776        217 TGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQD-EKKKLYCIYVAIGQKRST  295 (539)
Q Consensus       217 tGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~-~~~~~~~Vy~~IGer~~e  295 (539)
                      +|||+|+ .+|+||+..                    +.          .+      ...+ .+++++|||++||||++|
T Consensus       158 ~GKt~L~-~~Ia~~~~a--------------------~~----------~~------~~~~~d~~~~~~V~~~iGeR~~E  200 (464)
T 3gqb_B          158 LPANEIA-AQIARQATV--------------------RP----------DL------SGEGEKEEPFAVVFAAMGITQRE  200 (464)
T ss_dssp             SCHHHHH-HHHHHHCBC--------------------CH----------HH------HCCCSTTCCEEEEEEEEEECHHH
T ss_pred             CCchHHH-HHHHHHHHh--------------------cc----------cc------cccccCCCceEEEEEEecCchHH
Confidence            9999998 689988753                    00          00      0000 146789999999999999


Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhccCCCCCC
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGR  374 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~lgepP~r  374 (539)
                      |++|+++++++|+|+||++|++|+|+||.+|+++||+|||+|||||| +|+|||++|||+||||+||||||+++||||++
T Consensus       201 v~e~~~~l~~~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr~A~A~REisl~lge~P~~  280 (464)
T 3gqb_B          201 LSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSEALREIGAAREEIPGR  280 (464)
T ss_dssp             HHHHHHHHHHTSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHHHHHHHHHHHHTTTCCBCG
T ss_pred             HHHHHHHhhhcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHHHHHHHHHHHhcCCCCcc
Confidence            99999999999999999999999999999999999999999999998 69999999999999999999999999999999


Q ss_pred             CCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcc
Q psy13776        375 EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVG  454 (539)
Q Consensus       375 ~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~  454 (539)
                      +||||++|+.|++|+||||+++.  ++||||++|+|++|+||++|||||+++|||||||||||+||++|           
T Consensus       281 ~GYp~~~f~~l~~l~ERag~~~~--~~GSIT~l~~v~~~~dD~~~pi~~~~~~i~dg~ivLsr~La~~g-----------  347 (464)
T 3gqb_B          281 RGYPGYMYTDLATIYERAGVVEG--KKGSVTQIPILSMPDDDRTHPIPDLTGYITEGQIQLSRELHRKG-----------  347 (464)
T ss_dssp             GGSBTTHHHHHHHHHTSCBCBTT--CSCEEEEEEEEEETTSCTTSHHHHHHHHHSSEEEEBCHHHHHTT-----------
T ss_pred             ccCCchHHHHhHHHHHhhcccCC--CCCcEEEEEEEEccCCCccCchhHHHhhhcCeEEEEcHHHHhCC-----------
Confidence            99999999999999999999863  48999999999999999999999999999999999999999999           


Q ss_pred             cEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhh-----HHH-HHhhhhhhHHH
Q psy13776        455 VVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQT-----RAM-KQTGKIRSWNG  528 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~-----~~~-~~~~~~r~~~~  528 (539)
                                                              +|||||++.|+||+++....     ++| +.+.++++   
T Consensus       348 ----------------------------------------~yPAIdvl~S~SR~m~~~ig~~~~~~~h~~~a~~l~~---  384 (464)
T 3gqb_B          348 ----------------------------------------IYPPIDPLPSLSRLMNNGVGKGKTREDHKQVSDQLYS---  384 (464)
T ss_dssp             ----------------------------------------CSSCBCTTTCEETTGGGTSSTTTSCTTHHHHHHHHHH---
T ss_pred             ----------------------------------------CCCCcCcccchhhcchhhcCcccCcHHHHHHHHHHHH---
Confidence                                                    79999999999999777644     788 55555555   


Q ss_pred             HHHHhhhhh
Q psy13776        529 WLSLLKQLY  537 (539)
Q Consensus       529 ~~~~~~~~~  537 (539)
                      .|++|+++.
T Consensus       385 ~~~~~~el~  393 (464)
T 3gqb_B          385 AYANGVDIR  393 (464)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999874

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=100.00  E-value=9.6e-95  Score=772.81  Aligned_cols=360  Identities=21%  Similarity=0.286  Sum_probs=320.9

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccc--cCCe--EEEEEeccccCCCcEEEEcccCCcCCC-CCCEEEEeccc
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEA--HGGG--SLTALPVIETQAGDVSAYIPTNVISIT-DGQIFLETELF  143 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f--~~g~--~G~vl~l~~~~~d~v~l~~~g~~~gi~-~G~~V~~tg~~  143 (539)
                      .+.|.+.+|.+.    .|+.++   .++|++.|  +++.  .|+|+++++   |++.+++|+++.|++ .|++|++||++
T Consensus        10 ~~~g~v~~v~g~~v~v~gl~~~---~~ge~v~i~~~~g~~~~geVv~~~~---~~~~~~~~~~~~gl~~~g~~V~~tg~~   83 (465)
T 3vr4_D           10 KEYRTIKEVVGPLMAVEKVSGV---KYEELIEVRMQNGEIRRGQVLEVQE---DKAMVQIFEGTSGINLKNSSVRFLGHP   83 (465)
T ss_dssp             -CBCCEEEEETTEEEEESCCSC---CTTCEEEEECTTSCEEEEEEEEEES---SEEEEEETTCCTTCCTTTCEEEECSSC
T ss_pred             ceEEEEEEEECCEEEEecCCCC---CcCCEEEEEcCCCCEEEEEEEEEeC---CeEEEEEecCccccccCCCEEEECCCc
Confidence            567777777766    445555   78888888  3443  899999999   999999999999999 89999999999


Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||||++|||||+  +|+|+||++++..+...+   .++++..|..+++||+||||+||+|+|||||||++|||++|+|
T Consensus        84 ~~vpvg~~lLGRV~d~lG~PiD~~~~i~~~~~~~i~~~~p~p~~R~~~~e~l~TGiraID~l~pigrGQr~~Ifgg~G~G  163 (465)
T 3vr4_D           84 LQLGVSEDMIGRVFDGLGRPKDNGPEILPEKYLDINGEVINPIARDYPDEFIQTGISAIDHLNTLVRGQKLPVFSGSGLP  163 (465)
T ss_dssp             CEEEECGGGTTEEEETTSCBCSCCCCCCCSEEEESSCCCBCTTTEECCCCBCBCSCHHHHTTSCCBTTCBCCEEECTTSC
T ss_pred             ceeecchhhccceeccCCcccCCCCCCcccceeeccCcccCchhccCcccccccCceEEecccccccCCEEEEeCCCCcC
Confidence            99999999999999  999999999886654332   2344445555599999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||+|+ .+|+||+..                    +                      .++++++|||++||||++||++
T Consensus       164 Kt~L~-~~Ia~~~~~--------------------~----------------------~d~~~~~~V~~~iGeR~~Ev~e  200 (465)
T 3vr4_D          164 HKELA-AQIARQATV--------------------L----------------------DSSDDFAVVFAAIGITFEEAEF  200 (465)
T ss_dssp             HHHHH-HHHHHHCBC--------------------S----------------------SCSSCEEEEEEEEEECHHHHHH
T ss_pred             hHHHH-HHHHHHHHh--------------------c----------------------cCCCceEEEEEEecCCcHHHHH
Confidence            99998 689988753                    0                      0135789999999999999999


Q ss_pred             HHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCC
Q psy13776        299 IVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY  377 (539)
Q Consensus       299 ~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gy  377 (539)
                      |+++++++++|+||++|++|+|+||.+|+++||+|||+|||||| +|+|||++|||+||||+||||||+++||||+++||
T Consensus       201 ~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr~A~A~REisl~lge~P~~~GY  280 (465)
T 3vr4_D          201 FMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMTNYAEALREISAARREVPGRRGY  280 (465)
T ss_dssp             HHHHHHHHTGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGS
T ss_pred             HHHHHhhcCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHHHHHHHHHHhhcCCCCccccC
Confidence            99999999999999999999999999999999999999999999 69999999999999999999999999999999999


Q ss_pred             CCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEE
Q psy13776        378 PGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVV  457 (539)
Q Consensus       378 Pg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~  457 (539)
                      ||++|+.|++|+||||+++.  ++||||+||+|++|+||++|||||+++|||||||||||+||++|              
T Consensus       281 p~~vf~~l~~l~ERAg~~~~--~~GSIT~i~tv~~~~dD~~~pI~~~~~~i~dg~ivLsr~La~~g--------------  344 (465)
T 3vr4_D          281 PGYLYTNLATLFERAGRIRG--LKGSVTQIPILTMPEDDKTHPIPDLTGYITEGQIILTRELYKSG--------------  344 (465)
T ss_dssp             CTTHHHHHHHHHTSCEEETT--CSCEEEEEEEEECGGGCTTSHHHHHHHHHSSEEEEBCHHHHHTT--------------
T ss_pred             CchHHHHhHHHHHhhhccCC--CCCcEEEEEEEEecCCCcccchhHHHhhhcCeEEEEcHHHHhCC--------------
Confidence            99999999999999999863  48999999999999999999999999999999999999999999              


Q ss_pred             ecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhh-----HHH-HHhhhhhhHHHHHH
Q psy13776        458 FGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQT-----RAM-KQTGKIRSWNGWLS  531 (539)
Q Consensus       458 ~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~-----~~~-~~~~~~r~~~~~~~  531 (539)
                                                           +|||||++.|+||+++....     ++| +.+.++|+   .|+
T Consensus       345 -------------------------------------~yPAIdvl~S~SR~m~~~ig~~~~~~~h~~~a~~l~~---~~~  384 (465)
T 3vr4_D          345 -------------------------------------IQPPIDVLPSLSRLKDKGTGAGKTREDHAATMNQLFA---AYA  384 (465)
T ss_dssp             -------------------------------------CSSCBCTTTCEETTGGGSCSTTTSCTTHHHHHHHHHH---HHH
T ss_pred             -------------------------------------CCCCCCccccchhcchhhcCcccCCHHHHHHHHHHHH---HHH
Confidence                                                 79999999999999876544     788 55565555   899


Q ss_pred             Hhhhhh
Q psy13776        532 LLKQLY  537 (539)
Q Consensus       532 ~~~~~~  537 (539)
                      +|+++.
T Consensus       385 ~~~el~  390 (465)
T 3vr4_D          385 QGKQAK  390 (465)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998874

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=100.00  E-value=2.6e-93  Score=764.76  Aligned_cols=360  Identities=21%  Similarity=0.286  Sum_probs=300.3

Q ss_pred             ccCceeeecCCe----eEEccchhhhhccccccc--CC--eEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccc
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAH--GG--GSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFY  144 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~--~g--~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~  144 (539)
                      ...|.+.+|++.    .++.++   ..+|++.|.  ++  ..|+|+++++   |++.+++|+++.||++|++|++||+++
T Consensus        12 ~~~g~V~~V~g~vv~v~g~~~~---~~ge~v~i~~~~g~~~~geV~~~~~---~~v~~~~~~~t~gl~~G~~V~~tg~~l   85 (469)
T 2c61_A           12 KEYKTITQIAGPLIFVEKTEPV---GYNEIVNIKMGDGTVRRGQVLDSSA---DIVVVQVFEGTGGLDKDCGVIFTGETL   85 (469)
T ss_dssp             ----------CCEEEEECCSCC---CTTCEEEEECTTSCEEEEEEEEECS---SEEEEEEC-------------CEEEBC
T ss_pred             ccccEEEEEECcEEEEeeCCCC---CcCCEEEEEeCCCCEEEEEEEEEeC---CEEEEEEeCCCcCCCCCCEEEEcCCCc
Confidence            556777777666    344444   788888883  33  4589999999   999999999999999999999999999


Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCc
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGK  219 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGK  219 (539)
                      +||||++|||||+  +|+||||++++..+...+   .+|++..|..+++||+||||+||+|+|||||||++|||++|+||
T Consensus        86 ~vpvg~~lLGRV~d~lG~PiDg~~~i~~~~~~~i~~~~p~p~~R~~~~e~l~TGir~ID~l~pigrGQr~~Ifgg~G~GK  165 (469)
T 2c61_A           86 KLPASVDLLGRILSGSGEPRDGGPRIVPDQLLDINGAAMNPYARLPPKDFIQTGISTIDGTNTLVRGQKLPIFSASGLPH  165 (469)
T ss_dssp             EEEECGGGTTCEEETTSCBSSSCCCCCCSEEEESSSCSSCCBCSCCCCSBCBCSCHHHHTTSCCBTTCBCCEEECTTSCH
T ss_pred             EEEccccceeeEEcccCCCCCCCCCCCccccccccCccCCcccccccccccceeeEeeeeeeccccCCEEEEECCCCCCH
Confidence            9999999999999  999999999886554322   23444455556999999999999999999999999999999999


Q ss_pred             hHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHH
Q psy13776        220 TALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI  299 (539)
Q Consensus       220 TtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~  299 (539)
                      |+|+ .+|++++..                    |.                      .+++++|||++||||++||++|
T Consensus       166 t~Ll-~~Ia~~~~~--------------------n~----------------------~~~~~~~V~~~iGER~~Ev~e~  202 (469)
T 2c61_A          166 NEIA-LQIARQASV--------------------PG----------------------SESAFAVVFAAMGITNEEAQYF  202 (469)
T ss_dssp             HHHH-HHHHHHCBC--------------------TT----------------------CSSCEEEEEEEEEECHHHHHHH
T ss_pred             HHHH-HHHHHHHhh--------------------cc----------------------CCCCcEEEEEEccCCcHHHHHH
Confidence            9998 688877653                    00                      1235799999999999999999


Q ss_pred             HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHH-HCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCC
Q psy13776        300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFR-DNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYP  378 (539)
Q Consensus       300 ~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFr-d~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyP  378 (539)
                      +++++++++|+||++|++|+|+||.+|+++||+|||+||||| |+|+|||++|||+||||+||||||+++||||+++|||
T Consensus       203 ~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR~A~A~rEis~~lge~P~~~Gyp  282 (469)
T 2c61_A          203 MSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYP  282 (469)
T ss_dssp             HHHHHHHSGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHHHHHHHHTTSGGGTTCCTTSTTCC
T ss_pred             HHHHHhccCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHHHHHHHHHHHHHhcCCCCcccCcC
Confidence            999999999999999999999999999999999999999999 5999999999999999999999999999999999999


Q ss_pred             CchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEe
Q psy13776        379 GDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVF  458 (539)
Q Consensus       379 g~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~  458 (539)
                      |++|+.|++|+||||+++.  .+||||++|+|++|+||++|||||+++|||||||||||+||++|               
T Consensus       283 ~~l~~~l~~l~ERAg~~~~--~~GSIT~i~~v~~~~dD~~dPI~~~~~~i~dg~ivLsr~La~~g---------------  345 (469)
T 2c61_A          283 GYMYTDLATLYERAGIVKG--AKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKG---------------  345 (469)
T ss_dssp             THHHHHHHHHHTSCEEBTT--SSCEEEEEEEEECCSCTTTSCCCCCGGGGTTEEEEBCHHHHHTT---------------
T ss_pred             chhhhhhhhHHhhccccCC--CCCceeeeeeeecCCCCcCcchHHHHhhccCcEEEEcHHHHhCC---------------
Confidence            9999999999999999864  37999999999999999999999999999999999999999999               


Q ss_pred             cccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh-----hhHHHH-HhhhhhhHHHHHHH
Q psy13776        459 GNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA-----QTRAMK-QTGKIRSWNGWLSL  532 (539)
Q Consensus       459 ~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~-----~~~~~~-~~~~~r~~~~~~~~  532 (539)
                                                          +|||||++.|+||+++.+     +.++|+ .+.++++   .|+.
T Consensus       346 ------------------------------------~yPAIdvl~S~SR~~~~~ig~~~~~~~~~~~a~~l~~---~l~~  386 (469)
T 2c61_A          346 ------------------------------------IYPPINVLPSLSRLMNSGIGAGKTREDHKAVSDQMYA---GYAE  386 (469)
T ss_dssp             ------------------------------------CSSCBCTTTCEETTGGGSCSTTTSCTTHHHHHHHHHH---HHHH
T ss_pred             ------------------------------------CCCccCccccccccchhhcccccCCHHHHHHHHHHHH---HHHH
Confidence                                                799999999999999998     899994 4555555   8888


Q ss_pred             hhhhh
Q psy13776        533 LKQLY  537 (539)
Q Consensus       533 ~~~~~  537 (539)
                      |++|.
T Consensus       387 ~~eL~  391 (469)
T 2c61_A          387 GRDLR  391 (469)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88863

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=100.00  E-value=8e-90  Score=738.22  Aligned_cols=355  Identities=19%  Similarity=0.259  Sum_probs=306.5

Q ss_pred             hhcccccccCce--eeecCCeeEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         66 QMSLLLRRPPGR--EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        66 ei~g~~~e~~G~--v~~IGDg~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      +|.|.++++.|+  .+.+++.|.+........+||++          ++++   +.+.+++|+++.|+++|++|++||++
T Consensus        19 ~v~G~vv~v~~~~~~~~i~~~~~i~~~~~~~~~eV~~----------~~~~---~~v~~~~~~~t~Gl~~G~~V~~tg~~   85 (482)
T 2ck3_D           19 AVIGAVVDVQFDEGLPPILNALEVQGRETRLVLEVAQ----------HLGE---STVRTIAMDGTEGLVRGQKVLDSGAP   85 (482)
T ss_dssp             EEETTEEEEEESSCCCCTTCEEEESSCSSCCEEEEEE----------EEET---TEEEEEESSCCTTCBTTCEEEECSSS
T ss_pred             EEEccEEEEEecCccCcccceEEEeeCCCcEEEEEeE----------EecC---CeEEEEeccCccCCCCCCEEEEcCCc
Confidence            455666665554  44555555543110013344443          3444   77999999999999999999999999


Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||||++|||||+  +|+|+||++++..+..++   .+|++..|..+++||+||||+||+|+|||||||++|||++|+|
T Consensus        86 ~~vpvG~~lLGRV~d~lG~PiDg~~~~~~~~~~pi~~~~P~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~Ifgg~G~G  165 (482)
T 2ck3_D           86 IRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVG  165 (482)
T ss_dssp             CEEECSGGGBTCEECTTSCBCSSSCSCCCCCEEESCCCCCCGGGCCCCCCEECCSCHHHHHHSCEETTCEEEEEECTTSS
T ss_pred             ceeeccccccCCEEcccCcCcCCcCCCCccccccccccCCchHHhcccCcCCccceEEEecccccccCCeeeeecCCCCC
Confidence            99999999999999  999999999886554332   2344444444599999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||+|+.+++.|++..                                              +..+|||++||||++||++
T Consensus       166 KT~L~~~i~~~~~~~----------------------------------------------~~~v~V~~~iGER~rEv~e  199 (482)
T 2ck3_D          166 KTVLIMELINNVAKA----------------------------------------------HGGYSVFAGVGERTREGND  199 (482)
T ss_dssp             HHHHHHHHHHHTTTT----------------------------------------------CSSEEEEEEESCCHHHHHH
T ss_pred             hHHHHHHHHHhhHhh----------------------------------------------CCCEEEEEECCCcchHHHH
Confidence            999997766665532                                              1237999999999999999


Q ss_pred             HHHHHhcCCCCc------eEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhccCCC
Q psy13776        299 IVKRLTDSGAMG------YTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLLRRP  371 (539)
Q Consensus       299 ~~~~l~~~~~~~------~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~lgep  371 (539)
                      |++++++.++++      ||++|++|+|+||.+|+++||+|||+|||||| +|+|||+++||+||||+||||||+++|||
T Consensus       200 ~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A~A~rEis~~lge~  279 (482)
T 2ck3_D          200 LYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRI  279 (482)
T ss_dssp             HHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCC
T ss_pred             HHHHhhhccccccccCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHHhhhhcCCC
Confidence            999999999998      99999999999999999999999999999999 99999999999999999999999999999


Q ss_pred             CCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCC
Q psy13776        372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPD  451 (539)
Q Consensus       372 P~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~  451 (539)
                      |+++||||++|+.|++|+|||++    .++||||++|+|++|+||++|||||++++|+||||+|||+||++|        
T Consensus       280 P~~~GYpp~l~~~l~~l~ERag~----~~~GSIT~i~tv~v~~dD~tdPi~d~~~~i~dG~ivLsr~La~~g--------  347 (482)
T 2ck3_D          280 PSAVGYQPTLATDMGTMQERITT----TKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELG--------  347 (482)
T ss_dssp             CCGGGCCTTHHHHHHHHHTTSSC----CSSCCEEEEEEEECGGGCTTSHHHHHHGGGCSEEEEBCHHHHTTT--------
T ss_pred             CccccCchhHHHHhHHHHHhhcC----CCCCceeeeEEEEecCCCCCCccHHHHHHhcCeEEEEcHHHHhCC--------
Confidence            99999999999999999999986    357999999999999999999999999999999999999999999        


Q ss_pred             CcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCch-hhhHHH-HHhhhhhhHHHH
Q psy13776        452 NVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSA-AQTRAM-KQTGKIRSWNGW  529 (539)
Q Consensus       452 ~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~-~~~~~~-~~~~~~r~~~~~  529 (539)
                                                                 +|||||++.|+||+++. ..+++| +.+.++|+   +
T Consensus       348 -------------------------------------------iyPAIDvl~S~SR~~~~~i~~~~~~~~a~~lr~---~  381 (482)
T 2ck3_D          348 -------------------------------------------IYPAVDPLDSTSRIMDPNIVGSEHYDVARGVQK---I  381 (482)
T ss_dssp             -------------------------------------------CSSCBCTTSCEETTCSHHHHCHHHHHHHHHHHH---H
T ss_pred             -------------------------------------------CCCccCcccccccCCCcccCCHHHHHHHHHHHH---H
Confidence                                                       79999999999999955 788889 66778888   8


Q ss_pred             HHHhhhhh
Q psy13776        530 LSLLKQLY  537 (539)
Q Consensus       530 ~~~~~~~~  537 (539)
                      |++|+++.
T Consensus       382 la~y~el~  389 (482)
T 2ck3_D          382 LQDYKSLQ  389 (482)
T ss_dssp             HHHHHHHH
T ss_pred             HHhhhHHH
Confidence            88888863

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=100.00  E-value=7.8e-90  Score=740.74  Aligned_cols=356  Identities=19%  Similarity=0.238  Sum_probs=311.9

Q ss_pred             hhhcccccccCcee---eecCCeeEEccch---h--hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCE
Q psy13776         65 RQMSLLLRRPPGRE---AYPGDVFYLHSRL---L--ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQI  136 (539)
Q Consensus        65 ~ei~g~~~e~~G~v---~~IGDg~gL~~~~---~--~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~  136 (539)
                      .+|.|++++..|..   ..+++.|.+....   .  ...+||++          ++++   +.+.+++|+++.|+++|++
T Consensus        24 ~~V~G~vv~v~~~~~~~~~i~~~~~i~~~~~~g~~~~~~~eV~~----------~~~~---~~v~~~~~~~t~Gl~~G~~   90 (498)
T 1fx0_B           24 AQIIGPVLNVAFPPGKMPNIYNALIVKGRDTAGQPMNVTCEVQQ----------LLGN---NRVRAVAMSATDGLTRGME   90 (498)
T ss_dssp             EEEETTEEEEECCSSCCCCTTCEEEECCCSSSSCCCCCEEEEEE----------CCSS---SCEEEEESSCCTTCCTTCE
T ss_pred             EEEEccEEEEEeCCCCccccccEEEEEeCCCCCcccceEEEEEE----------EecC---CeEEEEEecCccCCCCCCE
Confidence            45677777777763   5677778774211   0  13455555          2333   7799999999999999999


Q ss_pred             EEEecccccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeee
Q psy13776        137 FLETELFYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELI  211 (539)
Q Consensus       137 V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI  211 (539)
                      |++||++++||||++|||||+  +|+|+||++++..+..++   .+|++..|..+++||+||||+||+|+|||||||++|
T Consensus        91 V~~tg~~~~vpvG~~lLGRV~d~lG~PiD~~~~i~~~~~~pi~~~~p~~~~r~~~~e~l~TGirvID~l~pigkGqr~gI  170 (498)
T 1fx0_B           91 VIDTGAPLSVPVGGPTLGRIFNVLGEPVDNLRPVDTRTTSPIHRSAPAFTQLDTKLSIFETGIKVVNLLAPYRRGGKIGL  170 (498)
T ss_dssp             EEECSSSCEEEESSTTTTCEECTTSCBCSSSSCCCCSEEEESCCCCCCGGGCCCCCCCCCCSCTTHHHHSCCCTTCCEEE
T ss_pred             EEecCCcceEecCccceeeEEcccccCCCCcCCcCCCceeccccCCCchhhhcccccccccceeEeeeecccccCCeEEe
Confidence            999999999999999999999  999999999886554332   234444554559999999999999999999999999


Q ss_pred             eccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeecc
Q psy13776        212 IGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQ  291 (539)
Q Consensus       212 ~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGe  291 (539)
                      ||++|+|||+|+++++.|++..                                              ++.+|||++|||
T Consensus       171 fgg~GvGKT~L~~~l~~~~a~~----------------------------------------------~~~v~V~~~iGE  204 (498)
T 1fx0_B          171 FGGAGVGKTVLIMELINNIAKA----------------------------------------------HGGVSVFGGVGE  204 (498)
T ss_dssp             EECSSSSHHHHHHHHHHHTTTT----------------------------------------------CSSCEEEEEESC
T ss_pred             ecCCCCCchHHHHHHHHHHHhh----------------------------------------------CCCEEEEEEccc
Confidence            9999999999997766665532                                              123799999999


Q ss_pred             chhHHHHHHHHHhcCCCCc-------eEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHH
Q psy13776        292 KRSTVAQIVKRLTDSGAMG-------YTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQ  363 (539)
Q Consensus       292 r~~ev~e~~~~l~~~~~~~-------~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Re  363 (539)
                      |++||++|++++++.++|+       ||++|++|+|+||.+|+++||+|+|+|||||| +|+|||+++||+||||+|+||
T Consensus       205 R~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~A~A~rE  284 (498)
T 1fx0_B          205 RTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQAGSE  284 (498)
T ss_dssp             CSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHHHHHHHH
T ss_pred             CcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHH
Confidence            9999999999999999998       99999999999999999999999999999999 999999999999999999999


Q ss_pred             hhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhcc
Q psy13776        364 MSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG  443 (539)
Q Consensus       364 isl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g  443 (539)
                      ||+++||||+++||||++|+.|++|+|||++    .++||||++|+|++|+||++|||||++++|+||||+|||+||++|
T Consensus       285 vs~~lge~Ps~~GYpp~l~~~l~~L~ERag~----~~~GSIT~i~tV~v~~dD~tdPi~d~~~~ilDG~ivLsR~La~~g  360 (498)
T 1fx0_B          285 VSALLGRMPSAVGYQPTLSTEMGSLQERITS----TKEGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKG  360 (498)
T ss_dssp             HHHHHTCCCCGGGCCTTHHHHHHHTSSSSSC----CTTCEECCEEEEECGGGCSSSHHHHHHHTTCSEEEEBCSTTTTTT
T ss_pred             HHhhcCCCCccccCCchhhhHHHHHHHhccC----CCCCceeeeEEEEccCCCcCCcchHHHHHhhCceEEehhhHHhCC
Confidence            9999999999999999999999999999996    357999999999999999999999999999999999999999999


Q ss_pred             CcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCch-hhhHHH-HHhh
Q psy13776        444 MALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSA-AQTRAM-KQTG  521 (539)
Q Consensus       444 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~-~~~~~~-~~~~  521 (539)
                                                                         +|||||++.|+||+++. ..+++| +.+.
T Consensus       361 ---------------------------------------------------iyPAID~l~S~SR~~~~~i~~~~h~~~a~  389 (498)
T 1fx0_B          361 ---------------------------------------------------IYPAVDPLDSTSTMLQPRIVGEEHYEIAQ  389 (498)
T ss_dssp             ---------------------------------------------------CSSCBCSSSCCBTTCSTTTTCHHHHHHHH
T ss_pred             ---------------------------------------------------CCceeccccccccCCCcccCCHHHHHHHH
Confidence                                                               79999999999999866 667889 6677


Q ss_pred             hhhhHHHHHHHhhhhh
Q psy13776        522 KIRSWNGWLSLLKQLY  537 (539)
Q Consensus       522 ~~r~~~~~~~~~~~~~  537 (539)
                      ++|+   +|++|+++.
T Consensus       390 ~lr~---~la~y~el~  402 (498)
T 1fx0_B          390 RVKE---TLQRYKELQ  402 (498)
T ss_dssp             HHHH---HHHHHHHHH
T ss_pred             HHHH---HHHhhHHHH
Confidence            8888   889998864

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=100.00  E-value=5.2e-88  Score=731.96  Aligned_cols=354  Identities=19%  Similarity=0.220  Sum_probs=251.7

Q ss_pred             CceeeecCCe----eEEccchhhhhccccccc-CCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCC
Q psy13776         75 PGREAYPGDV----FYLHSRLLERSAKMSEAH-GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRG  149 (539)
Q Consensus        75 ~G~v~~IGDg----~gL~~~~~~~~gEVV~f~-~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG  149 (539)
                      .|.+.+|++.    .|+.++   ..+|++.|. ++..|+|+++++   |++.+++|+++.||++|++|++||++++||+|
T Consensus         4 ~G~V~~V~G~iv~~~g~~~~---~~gElv~v~~~~l~geVi~l~~---d~~~i~v~e~t~Gi~~G~~V~~tg~~lsV~vG   77 (588)
T 3mfy_A            4 KGRIIRVTGPLVVADGMKGA---KMYEVVRVGELGLIGEIIRLEG---DKAVIQVYEETAGVRPGEPVVGTGASLSVELG   77 (588)
T ss_dssp             ---------------------------------------------------------------CCCCCSSSSSCCEEEES
T ss_pred             eeEEEEEECCEEEEEcCCCC---ccCCEEEEcCCceEEEEEEecC---CeEEEEEccCCCCCCCCCEEEEcCCCCEEEeC
Confidence            4555555544    344444   667776664 356777777777   99999999999999999999999999999999


Q ss_pred             CcccceeE--eeeccCCCCCcccc--------------hh---------------------------c------c-----
Q psy13776        150 SINCGQLI--IGDRQTGKTALAID--------------TI---------------------------I------N-----  175 (539)
Q Consensus       150 ~~LLGRVv--lG~PiDgk~~i~~~--------------~~---------------------------~------~-----  175 (539)
                      ++|||||+  +|+|||+++++...              ..                           +      +     
T Consensus        78 ~gLLGrV~DglgrPLd~~~~~~g~~~~~g~~~~~l~~~~~w~f~p~~~~gd~v~~G~i~g~v~e~~~~~~~imvpp~~~g  157 (588)
T 3mfy_A           78 PRLLTSIYDGIQRPLEVIREKTGDFIARGVTAPALPRDKKWHFIPKAKVGDKVVGGDIIGEVPETSIIVHKIMVPPGIEG  157 (588)
T ss_dssp             TTCTTCEEETTCCSSSSCCCCCSSSCCCCCCCCSSCSSCCEEEEECCCTTCEECTTCEEEEEECSSSCEEEEECCTTCCE
T ss_pred             HHHHhhccCCCCCcccCcccccccccccccccCccccccccccccccccCcccccCceEEEEecccceeeeeecCCCCCc
Confidence            99999999  99999998542100              00                           0      0     


Q ss_pred             ---------------------------------------ccccccccccccccccccceeeeeeeeccccceeeeeccCC
Q psy13776        176 ---------------------------------------QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQ  216 (539)
Q Consensus       176 ---------------------------------------~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~g  216 (539)
                                                             .+++...|..+++||+||||+||+|+|||||||++|||++|
T Consensus       158 ~v~~i~~~g~~~v~~~i~~i~~~~g~~~~i~~~~~wpv~~~~p~~~R~~~~epl~TGirvID~l~PigkGqr~~I~g~~g  237 (588)
T 3mfy_A          158 EIVEIAEEGDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRPYKEKLPPEVPLITGQRVIDTFFPQAKGGTAAIPGPAG  237 (588)
T ss_dssp             EEEEECCSEEECTTSEEEEEECTTCCEEEEESCEEEETTSCCCCSEEECSCSEECCSCHHHHHHSCEETTCEEEECSCCS
T ss_pred             eEEEeccCCcccccceEEEEecCCCccccccccccccccCCCchhhhccCCcccccCcchhhccCCcccCCeEEeecCCC
Confidence                                                   00011123345999999999999999999999999999999


Q ss_pred             CCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHH
Q psy13776        217 TGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTV  296 (539)
Q Consensus       217 tGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev  296 (539)
                      +|||+|+ .+|+||+..                                                .+|||++||||++||
T Consensus       238 ~GKT~L~-~~ia~~~~~------------------------------------------------~~~V~~~iGER~~Ev  268 (588)
T 3mfy_A          238 SGKTVTQ-HQLAKWSDA------------------------------------------------QVVIYIGCGERGNEM  268 (588)
T ss_dssp             HHHHHHH-HHHHHHSSC------------------------------------------------SEEEEEECCSSSSHH
T ss_pred             CCHHHHH-HHHHhccCC------------------------------------------------CEEEEEEecccHHHH
Confidence            9999998 567776532                                                289999999999999


Q ss_pred             HHHHHHHhc-------CCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccC
Q psy13776        297 AQIVKRLTD-------SGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLR  369 (539)
Q Consensus       297 ~e~~~~l~~-------~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lg  369 (539)
                      ++|++++.+       +++|+||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+||||||+++|
T Consensus       269 ~e~~~~~~el~d~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~A~A~rEis~~lg  348 (588)
T 3mfy_A          269 TDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALREISGRLE  348 (588)
T ss_dssp             HHHHHHTTTCEETTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTCCCCC--------
T ss_pred             HHHHHHHHHhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHHHHHHHHHHHhcc
Confidence            999999865       6789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCCchhhchhHHHHhhhcccCC---CCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcC
Q psy13776        370 RPPGREAYPGDVFYLHSRLLERSAKMSEA---HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMAL  446 (539)
Q Consensus       370 epP~r~gyPg~vf~~~srLlERag~~~~~---~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~  446 (539)
                      |||+++||||++|+.+++|+||||++++.   .++||||++|+|++|+||++||||+++++|+||||+|||+||++|   
T Consensus       349 e~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~sdpi~~~~~~i~dg~i~Lsr~La~~g---  425 (588)
T 3mfy_A          349 EMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVKVFWALDADLARRR---  425 (588)
T ss_dssp             --------CCHHHHHHHHHHTTCEEEECSSSSCCEEEEEEEEECCCTTSCSSCSHHHHHHHHCSEECCBCHHHHHTT---
T ss_pred             CCCccccCCchhhhhhhHHHhccccccccCCCCCCcceEEEEEEECCCCCCCCcchHHHHHhccCeeecCHHHHhCC---
Confidence            99999999999999999999999998632   358999999999999999999999999999999999999999999   


Q ss_pred             CCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh-------hhHHH-H
Q psy13776        447 NLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA-------QTRAM-K  518 (539)
Q Consensus       447 ~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~-------~~~~~-~  518 (539)
                                                                      +|||||++.|+||+++.+       ..+.| +
T Consensus       426 ------------------------------------------------~yPAId~l~S~SR~~~~i~~~~~~~~~~~h~~  457 (588)
T 3mfy_A          426 ------------------------------------------------HFPAINWLTSYSLYVDAVKDWWHKNIDPEWKA  457 (588)
T ss_dssp             ------------------------------------------------CSSCBCTTTCEETTHHHHHHHHHHHTCTTHHH
T ss_pred             ------------------------------------------------CCCCcCcccchhhhcccccchhhccCCHHHHH
Confidence                                                            799999999999999874       35667 6


Q ss_pred             HhhhhhhHHHHHHHhhhhh
Q psy13776        519 QTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       519 ~~~~~r~~~~~~~~~~~~~  537 (539)
                      .+.++|+   +|++|+++.
T Consensus       458 ~a~~~~~---~La~~~el~  473 (588)
T 3mfy_A          458 MRDKAMA---LLQKESELQ  473 (588)
T ss_dssp             HHHHHHH---HHHHHHHHH
T ss_pred             HHHHHHH---HHHHHHHHH
Confidence            7777777   899998874

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=100.00  E-value=2.4e-86  Score=721.26  Aligned_cols=354  Identities=21%  Similarity=0.240  Sum_probs=306.6

Q ss_pred             CceeeecCCe----eEEccchhhhhccccccc-CCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCC
Q psy13776         75 PGREAYPGDV----FYLHSRLLERSAKMSEAH-GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRG  149 (539)
Q Consensus        75 ~G~v~~IGDg----~gL~~~~~~~~gEVV~f~-~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG  149 (539)
                      .|.+.+|.+.    .++.++   ..+|++.+. ++..|+|+++++   |++.+++|+++.||++|++|++||++++||+|
T Consensus        10 ~G~V~~V~G~vv~v~g~~~~---~~gE~v~v~~~~l~gEVi~~~~---d~a~i~v~e~t~Gl~~G~~V~~tG~~lsV~vG   83 (600)
T 3vr4_A           10 IGKIIKVSGPLVMAENMSEA---SIQDMCLVGDLGVIGEIIEMRQ---DVASIQVYEETSGIGPGEPVRSTGEALSVELG   83 (600)
T ss_dssp             CEEEEEEETTEEEEESCTTS---CTTCEEEETTTTEEEEEEEEET---TEEEEEESSCCTTCCTTCEEEECSSSSEEEES
T ss_pred             ceEEEEEECcEEEEEcCCCC---ccCCEEEECCCcEEEEEEEEcC---CcEEEEEccCCCCCCCCCEEEECCCCCEEEeC
Confidence            4666666554    333334   677887774 357888888888   99999999999999999999999999999999


Q ss_pred             CcccceeE--eeeccCCC----C-----------Ccccchhc---------------------------------c----
Q psy13776        150 SINCGQLI--IGDRQTGK----T-----------ALAIDTII---------------------------------N----  175 (539)
Q Consensus       150 ~~LLGRVv--lG~PiDgk----~-----------~i~~~~~~---------------------------------~----  175 (539)
                      ++|||||+  +|+|||++    +           ++..++.+                                 +    
T Consensus        84 ~~lLGrV~DglGrPlD~~~~~~g~~~~~~g~~~~~l~~~~~w~f~p~~~~Gd~v~~g~i~g~v~e~~~i~h~im~pp~~~  163 (600)
T 3vr4_A           84 PGIISQMFDGIQRPLDTFMEVTQSNFLGRGVQLPALDHEKQWWFEATIEEGTEVSAGDIIGYVDETKIIQHKIMVPNGIK  163 (600)
T ss_dssp             TTCTTCEECTTCCBHHHHHHHHCSSBCCTTCCCCSSCSSCCEEEEECSCTTCEECTTCEEEEEECSSSCEEEEECCTTCC
T ss_pred             HHHHhhhhCcCCCcccccccccCccccccCCcCCCCCcccccccCcccccCCEecCCceEEEEecCCceeeeeecCCCCC
Confidence            99999999  99999987    4           12110000                                 0    


Q ss_pred             --------------------------------------ccccccccccccccccccceeeeeeeeccccceeeeeccCCC
Q psy13776        176 --------------------------------------QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQT  217 (539)
Q Consensus       176 --------------------------------------~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gt  217 (539)
                                                            .+++...|..+++||+||||+||+|+|||||||++|||++|+
T Consensus       164 g~v~~i~~g~~~v~~~v~~i~~~~g~~~i~~~~~wpv~~~~p~~~R~~~~epl~TGirvID~l~PigrGqr~~Ifgg~g~  243 (600)
T 3vr4_A          164 GTVQKIESGSFTIDDPICVIETEQGLKELTMMQKWPVRRGRPIKQKLNPDVPMITGQRVIDTFFPVTKGGAAAVPGPFGA  243 (600)
T ss_dssp             EEEEEECCEEECTTSCCEEEEETTEEEEECSCEEEETTSCCCCSEEECCCSBCCCCCHHHHHHSCCBTTCEEEEECCTTS
T ss_pred             ceEEEecCCcceeceeEEEEeccCCcccccccccccccCCCchhhccCCCceecccchhhhccCCccCCCEEeeecCCCc
Confidence                                                  001111233559999999999999999999999999999999


Q ss_pred             CchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHH
Q psy13776        218 GKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVA  297 (539)
Q Consensus       218 GKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~  297 (539)
                      |||+|+ .+|+||+..                                                .+|||++||||++||+
T Consensus       244 GKT~L~-~~ia~~~~~------------------------------------------------~v~V~~~iGER~~Ev~  274 (600)
T 3vr4_A          244 GKTVVQ-HQIAKWSDV------------------------------------------------DLVVYVGCGERGNEMT  274 (600)
T ss_dssp             CHHHHH-HHHHHHSSC------------------------------------------------SEEEEEEEEECHHHHH
T ss_pred             cHHHHH-HHHHhccCC------------------------------------------------CEEEEEEecccHHHHH
Confidence            999998 478887543                                                2799999999999999


Q ss_pred             HHHHHHhc-------CCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCC
Q psy13776        298 QIVKRLTD-------SGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRR  370 (539)
Q Consensus       298 e~~~~l~~-------~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lge  370 (539)
                      +|++++++       +++|+||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||
T Consensus       275 e~~~~~~el~d~~~G~~~m~rtvvV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR~A~A~rEiS~~lge  354 (600)
T 3vr4_A          275 DVVNEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTSRWAEALREMSGRLEE  354 (600)
T ss_dssp             HHHHHTTTCBCTTTCSBGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhccCC
Confidence            99999865       67899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCCchhhchhHHHHhhhcccCC---CCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCC
Q psy13776        371 PPGREAYPGDVFYLHSRLLERSAKMSEA---HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALN  447 (539)
Q Consensus       371 pP~r~gyPg~vf~~~srLlERag~~~~~---~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~  447 (539)
                      ||+++||||++|+.+++|+||||++++.   .++||||++|+|++|+||++||||+++++|+||||+|||+||++|    
T Consensus       355 ~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~tdPi~~~t~~i~dg~ivLsr~La~~g----  430 (600)
T 3vr4_A          355 MPGDEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKR----  430 (600)
T ss_dssp             CBCGGGCBTTHHHHHHHHHTTSEEEECSSTTCCEEEEEEEEEECCSSSCTTSHHHHHHHTTCCEECCBCHHHHTTT----
T ss_pred             CCccccCCchhhhHHHHHHHhhccccccCCCCCCcceEEEEEEECCCCCCCCcchhhhhhhccEEEEEhhhHHhCC----
Confidence            9999999999999999999999998632   358999999999999999999999999999999999999999999    


Q ss_pred             CCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh-------hhHHH-HH
Q psy13776        448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA-------QTRAM-KQ  519 (539)
Q Consensus       448 l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~-------~~~~~-~~  519 (539)
                                                                     +|||||++.|+||+++.+       ..+.| +.
T Consensus       431 -----------------------------------------------iyPAId~l~S~SR~~~~l~~~~~~~~~~~h~~~  463 (600)
T 3vr4_A          431 -----------------------------------------------HFPSINWIQSYSLYSTEVGRYMDQILQQDWSDM  463 (600)
T ss_dssp             -----------------------------------------------CSSCBCTTTCEETTHHHHHHHHHHHHTSCHHHH
T ss_pred             -----------------------------------------------CCCccCcccchhhhcccccccccccCCHHHHHH
Confidence                                                           799999999999999864       34566 66


Q ss_pred             hhhhhhHHHHHHHhhhhh
Q psy13776        520 TGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       520 ~~~~r~~~~~~~~~~~~~  537 (539)
                      +.++|+   +|++|+++.
T Consensus       464 a~~~~~---~la~~~el~  478 (600)
T 3vr4_A          464 VTEGMR---ILQEEEQLN  478 (600)
T ss_dssp             HHHHHH---HHHHHHHHH
T ss_pred             HHHHHH---HHHHHHHHH
Confidence            777777   899998874

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=100.00  E-value=2e-86  Score=719.41  Aligned_cols=338  Identities=20%  Similarity=0.253  Sum_probs=297.2

Q ss_pred             hhccccccc-CCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCCC----C
Q psy13776         94 RSAKMSEAH-GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTGK----T  166 (539)
Q Consensus        94 ~~gEVV~f~-~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk----~  166 (539)
                      ..+|++.+. ++..|+|+++++   |++.+++|+++.|+++|++|++||++++||+|++|||||+  +|+|+|++    +
T Consensus        23 ~~gE~v~v~~~~l~gEVi~~~~---d~~~i~v~e~t~Gl~~G~~V~~tg~~l~V~vG~~lLGrV~DglG~PlD~~~~~~g   99 (578)
T 3gqb_A           23 RMYDISKVGEEGLVGEIIRLDG---DTAFVQVYEDTSGLKVGEPVVSTGLPLAVELGPGMLNGIYDGIQRPLERIREKTG   99 (578)
T ss_dssp             CTTEEEEETTTTEEEEEEEEET---TEEEEEESSCCTTCCTTCEEEEEEEESEEEESTTCTTCEECTTSCBHHHHHHHHC
T ss_pred             ccCCEEEECCCcEEEEEEEEcC---CcEEEEEcCCCCCCCCCCEEEECCCCCEEEeCHHHhhhhhCcCCCcccccccccC
Confidence            566666663 356778888777   9999999999999999999999999999999999999999  99999987    3


Q ss_pred             C----------cccchhc---------------------------cc---c-----------------------------
Q psy13776        167 A----------LAIDTII---------------------------NQ---K-----------------------------  177 (539)
Q Consensus       167 ~----------i~~~~~~---------------------------~~---~-----------------------------  177 (539)
                      +          +..++.+                           +.   +                             
T Consensus       100 ~~~~~g~~~~~l~~~~~w~f~p~~~~g~~v~~G~i~g~v~e~~~ih~i~~pp~~~g~v~~i~~~G~~~v~~~i~~~~~g~  179 (578)
T 3gqb_A          100 IYITRGVVVHALDREKKWAWTPMVKPGDEVRGGMVLGTVPEFGFTHKILVPPDVRGRVKEVKPAGEYTVEEPVVVLEDGT  179 (578)
T ss_dssp             SBCCTTCCCCSSCSSSCEEEEECCCTTCEECTTCEEEEEEETTEEEEEECCTTCCEEEEEECCSEEECTTSCSEEETTCC
T ss_pred             ccccccccCCCcCcccccccccccccCccccccceeeeecccccceecccCCCcCceeEEeccCCcccccceeEEeecCc
Confidence            2          1111000                           00   0                             


Q ss_pred             -------------ccccccccccccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccc
Q psy13776        178 -------------RKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPY  244 (539)
Q Consensus       178 -------------~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~  244 (539)
                                   ++...|..+++||+||||+||+|+|||||||++|||++|+|||+|+. +|+||+..           
T Consensus       180 ~i~~~~~wPv~~~~p~~~R~~~~epl~TGirvID~l~PigrGqr~~Ifg~~g~GKT~l~~-~ia~~~~~-----------  247 (578)
T 3gqb_A          180 ELKMYHTWPVRRARPVQRKLDPNTPFLTGMRILDVLFPVAMGGTAAIPGPFGSGKSVTQQ-SLAKWSNA-----------  247 (578)
T ss_dssp             EECSCEEEETTSCCCCSEEECSCSEECCSCHHHHTTSCEETTCEEEECCCTTSCHHHHHH-HHHHHSSC-----------
T ss_pred             cccccccccccCCCChHHhccCCCcccccchhhhhcccccCCCEEeeeCCCCccHHHHHH-HHHhccCC-----------
Confidence                         01112334599999999999999999999999999999999999984 78877543           


Q ss_pred             cCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhc-------CCCCceEEEEEe
Q psy13776        245 SGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTD-------SGAMGYTIIVSA  317 (539)
Q Consensus       245 ~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~-------~~~~~~tvvV~a  317 (539)
                                                           .+|||++||||++||++|++++++       +++|+||++|++
T Consensus       248 -------------------------------------~v~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~~~rtvvv~~  290 (578)
T 3gqb_A          248 -------------------------------------DVVVYVGSGERGNEMTDVLVEFPELTDPKTGGPLMHRTVLIAN  290 (578)
T ss_dssp             -------------------------------------SEEEEEEEEECHHHHHHHHTTGGGCBCTTTSSBSGGGEEEEEE
T ss_pred             -------------------------------------CEEEEEEecccHHHHHHHHHHHHhhcccccccccccceEEEEE
Confidence                                                 279999999999999999999865       679999999999


Q ss_pred             cCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccC
Q psy13776        318 TASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSE  397 (539)
Q Consensus       318 tad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~  397 (539)
                      |+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.+++|+||||++++
T Consensus       291 tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR~A~A~rEis~~lge~P~~~GYp~~l~s~l~~l~ERAg~~~~  370 (578)
T 3gqb_A          291 TSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTSRWAEALREISSRLEEMPAEEGYPPYLAARLAAFYERAGKVIT  370 (578)
T ss_dssp             ETTSCHHHHHHHHHHHHHHHHHHHHTTCEEEECCSCHHHHHHHHHHHHHHTTCCCCSSSSCTTHHHHHHHHHTTCEEEEC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecChHHHHHHHHHHHHhccCCCccccCCchhhhHHHHHHHhhcCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999874


Q ss_pred             C-CCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccce
Q psy13776        398 A-HGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAI  476 (539)
Q Consensus       398 ~-~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~  476 (539)
                      . .++||||++|+|++|+||++||||+++++|+||||+|||+||++|                                 
T Consensus       371 ~~~~~GSIT~i~~v~~~gdD~tdPi~~~t~~i~dg~ivLsr~La~~g---------------------------------  417 (578)
T 3gqb_A          371 LGGEEGAVTIVGAVSPPGGDMSEPVTQSTLRIVGAFWRLDASLAFRR---------------------------------  417 (578)
T ss_dssp             TTSCEEEEEEEEECCCTTTCTTSHHHHHHHTTCSEECCBCHHHHHHT---------------------------------
T ss_pred             CCCCCcceEEEEEEEcCCCCCCCcchHHHhhhcCceEEECHHHHhCC---------------------------------
Confidence            3 258999999999999999999999999999999999999999999                                 


Q ss_pred             eecccccccchhhccccCCCccccccccccccCchh-------hhHHH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        477 VDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA-------QTRAM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       477 ~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~-------~~~~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                                        +|||||++.|+||+++.+       ..+.| +.+.++|+   +|++|+++.
T Consensus       418 ------------------~yPAId~l~S~SR~~~~v~~~~~~~~~~~h~~~a~~~~~---~l~~~~el~  465 (578)
T 3gqb_A          418 ------------------HFPAINWNGSYSLFTSALDPWYRENVAEDYPELRDAISE---LLQREAGLQ  465 (578)
T ss_dssp             ------------------CSSCBCTTTCEESSHHHHHHHHHHHTCTTHHHHHHHHHH---HHHHHHTTT
T ss_pred             ------------------CCCCcCcccchhhccccccccccccCCHHHHHHHHHHHH---HHHHHHHHH
Confidence                              799999999999999863       35667 67777777   899999875

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=100.00  E-value=1.7e-83  Score=689.79  Aligned_cols=355  Identities=21%  Similarity=0.256  Sum_probs=310.9

Q ss_pred             hhcccccccCce---eeecCCeeEEccch---h----hhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCC
Q psy13776         66 QMSLLLRRPPGR---EAYPGDVFYLHSRL---L----ERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ  135 (539)
Q Consensus        66 ei~g~~~e~~G~---v~~IGDg~gL~~~~---~----~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~  135 (539)
                      +|.|.+.++.|+   ...+|+.|.+....   .    ...+||++          ++++   +.+.+++|+++.|+++|+
T Consensus         8 ~v~G~vv~~~~~~~~~~~i~~~~~i~~~~~~~~~~~~~~~~ev~~----------~~~~---~~v~~~~~~~t~gl~~G~   74 (473)
T 1sky_E            8 QVMGPVVDVKFENGHLPAIYNALKIQHKARNENEVDIDLTLEVAL----------HLGD---DTVRTIAMASTDGLIRGM   74 (473)
T ss_dssp             EEETTEEEEEESTTCCCCTTEEEEEEECCSSTTCCCEEEEEEEEE----------EEET---TEEEEEESSCCTTCCTTC
T ss_pred             EEECcEEEEEecCCcccccCCEEEEEecCCCCCccccceEEEEeE----------EecC---CcEEEEEecCccCCCCCC
Confidence            456777788776   35899999885311   1    13455554          2333   779999999999999999


Q ss_pred             EEEEecccccccCCCcccceeE--eeeccCCCCCcccc-hhcc---ccccccccccccccccccceeeeeeeecccccee
Q psy13776        136 IFLETELFYKVDRGSINCGQLI--IGDRQTGKTALAID-TIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRE  209 (539)
Q Consensus       136 ~V~~tg~~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~-~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~  209 (539)
                      +|++||++++||||++|||||+  +|+|+||++++..+ ..++   .+|++..|..+++||+||||+||.|.|++||||+
T Consensus        75 ~V~~tg~~~~vpvg~~llGrv~d~lG~piD~~g~i~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~L~pi~kGq~~  154 (473)
T 1sky_E           75 EVIDTGAPISVPVGQVTLGRVFNVLGEPIDLEGDIPADARRDPIHRPAPKFEELATEVEILETGIKVVDLLAPYIKGGKI  154 (473)
T ss_dssp             EEEEEEEECEEECSGGGTTCEECTTSCBCSSSCCCCTTSCEEESCCCCCCGGGBCCSCCEECCSCHHHHHHSCEETTCEE
T ss_pred             EEEEcCCcceeeccccceeeEEeecCCccCcccccCCCceeecccccCcchhhhcccCccccccchHHHHHhhhccCCEE
Confidence            9999999999999999999999  99999999988665 3322   2344444445599999999999999999999999


Q ss_pred             eeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEee
Q psy13776        210 LIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAI  289 (539)
Q Consensus       210 lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~I  289 (539)
                      +|||++|+|||+|+.+.+.|++..                                              ...+|||++|
T Consensus       155 ~i~G~sGvGKTtL~~~l~~~~~~~----------------------------------------------~~~i~V~~~i  188 (473)
T 1sky_E          155 GLFGGAGVGKTVLIQELIHNIAQE----------------------------------------------HGGISVFAGV  188 (473)
T ss_dssp             EEECCSSSCHHHHHHHHHHHHHHH----------------------------------------------TCCCEEEEEE
T ss_pred             EEECCCCCCccHHHHHHHhhhhhc----------------------------------------------cCcEEEEeee
Confidence            999999999999995555554432                                              0236899999


Q ss_pred             ccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHH-CCCcEEEEecChhHHHHHhHHhhhcc
Q psy13776        290 GQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRD-NGKHALIIYDDLSKQAVAYRQMSLLL  368 (539)
Q Consensus       290 Ger~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd-~GkdVLli~DslTr~A~A~Reisl~l  368 (539)
                      |||.+|+++|++++.+.++|+||++|+++++|||.+|++++++++++|||||| +|+|||+++||+||||+||||+|+++
T Consensus       189 Gerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~~~ltiAEyFrd~~G~~VLl~~D~itR~a~A~reis~~~  268 (473)
T 1sky_E          189 GERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDGLLFIDNIFRFTQAGSEVSALL  268 (473)
T ss_dssp             SSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEECTHHHHHHHHHHHHHH
T ss_pred             ccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999999 89999999999999999999999999


Q ss_pred             CCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCC
Q psy13776        369 RRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNL  448 (539)
Q Consensus       369 gepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l  448 (539)
                      ||||+++||||++|+.|++|+|||++    .++||||++|+|++|+||++|||||++++|+||||+|||+||++|     
T Consensus       269 ge~P~~~GYp~~~~~~l~~l~ERa~~----~~~GSIT~i~tv~~~~dD~~dpi~~~~~~i~dg~ivLsr~La~~g-----  339 (473)
T 1sky_E          269 GRMPSAIGYQPTLATEMGQLQERITS----TAKGSITSIQAIYVPADDYTDPAPATTFSHLDATTNLERKLAEMG-----  339 (473)
T ss_dssp             TCCCCGGGCCTTHHHHHHHHHTTSSC----BSSCEEEEEEECCCSTTCSSSHHHHHHHTTCSEEEEBCTTHHHHT-----
T ss_pred             CCCCccccCCchhhhHHHHHHHHhcC----CCCCceEEEEEEEecCCCCCCcchHHHHhhcCceEEecHHHHhCC-----
Confidence            99999999999999999999999986    357999999999999999999999999999999999999999999     


Q ss_pred             CCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCch-hhhHHH-HHhhhhhhH
Q psy13776        449 EPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSA-AQTRAM-KQTGKIRSW  526 (539)
Q Consensus       449 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~-~~~~~~-~~~~~~r~~  526 (539)
                                                                    +|||||++.|+||+++. ..+++| +.+.++|+ 
T Consensus       340 ----------------------------------------------~yPAId~l~S~SR~~~~~~~~~~~~~~a~~lr~-  372 (473)
T 1sky_E          340 ----------------------------------------------IYPAVDPLVSTSRALAPEIVGEEHYQVARKVQQ-  372 (473)
T ss_dssp             ----------------------------------------------CSSCBCTTTCCBTTCCHHHHHHHHHHHHHHHHH-
T ss_pred             ----------------------------------------------CCCccccccccccccchhcCCHHHHHHHHHHHH-
Confidence                                                          79999999999999977 566888 67778888 


Q ss_pred             HHHHHHhhhhh
Q psy13776        527 NGWLSLLKQLY  537 (539)
Q Consensus       527 ~~~~~~~~~~~  537 (539)
                        +|+.|+++.
T Consensus       373 --~la~y~e~~  381 (473)
T 1sky_E          373 --TLERYKELQ  381 (473)
T ss_dssp             --HHHHHHHHH
T ss_pred             --HHHhHHHHH
Confidence              888888764

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=100.00  E-value=4.3e-73  Score=595.22  Aligned_cols=308  Identities=18%  Similarity=0.191  Sum_probs=262.6

Q ss_pred             CcEEEEcc-cCCcCCCCCCEEEEecccccccCCCcccceeE--eeeccCC-CCCcccchhcccccccccccccccccccc
Q psy13776        118 GDVSAYIP-TNVISITDGQIFLETELFYKVDRGSINCGQLI--IGDRQTG-KTALAIDTIINQKRKKRRRLLKYNLLSAG  193 (539)
Q Consensus       118 d~v~l~~~-g~~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv--lG~PiDg-k~~i~~~~~~~~~~~~r~ri~~~epl~TG  193 (539)
                      |.+.+.+- =...+++.||.|...-++.+-.--..-|+||.  .|.+.+. +....++.+.+..|..|.++ .++|++||
T Consensus        84 ~d~yvs~~~ir~~~lr~gd~v~g~~r~~~~~e~~~~l~~v~~vng~~p~~~~~r~~fe~l~Pi~P~~R~~l-e~e~~~tG  162 (427)
T 3l0o_A           84 DDIYISPSQIRKFNLNTGDIISGVIRKPKEGEKYFAMIKIEAINYRPVEAVNDRVNFDNLTPDYPRERFIL-ETDPKIYS  162 (427)
T ss_dssp             SCEEECHHHHHHTTCCTTCEEEEEEECCCSSSCSEEEEEEEEETTEEC----CCCCGGGSCEECCCSBCCC-CCSTTCHH
T ss_pred             CCeeeCHHHHHhcCCCCCCEEEEEEeCCCCCcccccceEEEecCCCChHHhccccccccCCCCCchhhccc-cccchhcc
Confidence            34544332 12468999999999887766443334567776  5554443 33344444433334444444 23999999


Q ss_pred             ceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHH
Q psy13776        194 IKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVA  273 (539)
Q Consensus       194 IraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~  273 (539)
                      +|+||+|+|||||||++|||++|+|||+|+ .+|+||...                                        
T Consensus       163 iraID~l~PigrGQR~lIfg~~g~GKT~Ll-~~Ia~~i~~----------------------------------------  201 (427)
T 3l0o_A          163 TRLIDLFAPIGKGQRGMIVAPPKAGKTTIL-KEIANGIAE----------------------------------------  201 (427)
T ss_dssp             HHHHHHHSCCBTTCEEEEEECTTCCHHHHH-HHHHHHHHH----------------------------------------
T ss_pred             chhhhhcccccCCceEEEecCCCCChhHHH-HHHHHHHhh----------------------------------------
Confidence            999999999999999999999999999999 789988753                                        


Q ss_pred             hhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecC
Q psy13776        274 YRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  353 (539)
Q Consensus       274 ~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~Ds  353 (539)
                          ++++++|||++||||++||++|++++++       +||++|+|+||.+|+++||+||++||||||+|+|||++|||
T Consensus       202 ----~~~dv~~V~~lIGER~~EV~d~~~~~~G-------~VV~atadep~~~r~~~a~~altiAEyfrd~G~dVLil~Ds  270 (427)
T 3l0o_A          202 ----NHPDTIRIILLIDERPEEVTDIRESTNA-------IVIAAPFDMPPDKQVKVAELTLEMAKRLVEFNYDVVILLDS  270 (427)
T ss_dssp             ----HCTTSEEEEEECSCCHHHHSSSSSSCCS-------EEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEEC
T ss_pred             ----cCCCeEEEEEEeccCcchHHHHHHHhCC-------eEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccc
Confidence                1235789999999999999999999972       89999999999999999999999999999999999999999


Q ss_pred             hhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCcccccccccccee
Q psy13776        354 LSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNVISITDGQ  432 (539)
Q Consensus       354 lTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~~sitDGq  432 (539)
                      +||||+||||+|+++||||+ .||||++|+.+++++|||++++   ++||||++|||+++ +||++|||||++++|+|||
T Consensus       271 lTR~A~A~rEvs~~~Ge~~s-~Gypp~~~~~~~~~~erA~~ie---~~GSIT~i~tvlvetgdd~~dpI~d~~~~i~dg~  346 (427)
T 3l0o_A          271 LTRLARVYNIVVPPSGKLLT-GGVDPAALYKPKRFFGAARNTR---EGGSLTIIATALVETGSKMDEVIFEEFKGTGNME  346 (427)
T ss_dssp             HHHHHHHHHHHSCCCSCCCS-SSCCSSCSHHHHHHHHTCEEES---SSCEEEEEEEEECSSSCSHHHHHHHHTTTCCSEE
T ss_pred             chHHHHHHHHHHHhcCCCCC-CCcCchhhcchHHHHHhhcccC---CCcceeEEEEEEecCCCCcCCcchHHhcccCCce
Confidence            99999999999999999999 6999999999999999999975   58999999999999 8999999999999999999


Q ss_pred             EEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchh
Q psy13776        433 IFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAA  512 (539)
Q Consensus       433 IvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~  512 (539)
                      |+|||+||++|                                                   +|||||++.|+||+++.+
T Consensus       347 IvLsR~La~~g---------------------------------------------------iyPAIDvl~S~SR~~~~l  375 (427)
T 3l0o_A          347 LVLSRQLANKR---------------------------------------------------IFPAINLLLSGTRREELL  375 (427)
T ss_dssp             EEBCHHHHTTT---------------------------------------------------CSSCBCSTTCEETTGGGT
T ss_pred             EEEeHHHHhCC---------------------------------------------------CCCccCcccccccccccc
Confidence            99999999999                                                   799999999999999999


Q ss_pred             hhHHH-HHhhhhhhHHHHHHHhhhh
Q psy13776        513 QTRAM-KQTGKIRSWNGWLSLLKQL  536 (539)
Q Consensus       513 ~~~~~-~~~~~~r~~~~~~~~~~~~  536 (539)
                      ++++| +.+..+|+   +|+.|++.
T Consensus       376 ~~~~h~~~a~~lr~---~la~y~e~  397 (427)
T 3l0o_A          376 LDEETLKKVWLLRR---MLSAMTEE  397 (427)
T ss_dssp             SCHHHHHHHHHHHH---HHTTSCHH
T ss_pred             CCHHHHHHHHHHHH---HHHhcchH
Confidence            99999 77888999   88888765

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=100.00  E-value=1.7e-69  Score=568.63  Aligned_cols=294  Identities=16%  Similarity=0.206  Sum_probs=248.0

Q ss_pred             CcCCCCCCEEEEecccccccCCCcccceeE-ee--eccCCC------CCcccchhcccccccccccc--cccccccccee
Q psy13776        128 VISITDGQIFLETELFYKVDRGSINCGQLI-IG--DRQTGK------TALAIDTIINQKRKKRRRLL--KYNLLSAGIKA  196 (539)
Q Consensus       128 ~~gi~~G~~V~~tg~~~~VpVG~~LLGRVv-lG--~PiDgk------~~i~~~~~~~~~~~~r~ri~--~~epl~TGIra  196 (539)
                      ..+++.||.|...-++.+  -++    |++ +-  +++++.      +.+.++...+..|..+..+.  ..+|++||+|+
T Consensus        91 ~~~lr~gd~v~g~~r~~~--~~E----R~faLl~v~~vn~~~pe~~~~ri~Fe~ltp~yP~er~~Le~~~~~~~~tGira  164 (422)
T 3ice_A           91 RFNLRTGDTISGKIRPPK--EGE----RYFALLKVNEVNFDKPENARNKILFENLTPLHANSRLRMERGNGSTEDLTARV  164 (422)
T ss_dssp             HHTCCTTCEEEEEEECCC--SSC----CSEEEEEEEEESSSCHHHHTTSCCTTTSCEESCCSBCCCCCTTCCTTHHHHHH
T ss_pred             hcCCCCCCEEEEEEeCCC--ccc----hHHHHhccCcccCCChhhhcCCceeccccccCCCCccccccCCCCccccccee
Confidence            468899999988766543  223    333 11  233332      22223222222233333331  01899999999


Q ss_pred             eeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhh
Q psy13776        197 VDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       197 ID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~  276 (539)
                      ||.++|||+|||++|||++|+|||+|+ .+|+++...                                           
T Consensus       165 ID~~~pi~rGQr~~IvG~sG~GKTtLl-~~Iar~i~~-------------------------------------------  200 (422)
T 3ice_A          165 LDLASPIGRGQRGLIVAPPKAGKTMLL-QNIAQSIAY-------------------------------------------  200 (422)
T ss_dssp             HHHHSCCBTTCEEEEECCSSSSHHHHH-HHHHHHHHH-------------------------------------------
T ss_pred             eeeeeeecCCcEEEEecCCCCChhHHH-HHHHHHHhh-------------------------------------------
Confidence            999999999999999999999999998 456655432                                           


Q ss_pred             cccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhH
Q psy13776        277 DEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSK  356 (539)
Q Consensus       277 ~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr  356 (539)
                       ++++++|||++||||++||++|++.++       ++||++|+|+||.+|+++|++|+++||||||+|+|||+++||+||
T Consensus       201 -~~~~v~~I~~lIGER~~Ev~~~~~~~~-------~~vV~atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR  272 (422)
T 3ice_A          201 -NHPDCVLMVLLIDERPEEVTEMQRLVK-------GEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  272 (422)
T ss_dssp             -HCTTSEEEEEEESSCHHHHHHHHTTCS-------SEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHH
T ss_pred             -cCCCeeEEEEEecCChHHHHHHHHHhC-------eEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchH
Confidence             123578999999999999999998883       699999999999999999999999999999999999999999999


Q ss_pred             HHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEee-CCCcCCccccccccccceeEEe
Q psy13776        357 QAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQ-AGDVSAYIPTNVISITDGQIFL  435 (539)
Q Consensus       357 ~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~-~~D~s~pIp~~~~sitDGqIvL  435 (539)
                      ||+||||+|+++||||+ +||||++|+.++||+|||+++.   ++||||++|||++| +||++|||||++++|+||||+|
T Consensus       273 ~A~A~revs~~~Ge~ps-~Gyp~~~~~~~~rl~erA~~~~---~~GSIT~i~tvlv~tgdd~~dpI~d~~~~i~dg~ivL  348 (422)
T 3ice_A          273 LARAYNTVVPASGKVLT-GGVDANALHRPKRFFGAARNVE---EGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHL  348 (422)
T ss_dssp             HHHHHHHHSCCSSCBCS-SSCBHHHHHHHHHHHTTCEEES---SSCEEEEEEEECCSSSCHHHHHHHHHHHHHCSEEEEB
T ss_pred             HHHHHHHHHHhcCCCCC-CCcCHHHHhhhHHHHHhccccC---CCcceeEEEEEEecCCCcccchHHHHhcccCCceEEE
Confidence            99999999999999998 9999999999999999999974   58999999999999 8899999999999999999999


Q ss_pred             ehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhH
Q psy13776        436 ETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTR  515 (539)
Q Consensus       436 sr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~  515 (539)
                      ||+||++|                                                   +|||||++.|+||+++.++++
T Consensus       349 sR~La~~g---------------------------------------------------iyPAIDvl~S~SR~~~~~~~~  377 (422)
T 3ice_A          349 SRKIAEKR---------------------------------------------------VFPAIDYNRSGTRKEELLTTQ  377 (422)
T ss_dssp             CHHHHHTT---------------------------------------------------CSSCBCTTTCEESSGGGSSCH
T ss_pred             cHHHHhcC---------------------------------------------------CCCccCccccccccchhhCCH
Confidence            99999999                                                   799999999999999999999


Q ss_pred             HH-HHhhhhhhHHHHHHHhhhhh
Q psy13776        516 AM-KQTGKIRSWNGWLSLLKQLY  537 (539)
Q Consensus       516 ~~-~~~~~~r~~~~~~~~~~~~~  537 (539)
                      +| +.+..+|+   +|+.|+++.
T Consensus       378 ~~~~~a~~lr~---~la~~~e~~  397 (422)
T 3ice_A          378 EELQKMWILRK---IIHPMGEID  397 (422)
T ss_dssp             HHHHHHHHHHH---HHTTSCHHH
T ss_pred             HHHHHHHHHHH---HHHhCchHH
Confidence            99 77888999   888887753

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=100.00  E-value=4e-55  Score=467.36  Aligned_cols=351  Identities=23%  Similarity=0.306  Sum_probs=299.5

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccccC-------CeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEec
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAHG-------GGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETE  141 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~-------g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg  141 (539)
                      ...|.+.+|.+.    .++ ++   ..+|++.|..       ...|+|+++++   |.+.+++|+++.|+++|+.|++|+
T Consensus         8 ~~~g~v~~v~g~~~~~~~~-~~---~~~e~~~~~~~~~~~~~~~~~ev~~~~~---~~~~~~~~~~~~gl~~g~~v~~~~   80 (438)
T 2dpy_A            8 RRYGRLTRATGLVLEATGL-QL---PLGATCIIERQDGPETKEVESEVVGFNG---QRLFLMPLEEVEGILPGARVYARN   80 (438)
T ss_dssp             CCCEEEEECSSSSEEEESC-CC---CSSCEEEEEECSTTSCEEEEEEEEECCT---TCEEEEESSCCTTCCTTEEEEEC-
T ss_pred             ceeeEEEEEECcEEEEEeC-CC---CCCCEEEEecCCCCccccEEEEEEEEcC---CEEEEEEccCCCCCCCCCEEEECC
Confidence            345666666555    222 23   5666666632       25688888777   999999999999999999999999


Q ss_pred             c-------cccccCCCcccceeE--eeeccCCCCCcccchhcc---cc--ccccccccccccccccceeeeeeeeccccc
Q psy13776        142 L-------FYKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QK--RKKRRRLLKYNLLSAGIKAVDSLVPIGRGQ  207 (539)
Q Consensus       142 ~-------~~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~--~~~r~ri~~~epl~TGIraID~l~pIGrGQ  207 (539)
                      +       ++++|+|+++||||+  +|+|+|+++++......+   .+  +..+..+  +.++.||+++||.++||++||
T Consensus        81 ~~~~~~~~~~~v~~g~~~lgrv~~~lg~p~d~~~~~~~~~~~~i~~~~~~~l~~~~v--~~~~~tg~~vld~vl~i~~Gq  158 (438)
T 2dpy_A           81 GHGDGLQSGKQLPLGPALLGRVLDGGGKPLDGLPAPDTLETGALITPPFNPLQRTPI--EHVLDTGVRAINALLTVGRGQ  158 (438)
T ss_dssp             ---------CEEECSGGGTTEEECTTCCBSSSSCCCCCSCEEESCCCCCCTTTSCCC--CSBCCCSCHHHHHHSCCBTTC
T ss_pred             CccccccccEEEEcchhhhhhhhhccCCccCCCCCccccccccccCCCCCceEEecc--ceecCCCceEEeeeEEecCCC
Confidence            9       999999999999999  999999988875443222   11  2223333  889999999999999999999


Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEE
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYV  287 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~  287 (539)
                      +++|+|++|+|||||+ .+|+++...                     +                           ..+|.
T Consensus       159 ~~~IvG~sGsGKSTLl-~~Iag~~~~---------------------~---------------------------~G~i~  189 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLL-GMMARYTRA---------------------D---------------------------VIVVG  189 (438)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHHHSCC---------------------S---------------------------EEEEE
T ss_pred             EEEEECCCCCCHHHHH-HHHhcccCC---------------------C---------------------------eEEEE
Confidence            9999999999999996 888877532                     1                           35778


Q ss_pred             eeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhc
Q psy13776        288 AIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLL  367 (539)
Q Consensus       288 ~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~  367 (539)
                      ++|+|+++++++.+++.+.+.+++++.+++++++++..++.+++.++++||||++++++|+.++|++++|+.++|+++++
T Consensus       190 ~~G~r~~ev~~~~~~~~~~~~l~r~i~~v~q~~~~~~~~~~v~~~~~~~ae~~~~~~~~v~~~ld~l~~lS~g~qrvslA  269 (438)
T 2dpy_A          190 LIGERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALA  269 (438)
T ss_dssp             EESCCHHHHHHHHHTTTHHHHHHTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHHHHH
T ss_pred             EeceecHHHHHHHHhhccccccCceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHhHHHHHHHHHHHHHH
Confidence            89999999999998776666788999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCC
Q psy13776        368 LRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALN  447 (539)
Q Consensus       368 lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~  447 (539)
                      +++||.+.|||++.|+.+.+++||+++..  ..+||||++++|++.++|+++|++|++++++||||++++++++.+    
T Consensus       270 l~~p~~t~glD~~~~~~l~~ll~r~~~~~--~~~GsiT~~~tVlv~tHdl~~~iad~v~~l~dG~Ivl~~~~~~~~----  343 (438)
T 2dpy_A          270 IGEPPATKGYPPSVFAKLPALVERAGNGI--HGGGSITAFYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAG----  343 (438)
T ss_dssp             TTCCCCSSSCCTTHHHHHHHHHTTCSCCS--TTSCEEEEEEEEECSSSCSCCHHHHHHHHHSSEEEEECHHHHHTT----
T ss_pred             hCCCcccccCCHHHHHHHHHHHHHHHhcc--CCCCcccceeEEEEeCCCccchhhceEEEEeCcEEEEeCCHHHcc----
Confidence            99999999999999999999999998721  125999999999999999999999999999999999999999999    


Q ss_pred             CCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhH
Q psy13776        448 LEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSW  526 (539)
Q Consensus       448 l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~  526 (539)
                                                                     +|||||+..|+||+++.+++++| +.+.++|+ 
T Consensus       344 -----------------------------------------------~~Paidv~~s~sR~~~~~~~~~~~~~~~~l~~-  375 (438)
T 2dpy_A          344 -----------------------------------------------HYPAIDIEASISRAMTALITEQHYARVRLFKQ-  375 (438)
T ss_dssp             -----------------------------------------------CSSCEEEEEEEETTHHHHSCHHHHHHHHHHHH-
T ss_pred             -----------------------------------------------CCCCcCCcccccccccccCCHHHHHHHHHHHH-
Confidence                                                           79999999999999999999999 77888888 


Q ss_pred             HHHHHHhhhhh
Q psy13776        527 NGWLSLLKQLY  537 (539)
Q Consensus       527 ~~~~~~~~~~~  537 (539)
                        .|+.|+++.
T Consensus       376 --~l~~~~~~~  384 (438)
T 2dpy_A          376 --LLSSFQRNR  384 (438)
T ss_dssp             --HHHHHHHGG
T ss_pred             --HHHhhHHHH
Confidence              777777753

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=100.00  E-value=1.4e-54  Score=450.59  Aligned_cols=284  Identities=27%  Similarity=0.374  Sum_probs=254.8

Q ss_pred             cccccCCCcccceeE--eeeccCCCC-Ccccchhccc---c--ccccccccccccccccceeeeeeeeccccceeeeecc
Q psy13776        143 FYKVDRGSINCGQLI--IGDRQTGKT-ALAIDTIINQ---K--RKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGD  214 (539)
Q Consensus       143 ~~~VpVG~~LLGRVv--lG~PiDgk~-~i~~~~~~~~---~--~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~  214 (539)
                      +++||||++|||||+  +|+|+||++ ++......+.   +  +..+..+  ++++.||+++||.++||++||+++|||+
T Consensus         2 ~~~~~vg~~~lGrv~~~~g~p~d~~~~~~~~~~~~~i~~~~~~~i~~~~l--~~~~~tg~~ald~ll~i~~Gq~~gIiG~   79 (347)
T 2obl_A            2 SHKIRVGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVI--DQPFILGVRAIDGLLTCGIGQRIGIFAG   79 (347)
T ss_dssp             CCEEEECGGGTTCEECTTSCBCSCCSSCCCCCEEEESCCCCSCSTTCCCC--CSEECCSCHHHHHHSCEETTCEEEEEEC
T ss_pred             CceeecCccccCCEECCCCCcCCCCCCCCCCCCcccccCCCCCCeeeccc--ceecCCCCEEEEeeeeecCCCEEEEECC
Confidence            578999999999999  999999998 7765443321   1  2233333  8899999999999999999999999999


Q ss_pred             CCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchh
Q psy13776        215 RQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRS  294 (539)
Q Consensus       215 ~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~  294 (539)
                      +|+|||||+ .+|+++...                                                ...+|.++||+.+
T Consensus        80 nGaGKTTLl-~~I~g~~~~------------------------------------------------~~g~i~~~G~~~~  110 (347)
T 2obl_A           80 SGVGKSTLL-GMICNGASA------------------------------------------------DIIVLALIGERGR  110 (347)
T ss_dssp             TTSSHHHHH-HHHHHHSCC------------------------------------------------SEEEEEEESCCHH
T ss_pred             CCCCHHHHH-HHHhcCCCC------------------------------------------------CEEEEEEecccHH
Confidence            999999996 888877532                                                1467888999999


Q ss_pred             HHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCC
Q psy13776        295 TVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGR  374 (539)
Q Consensus       295 ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r  374 (539)
                      |+++++.. .+.+.+++++++++++++|+..|+.+++.++++||||+++|+||++++|++++|+.++|++++++++||.+
T Consensus       111 ev~~~i~~-~~~~~~~~~v~~~~~~~~~~~~r~~~~~~~~~~ae~~~~~~~~vl~~ld~~~~lS~g~r~v~lal~~p~~t  189 (347)
T 2obl_A          111 EVNEFLAL-LPQSTLSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQGKNVLLMMDSVTRYARAARDVGLASGEPDVR  189 (347)
T ss_dssp             HHHHHHTT-SCHHHHTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHHHHHTTCCCCB
T ss_pred             HHHHHHHh-hhhhhhhceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhccccHHHHHhhHHHHHHHHHHHHHHcCCCCcc
Confidence            99999877 33356889999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcc
Q psy13776        375 EAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVG  454 (539)
Q Consensus       375 ~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~  454 (539)
                      .||||++|+.+.+|+||+++.    ++||||++++|+++++|+++||+|++++|+||||+|++++++.+           
T Consensus       190 ~Gldp~~~~~l~~ller~~~~----~~GsiT~~~tVl~~thdl~~~i~d~v~~i~dG~Ivl~~~l~~~~-----------  254 (347)
T 2obl_A          190 GGFPPSVFSSLPKLLERAGPA----PKGSITAIYTVLLESDNVNDPIGDEVRSILDGHIVLTRELAEEN-----------  254 (347)
T ss_dssp             TTBCHHHHHHHHHHHTTCEEC----SSSEEEEEEEEECCSSCCCCHHHHHHHHHCSEEEEBCHHHHTTT-----------
T ss_pred             cCCCHHHHHHHHHHHHHHhCC----CCCCeeeEEEEEEeCCCCCChhhhheEEeeCcEEEEeCCHHHcC-----------
Confidence            999999999999999999862    36999999999999999999999999999999999999999999           


Q ss_pred             cEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhhhHHH-HHhhhhhhHHHHHHHh
Q psy13776        455 VVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQTRAM-KQTGKIRSWNGWLSLL  533 (539)
Q Consensus       455 ~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~~~~~-~~~~~~r~~~~~~~~~  533 (539)
                                                              +|||||++.|+||+++.+++++| +.+.++|+   +|+.|
T Consensus       255 ----------------------------------------~~Paid~~~S~sr~~~~~~~~~~~~~~~~~~~---~l~~~  291 (347)
T 2obl_A          255 ----------------------------------------HFPAIDIGLSASRVMHNVVTSEHLRAAAECKK---LIATY  291 (347)
T ss_dssp             ----------------------------------------CSSCBCGGGCEETTHHHHSCHHHHHHHHHHHH---HHHHC
T ss_pred             ----------------------------------------CCCCcCccccccccccccCCHHHHHHHHHHHH---HHHcc
Confidence                                                    79999999999999999999999 67888888   78888


Q ss_pred             hhh
Q psy13776        534 KQL  536 (539)
Q Consensus       534 ~~~  536 (539)
                      +++
T Consensus       292 ~~~  294 (347)
T 2obl_A          292 KNP  294 (347)
T ss_dssp             CCT
T ss_pred             HHH
Confidence            775

>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase, hydrolase-transport PROT complex; HET: ANP ADP; 3.26A {Escherichia coli DH1} PDB: 2a7u_A

Probab=98.51  E-value=2e-08  Score=108.78  Aligned_cols=55  Identities=56%  Similarity=0.831  Sum_probs=53.2

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP  497 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~P  497 (539)
                      .|.++||+.+++++++||+.+.|++|+.|++||++++||||+++||||+|+|| .|
T Consensus        60 ~g~v~~l~~d~v~~~~~~~~~gi~~G~~V~~tg~~~~VpvG~~lLGRV~d~lG-~P  114 (513)
T 3oaa_A           60 YAIALNLERDSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLG-AP  114 (513)
T ss_dssp             EEEEEEECSSCEEEEESSCCSSCCTTCEEECCSCSSEEECSGGGTTCEEETTS-CB
T ss_pred             EEEEEEeeCCEEEEEEeCCccCCCCCCEEEEcCCCCeEeeCHHHhccchhhcC-cC
Confidence            58999999999999999999999999999999999999999999999999999 44

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=98.39  E-value=7.6e-08  Score=104.48  Aligned_cols=55  Identities=91%  Similarity=1.382  Sum_probs=53.0

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP  497 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~P  497 (539)
                      .|.++||+.+++++++||+...|++||.|++||++++||||+++||||+|+|| .|
T Consensus        60 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVvd~lG-~P  114 (510)
T 2ck3_A           60 KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALG-NA  114 (510)
T ss_dssp             EEEEEEECSSCEEEEESSCGGGCCTTCEEEECCCCCEEEESGGGTTCEECTTS-CB
T ss_pred             eEEEEeccCCeEEEEEECCcccccCCCEEEEeCCcceeecCccceeeEEccCC-cC
Confidence            48899999999999999999999999999999999999999999999999999 55

>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for structural genomics, JCSG, protein structure initiative ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima MSB8}

Probab=98.36  E-value=1.2e-07  Score=103.03  Aligned_cols=55  Identities=58%  Similarity=1.025  Sum_probs=52.9

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP  497 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~P  497 (539)
                      .|.++||+.+++++++||+...+++||.|++||++++||||+++||||+|+|| .|
T Consensus        73 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG-~P  127 (515)
T 2r9v_A           73 KGVAFNLEEDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLG-EP  127 (515)
T ss_dssp             EEEEEECCTTCEEEEEESCCTTCCTTCEEEEEEEECEEEESGGGTTCEECTTS-CB
T ss_pred             EEEEEEecCCeEEEEEecCcccccCCCEEEEeCCcceeecCccceeeEEcCCC-CC
Confidence            48899999999999999999999999999999999999999999999999999 44

>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*

Probab=98.35  E-value=8.6e-08  Score=104.01  Aligned_cols=55  Identities=55%  Similarity=0.932  Sum_probs=53.0

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP  497 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~P  497 (539)
                      .|.++||+.+++++++||+...+++|+.|++||++++||||+++||||+|+|| .|
T Consensus        61 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG-~P  115 (507)
T 1fx0_A           61 IGIALNLESNNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALA-KP  115 (507)
T ss_dssp             EEEEEEECSSEEEEEECSCGGGCCTTCEEECCCCCCEEEESSSCSSCCCCSSS-CC
T ss_pred             eEEEEeccCCeEEEEEecCccCCcCCCEEEEeCCcceeecCccceeEEEccCC-cC
Confidence            48899999999999999999999999999999999999999999999999999 55

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=98.33  E-value=1e-07  Score=103.32  Aligned_cols=55  Identities=65%  Similarity=1.012  Sum_probs=53.0

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP  497 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~P  497 (539)
                      .|.++||+.+++++++||+...+++||.|++||++++||||+++||||+|+|| .|
T Consensus        60 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG-~P  114 (502)
T 2qe7_A           60 MGMAQNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLG-QP  114 (502)
T ss_dssp             EEEEEEEETTEEEEEECSCCSSCCTTCEEEEEEEESEEECSGGGTTCEECTTC-CB
T ss_pred             EEEEEEecCCeEEEEEecCccCCcCCCEEEEeCCcceEEcccccceEEEccCC-CC
Confidence            48899999999999999999999999999999999999999999999999999 55

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=97.98  E-value=1.2e-06  Score=94.14  Aligned_cols=55  Identities=18%  Similarity=0.398  Sum_probs=52.7

Q ss_pred             ccCcCCCCCCCcccEEeccccccc-ccceeeeccceeecccccccchhhccccCCCc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIK-EGDIVKRTGAIVDVPVGEDLLGRVVDALGIRP  497 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~P  497 (539)
                      .|.+++++.+++++++||+...++ +|+.|+.||+.++||||+++||||+|+|| .|
T Consensus        44 ~geVv~~~~~~~~~~~~~~~~gl~~~g~~V~~tg~~~~vpvg~~lLGRV~d~lG-~P   99 (464)
T 3gqb_B           44 GGQVIEVSEEYAVIQVFEETTGLDLATTSVSLVEDVARLGVSKEMLGRRFNGIG-KP   99 (464)
T ss_dssp             EEEEEEEESSEEEEEESSCCTTCCSSSCEEEEEESSCEEEECSTTTTEEEETTC-CB
T ss_pred             EEEEEEEeCCeEEEEEecCccccccCCCEEEECCCCcEEEeChHhcCCEeccCC-cc
Confidence            588999999999999999999999 99999999999999999999999999999 54

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=97.95  E-value=1.6e-06  Score=93.20  Aligned_cols=56  Identities=34%  Similarity=0.586  Sum_probs=53.0

Q ss_pred             ccCcCCCCCCCcccEEeccccccc-ccceeeeccceeecccccccchhhccccCCCcc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIK-EGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPA  498 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pa  498 (539)
                      .|.+++++.+++++.+||+...+. +|+.|++||+.++||||+++||||+|+|| .|-
T Consensus        48 ~geVv~~~~~~~~~~~~~~~~gl~~~g~~V~~tg~~~~vpvg~~lLGRV~d~lG-~Pi  104 (465)
T 3vr4_D           48 RGQVLEVQEDKAMVQIFEGTSGINLKNSSVRFLGHPLQLGVSEDMIGRVFDGLG-RPK  104 (465)
T ss_dssp             EEEEEEEESSEEEEEETTCCTTCCTTTCEEEECSSCCEEEECGGGTTEEEETTS-CBC
T ss_pred             EEEEEEEeCCeEEEEEecCccccccCCCEEEECCCcceeecchhhccceeccCC-ccc
Confidence            588899999999999999999999 99999999999999999999999999999 553

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=97.90  E-value=1.9e-06  Score=92.86  Aligned_cols=56  Identities=32%  Similarity=0.460  Sum_probs=40.3

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPA  498 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pa  498 (539)
                      .|.+++++.+++.+++|++...+.+|+.|++||+.++||||+++||||+|+|| .|-
T Consensus        50 ~geV~~~~~~~v~~~~~~~t~gl~~G~~V~~tg~~l~vpvg~~lLGRV~d~lG-~Pi  105 (469)
T 2c61_A           50 RGQVLDSSADIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSG-EPR  105 (469)
T ss_dssp             EEEEEEECSSEEEEEEC-------------CEEEBCEEEECGGGTTCEEETTS-CBS
T ss_pred             EEEEEEEeCCEEEEEEeCCCcCCCCCCEEEEcCCCcEEEccccceeeEEcccC-CCC
Confidence            47889999999999999999999999999999999999999999999999999 554

>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop, phenylalanine mutant, hydrolase; 2.35A {Pyrococcus horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A 3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A 3sdz_A

Probab=97.88  E-value=2.3e-06  Score=93.89  Aligned_cols=59  Identities=29%  Similarity=0.427  Sum_probs=31.3

Q ss_pred             hccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      -.|.+++++.|++++.++++.+.+++||.|++||+.++||||+++||||+|+|| +|--+
T Consensus        36 l~geVi~l~~d~~~i~v~e~t~Gi~~G~~V~~tg~~lsV~vG~gLLGrV~Dglg-rPLd~   94 (588)
T 3mfy_A           36 LIGEIIRLEGDKAVIQVYEETAGVRPGEPVVGTGASLSVELGPRLLTSIYDGIQ-RPLEV   94 (588)
T ss_dssp             -------------------------CCCCCSSSSSCCEEEESTTCTTCEEETTC-CSSSS
T ss_pred             eEEEEEEecCCeEEEEEccCCCCCCCCCEEEEcCCCCEEEeCHHHHhhccCCCC-CcccC
Confidence            358899999999999999999999999999999999999999999999999999 66433

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=97.59  E-value=1.6e-05  Score=85.96  Aligned_cols=56  Identities=27%  Similarity=0.510  Sum_probs=50.4

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .+..|++.+.+..++|++...++.|+.|+.||+.++||||+++||||+|+|| .|--
T Consensus        52 eV~~~~~~~~v~~~~~~~t~Gl~~G~~V~~tg~~~~vpvG~~lLGRV~d~lG-~PiD  107 (482)
T 2ck3_D           52 EVAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIG-EPID  107 (482)
T ss_dssp             EEEEEEETTEEEEEESSCCTTCBTTCEEEECSSSCEEECSGGGBTCEECTTS-CBCS
T ss_pred             EEeEEecCCeEEEEeccCccCCCCCCEEEEcCCcceeeccccccCCEEcccC-cCcC
Confidence            3455678889999999999999999999999999999999999999999999 5543

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=97.59  E-value=1.6e-05  Score=85.72  Aligned_cols=56  Identities=38%  Similarity=0.531  Sum_probs=50.4

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAI  499 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai  499 (539)
                      .+..|++.+.+.+++|++...++.||.|+.||+.++||||+++||||+|+|| .|--
T Consensus        49 ev~~~~~~~~v~~~~~~~t~gl~~G~~V~~tg~~~~vpvg~~llGrv~d~lG-~piD  104 (473)
T 1sky_E           49 EVALHLGDDTVRTIAMASTDGLIRGMEVIDTGAPISVPVGQVTLGRVFNVLG-EPID  104 (473)
T ss_dssp             EEEEEEETTEEEEEESSCCTTCCTTCEEEEEEEECEEECSGGGTTCEECTTS-CBCS
T ss_pred             EEeEEecCCcEEEEEecCccCCCCCCEEEEcCCcceeeccccceeeEEeecC-CccC
Confidence            3445678889999999999999999999999999999999999999999999 5543

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=97.59  E-value=2.1e-05  Score=85.25  Aligned_cols=55  Identities=33%  Similarity=0.473  Sum_probs=50.8

Q ss_pred             cCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcc
Q psy13776        443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPA  498 (539)
Q Consensus       443 g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pa  498 (539)
                      .++.+++.+.+..++|++...+..|+.|+.||+.++||||+++||||+|+|| .|-
T Consensus        64 eV~~~~~~~~v~~~~~~~t~Gl~~G~~V~~tg~~~~vpvG~~lLGRV~d~lG-~Pi  118 (498)
T 1fx0_B           64 EVQQLLGNNRVRAVAMSATDGLTRGMEVIDTGAPLSVPVGGPTLGRIFNVLG-EPV  118 (498)
T ss_dssp             EEEECCSSSCEEEEESSCCTTCCTTCEEEECSSSCEEEESSTTTTCEECTTS-CBC
T ss_pred             EEEEEecCCeEEEEEecCccCCCCCCEEEecCCcceEecCccceeeEEcccc-cCC
Confidence            4556789999999999999999999999999999999999999999999999 553

>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A 3j0j_A* 1um2_C

Probab=97.51  E-value=1.9e-05  Score=86.56  Aligned_cols=58  Identities=28%  Similarity=0.412  Sum_probs=53.7

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.|++.+.++++.+.+..|+.|++||+.++||||+++||||+|+|| +|--+
T Consensus        36 ~gEVi~~~~d~~~i~v~e~t~Gl~~G~~V~~tg~~l~V~vG~~lLGrV~DglG-~PlD~   93 (578)
T 3gqb_A           36 VGEIIRLDGDTAFVQVYEDTSGLKVGEPVVSTGLPLAVELGPGMLNGIYDGIQ-RPLER   93 (578)
T ss_dssp             EEEEEEEETTEEEEEESSCCTTCCTTCEEEEEEEESEEEESTTCTTCEECTTS-CBHHH
T ss_pred             EEEEEEEcCCcEEEEEcCCCCCCCCCCEEEECCCCCEEEeCHHHhhhhhCcCC-Ccccc
Confidence            47788999999999999999999999999999999999999999999999999 66433

>3vr4_A V-type sodium ATPase catalytic subunit A; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_A* 3vr2_A* 3vr5_A 3vr6_A*

Probab=97.50  E-value=1.9e-05  Score=86.89  Aligned_cols=58  Identities=22%  Similarity=0.446  Sum_probs=53.6

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCcccc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAIN  500 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~  500 (539)
                      .|.+++++.|++.+.+|++.+.+..|+.|++||+.++||||+++||||+|+|| +|--+
T Consensus        43 ~gEVi~~~~d~a~i~v~e~t~Gl~~G~~V~~tG~~lsV~vG~~lLGrV~DglG-rPlD~  100 (600)
T 3vr4_A           43 IGEIIEMRQDVASIQVYEETSGIGPGEPVRSTGEALSVELGPGIISQMFDGIQ-RPLDT  100 (600)
T ss_dssp             EEEEEEEETTEEEEEESSCCTTCCTTCEEEECSSSSEEEESTTCTTCEECTTC-CBHHH
T ss_pred             EEEEEEEcCCcEEEEEccCCCCCCCCCEEEECCCCCEEEeCHHHHhhhhCcCC-Ccccc
Confidence            47788999999999999999999999999999999999999999999999999 66433

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.48  E-value=0.0006  Score=64.44  Aligned_cols=44  Identities=30%  Similarity=0.447  Sum_probs=38.0

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+-+.||+..+|-++.  +-+|+-..|.|++|+|||++++..+.|.
T Consensus         9 i~ri~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~   54 (251)
T 2zts_A            9 VRRVKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKG   54 (251)
T ss_dssp             CCEECCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCeecCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3457899999999996  8899999999999999999997666554

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.21  E-value=0.0001  Score=78.53  Aligned_cols=56  Identities=23%  Similarity=0.342  Sum_probs=49.4

Q ss_pred             ccCcCCCCCCCcccEEecccccccccceeeeccc-------eeecccccccchhhccccCCCcc
Q psy13776        442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGA-------IVDVPVGEDLLGRVVDALGIRPA  498 (539)
Q Consensus       442 ~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~-------~~~~~~~~~~l~~v~~~lg~~Pa  498 (539)
                      .|.+++++.+++.+++||+...+..|+.|+.||.       .++||+|+++||||+|+|| .|.
T Consensus        48 ~~ev~~~~~~~~~~~~~~~~~gl~~g~~v~~~~~~~~~~~~~~~v~~g~~~lgrv~~~lg-~p~  110 (438)
T 2dpy_A           48 ESEVVGFNGQRLFLMPLEEVEGILPGARVYARNGHGDGLQSGKQLPLGPALLGRVLDGGG-KPL  110 (438)
T ss_dssp             EEEEEECCTTCEEEEESSCCTTCCTTEEEEEC----------CEEECSGGGTTEEECTTC-CBS
T ss_pred             EEEEEEEcCCEEEEEEccCCCCCCCCCEEEECCCccccccccEEEEcchhhhhhhhhccC-Ccc
Confidence            4677889999999999999999999999999999       9999999999999999999 553

>3io5_A Recombination and repair protein; storage dimer, inactive conformation, RECA like core domain, binding, DNA damage, DNA recombination; 2.40A {Enterobacteria phage T4}

Probab=97.03  E-value=0.00099  Score=68.86  Aligned_cols=42  Identities=10%  Similarity=0.252  Sum_probs=35.8

Q ss_pred             ccccccceeeeeeee------ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        188 NLLSAGIKAVDSLVP------IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       188 epl~TGIraID~l~p------IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.+.||+..+|.++.      +-+| +..|+|++|+|||+|++..+.+.
T Consensus         5 ~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~   52 (333)
T 3io5_A            5 DVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSY   52 (333)
T ss_dssp             -CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999988      7789 99999999999999998666543

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.71  E-value=0.0014  Score=60.97  Aligned_cols=38  Identities=37%  Similarity=0.497  Sum_probs=33.7

Q ss_pred             ccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        190 LSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       190 l~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.||+..+|-++.  +-+|+-.+|.|++|+||||++. .++
T Consensus         2 i~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~-~l~   41 (220)
T 2cvh_A            2 LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLAL-QTG   41 (220)
T ss_dssp             BCCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHH-HHH
T ss_pred             cccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHH-HHH
Confidence            5799999999985  8999999999999999999984 444

>2zr9_A Protein RECA, recombinase A; recombination, RECA mutants, DNA-repair, ATP-binding, DNA DA recombination, DNA repair, DNA-binding; HET: DTP; 2.50A {Mycobacterium smegmatis str} PDB: 2zr0_A* 2zra_A* 2zrb_A 2zrm_A* 1ubc_A* 1ubf_A* 1ubg_A* 1ube_A* 2g88_A* 2odw_A* 2oe2_A 2oep_A* 2oes_A 2ofo_A 2zr7_A 2odn_A* 2zrn_A 2zro_A* 2zrp_A* 2zre_A* ...

Probab=96.66  E-value=0.0024  Score=66.00  Aligned_cols=43  Identities=26%  Similarity=0.458  Sum_probs=36.3

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+.||+..+|.++.   +-+|.-..|+|++|+|||||++..+.+
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~   84 (349)
T 2zr9_A           39 ISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVAN   84 (349)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5678999999999886   558999999999999999999654443

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.56  E-value=0.0022  Score=66.77  Aligned_cols=42  Identities=31%  Similarity=0.461  Sum_probs=35.9

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+.+.||+..+|-++.   +-+|.-..|+|++|+|||||++..+.
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~   83 (356)
T 3hr8_A           39 VEVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIA   83 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3567899999999987   67899999999999999999964443

>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding protein, ring protein, octamer, AAA ATPase; 3.20A {Homo sapiens} SCOP: c.37.1.11 PDB: 2zjb_A

Probab=96.41  E-value=0.014  Score=59.66  Aligned_cols=43  Identities=23%  Similarity=0.271  Sum_probs=36.9

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+
T Consensus       101 ~~~i~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~  145 (343)
T 1v5w_A          101 VFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVT  145 (343)
T ss_dssp             CCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHH
T ss_pred             cceeecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            567889999999998  4779999999999999999999654443

>2i1q_A DNA repair and recombination protein RADA; ATPase, recombinase, ATP complex, calcium stimulation, RECA, DMC1; HET: DNA ANP; 1.90A {Methanococcus voltae} SCOP: a.60.4.1 c.37.1.11 PDB: 1xu4_A* 2b21_A* 2fpk_A* 2fpl_A* 2fpm_A* 1t4g_A* 3fyh_A* 2f1j_A* 2f1i_A* 2f1h_A* 3ntu_A* 3ewa_A* 3ew9_A* 3etl_A* 4dc9_A* 2gdj_A*

Probab=96.38  E-value=0.016  Score=58.14  Aligned_cols=43  Identities=21%  Similarity=0.210  Sum_probs=36.6

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||+..+|-++  -+-+|+-..|+|++|+|||++++....+
T Consensus        77 ~~~i~TG~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~  121 (322)
T 2i1q_A           77 VWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVN  121 (322)
T ss_dssp             CCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeecCCChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            456889999999998  5778999999999999999999755543

>1u94_A RECA protein, recombinase A; homologous recombination, ATPase, DNA repair, DNA binding protein; 1.90A {Escherichia coli} SCOP: c.37.1.11 d.48.1.1 PDB: 1u98_A 1u99_A 1xms_A* 1xmv_A* 2rec_A 2reb_A 1n03_A* 1rea_A 1aa3_A

Probab=96.38  E-value=0.0037  Score=64.81  Aligned_cols=43  Identities=26%  Similarity=0.370  Sum_probs=36.7

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+.||+..+|-++.   +-+|+-+.|.|++|+|||+|++..+.+
T Consensus        41 ~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~   86 (356)
T 1u94_A           41 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAA   86 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            5678899999999986   669999999999999999999654443

>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A {Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A* 2zuc_A* 2zud_A*

Probab=96.33  E-value=0.0044  Score=62.72  Aligned_cols=43  Identities=28%  Similarity=0.374  Sum_probs=36.7

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||+..+|.++  -+-+|+-..|+|++|+|||++++....+
T Consensus        86 ~~~i~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~  130 (324)
T 2z43_A           86 VKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVN  130 (324)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcccCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHH
Confidence            567889999999998  5778999999999999999999654443

>1xp8_A RECA protein, recombinase A; recombination, radioresistance, DNA-repair, ATPase, DNA-BIND protein, DNA binding protein; HET: AGS; 2.50A {Deinococcus radiodurans} SCOP: c.37.1.11 d.48.1.1

Probab=96.29  E-value=0.0045  Score=64.50  Aligned_cols=43  Identities=30%  Similarity=0.435  Sum_probs=36.8

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+|++..+.+
T Consensus        52 ~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~   97 (366)
T 1xp8_A           52 VQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ   97 (366)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            5678999999999986   558999999999999999999765544

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.18  E-value=0.0012  Score=61.77  Aligned_cols=42  Identities=31%  Similarity=0.409  Sum_probs=36.0

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -+.+.||+..+|-++  .+-+|+..+|+|++|+|||||+ .+|+.
T Consensus         4 ~~~i~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTll-~~l~g   47 (231)
T 4a74_A            4 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLA-HTLAV   47 (231)
T ss_dssp             CCEECCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHHH-HHHHH
T ss_pred             CCccCCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHHH-HHHHH
Confidence            356889999999877  6889999999999999999998 45553

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.07  E-value=0.0038  Score=58.84  Aligned_cols=42  Identities=29%  Similarity=0.394  Sum_probs=34.8

Q ss_pred             ccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        188 NLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       188 epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.+.||++.+|-++  -+-+|+-.+|.|++|+|||++++..+.+
T Consensus         3 ~~i~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~   46 (247)
T 2dr3_A            3 RRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWN   46 (247)
T ss_dssp             CEECCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             ccccCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            35689999999986  4678999999999999999998654443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.04  E-value=0.0049  Score=57.22  Aligned_cols=40  Identities=35%  Similarity=0.449  Sum_probs=34.8

Q ss_pred             ccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHH
Q psy13776        188 NLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       188 epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.+.||++.+|-++.  +-+|+-.+|.|++|+|||||+ ..++
T Consensus         3 ~~i~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~-~~l~   44 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFS-LHFI   44 (235)
T ss_dssp             CEECCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHH-HHHH
T ss_pred             ccccCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHH-HHHH
Confidence            457899999999984  889999999999999999998 4444

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=95.63  E-value=0.03  Score=59.02  Aligned_cols=42  Identities=26%  Similarity=0.426  Sum_probs=36.4

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ...+.||+..+|-++  -|-+|+-..|+|++|+|||||+...++
T Consensus       157 ~~~i~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          157 LICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             SCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCccccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHH
Confidence            567899999999998  678999999999999999999954333

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.59  E-value=0.0035  Score=59.03  Aligned_cols=42  Identities=29%  Similarity=0.415  Sum_probs=36.2

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+.||+..+|-++  .+-+|+-.+|+|++|+|||||+. +++.
T Consensus         3 ~~~i~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~-~l~~   46 (243)
T 1n0w_A            3 IIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICH-TLAV   46 (243)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHH-HHHH
T ss_pred             ceEecCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHH-HHHH
Confidence            456889999999998  58899999999999999999984 4443

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.56  E-value=0.03  Score=59.76  Aligned_cols=24  Identities=33%  Similarity=0.401  Sum_probs=20.8

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      ++++||+|||||.|| ..|++....
T Consensus       218 vLL~GPPGtGKTllA-kAiA~e~~~  241 (437)
T 4b4t_L          218 VLLYGPPGTGKTLLA-KAVAATIGA  241 (437)
T ss_dssp             EEEESCTTSSHHHHH-HHHHHHHTC
T ss_pred             EEEECCCCCcHHHHH-HHHHHHhCC
Confidence            689999999999999 788887654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.33  E-value=0.065  Score=53.98  Aligned_cols=43  Identities=26%  Similarity=0.306  Sum_probs=35.8

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ...+.||++.+|-++. +-+|+-..|.|.+|+|||++++....+
T Consensus        48 ~~~i~TG~~~LD~~lgGl~~G~l~li~G~pG~GKTtl~l~ia~~   91 (315)
T 3bh0_A           48 ITGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKN   91 (315)
T ss_dssp             CCSBCCSCHHHHHHHSSBCTTCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCccCChHHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            3567899999998874 668999999999999999999654444

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=95.31  E-value=0.00086  Score=71.12  Aligned_cols=43  Identities=16%  Similarity=0.145  Sum_probs=39.9

Q ss_pred             ccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhh
Q psy13776        234 YAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       234 ~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~  276 (539)
                      +++..++.++|+++++||||+|+|+|+|+++||++++|.||+.
T Consensus       238 ep~~~r~~~a~~altiAEyfrd~G~dVLil~DslTR~A~A~rE  280 (427)
T 3l0o_A          238 MPPDKQVKVAELTLEMAKRLVEFNYDVVILLDSLTRLARVYNI  280 (427)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHH
Confidence            5677788899999999999999999999999999999999875

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=95.31  E-value=0.015  Score=71.31  Aligned_cols=114  Identities=15%  Similarity=0.241  Sum_probs=72.7

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALII  263 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i  263 (539)
                      .+.+.||+..+|-++.   +-+|+-.+|+|++|+|||+|++....+....                              
T Consensus        12 ~~~isTGi~~LD~lL~~GGi~~G~i~lI~G~pGsGKT~LAlqla~~~~~~------------------------------   61 (1706)
T 3cmw_A           12 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE------------------------------   61 (1706)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHT------------------------------
T ss_pred             CcccccCcHHHHHHhhcCCcCCCeEEEEECCCCCCHHHHHHHHHHHHhhC------------------------------
Confidence            5678999999999975   8889999999999999999996544433211                              


Q ss_pred             hhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC
Q psy13776        264 YDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN  343 (539)
Q Consensus       264 ~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~  343 (539)
                                       +-.|+|+..-+..++..  .+.+. . .+++-. +...   ...+      ....+.+.+.+.
T Consensus        62 -----------------G~~vlYI~te~~~~~l~--~~~lg-~-dl~~i~-i~~p---~t~e------~l~~ll~~L~~~  110 (1706)
T 3cmw_A           62 -----------------GKTCAFIDAEHALDPIY--ARKLG-V-DIDNLL-CSQP---DTGE------QALEICDALARS  110 (1706)
T ss_dssp             -----------------TCCEEEECTTSCCCHHH--HHHTT-C-CGGGCE-EECC---SSHH------HHHHHHHHHHHH
T ss_pred             -----------------CCceEEEEecCccHHHH--HHhhc-c-Ccccee-eecc---CcHH------HHHHHHHHHHhc
Confidence                             11477777766555543  22221 0 122222 2221   1111      233455666666


Q ss_pred             CCcEEEEecChhHHHHHh
Q psy13776        344 GKHALIIYDDLSKQAVAY  361 (539)
Q Consensus       344 GkdVLli~DslTr~A~A~  361 (539)
                      ++.-+||+||+|-+....
T Consensus       111 ~~~~LVVIDSLt~L~~~~  128 (1706)
T 3cmw_A          111 GAVDVIVVDSVAALTPKA  128 (1706)
T ss_dssp             TCCSEEEESCSTTCCCHH
T ss_pred             cCCCEEEEcchhhhcccc
Confidence            777799999999877643

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.05  E-value=0.039  Score=58.90  Aligned_cols=24  Identities=38%  Similarity=0.429  Sum_probs=20.9

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      ++++||+|||||.|| ..++++...
T Consensus       218 vLLyGPPGTGKTllA-kAiA~e~~~  241 (434)
T 4b4t_M          218 ALMYGPPGTGKTLLA-RACAAQTNA  241 (434)
T ss_dssp             EEEESCTTSSHHHHH-HHHHHHHTC
T ss_pred             eEEECcCCCCHHHHH-HHHHHHhCC
Confidence            689999999999999 788887653

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.79  E-value=0.094  Score=52.15  Aligned_cols=27  Identities=26%  Similarity=0.358  Sum_probs=21.8

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+++-++|.|++|+|||+|+ ..++++.
T Consensus        43 ~~~~~vli~G~~G~GKTtl~-~~l~~~~   69 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVV-KFVLSKL   69 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHH-HHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHH-HHHHHHH
Confidence            45778999999999999998 5566543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.79  E-value=0.081  Score=52.74  Aligned_cols=27  Identities=30%  Similarity=0.417  Sum_probs=21.9

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.++.++|.|++|+|||+++ ..++++.
T Consensus        42 ~~~~~vll~G~~G~GKT~l~-~~~~~~~   68 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVA-RLVLRRL   68 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHH-HHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHH-HHHHHHH
Confidence            56778999999999999998 5566543

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=94.73  E-value=0.14  Score=51.37  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .++|.|++|+|||+++ ..++++.
T Consensus        46 ~~li~G~~G~GKTtl~-~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTL-RKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHHH
T ss_pred             eEEEECCCCCCHHHHH-HHHHHHH
Confidence            6899999999999998 5566543

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.73  E-value=0.086  Score=55.82  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=20.9

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      ++++||+|||||.|| ..++++...
T Consensus       185 vLL~GPPGTGKTllA-kAiA~e~~~  208 (405)
T 4b4t_J          185 VILYGPPGTGKTLLA-RAVAHHTDC  208 (405)
T ss_dssp             EEEESCSSSSHHHHH-HHHHHHHTC
T ss_pred             eEEeCCCCCCHHHHH-HHHHHhhCC
Confidence            789999999999999 788887654

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=94.58  E-value=0.93  Score=43.12  Aligned_cols=29  Identities=14%  Similarity=0.384  Sum_probs=22.7

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|.-+|.-+.|.|++|+|||||+ ..++..
T Consensus        14 ~~~~~g~~ivl~GPSGaGKsTL~-~~L~~~   42 (197)
T 3ney_A           14 LYFQGRKTLVLIGASGVGRSHIK-NALLSQ   42 (197)
T ss_dssp             --CCSCCEEEEECCTTSSHHHHH-HHHHHH
T ss_pred             CCCCCCCEEEEECcCCCCHHHHH-HHHHhh
Confidence            34557889999999999999998 666644

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=94.57  E-value=0.12  Score=52.34  Aligned_cols=25  Identities=28%  Similarity=0.373  Sum_probs=19.3

Q ss_pred             ccceeee--eccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELI--IGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI--~g~~gtGKTtLa~~~I~nq  230 (539)
                      .++.+.|  .|++|+|||+|+ ..++++
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~-~~~~~~   75 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLA-KFTVKR   75 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHH-HHHHHH
T ss_pred             CCCEEEEeCcCcCCCCHHHHH-HHHHHH
Confidence            4566777  899999999998 555544

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=94.52  E-value=0.033  Score=69.28  Aligned_cols=114  Identities=15%  Similarity=0.247  Sum_probs=75.6

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALII  263 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i  263 (539)
                      .+.+.||+..+|-++.   +-+|.-..|.|++|+|||++++..+.+....                              
T Consensus        12 ~~~i~TGi~~LD~lLg~GGip~G~vtlI~G~pGsGKT~lalq~a~~~~~~------------------------------   61 (2050)
T 3cmu_A           12 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE------------------------------   61 (2050)
T ss_dssp             CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTT------------------------------
T ss_pred             CCeeccCcHHHHHHHhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHhhcc------------------------------
Confidence            5678999999999874   6789999999999999999997655544321                              


Q ss_pred             hhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC
Q psy13776        264 YDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN  343 (539)
Q Consensus       264 ~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~  343 (539)
                                       +-.|+|+..-+..++..  .+.+ +- .+++-. +..+ +  ..+      ....+-+++.+.
T Consensus        62 -----------------Ge~vlYI~tEes~~~~r--a~~l-G~-dl~~i~-v~~p-~--~~e------~ll~il~~L~~~  110 (2050)
T 3cmu_A           62 -----------------GKTCAFIDAEHALDPIY--ARKL-GV-DIDNLL-CSQP-D--TGE------QALEICDALARS  110 (2050)
T ss_dssp             -----------------TCCEEEECTTSCCCHHH--HHHT-TC-CTTTCE-EECC-S--SHH------HHHHHHHHHHHH
T ss_pred             -----------------CCceEEEEccCcchhhH--Hhhh-cc-Ccccce-ecCC-C--cHH------HHHHHHHHHHhc
Confidence                             12478887776666654  2333 11 123322 3321 1  112      234566677766


Q ss_pred             CCcEEEEecChhHHHHHh
Q psy13776        344 GKHALIIYDDLSKQAVAY  361 (539)
Q Consensus       344 GkdVLli~DslTr~A~A~  361 (539)
                      +.--+||+||+|-+....
T Consensus       111 ~~~~lVVIDSISaL~~~~  128 (2050)
T 3cmu_A          111 GAVDVIVVDSVAALTPKA  128 (2050)
T ss_dssp             TCCSEEEESCGGGCCCHH
T ss_pred             cCCcEEEEcChHHhhhhc
Confidence            777899999999876653

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.44  E-value=0.084  Score=56.17  Aligned_cols=24  Identities=33%  Similarity=0.462  Sum_probs=20.9

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      +++.||+|||||.|| ..|+++...
T Consensus       209 iLL~GPPGtGKT~la-kAiA~~~~~  232 (428)
T 4b4t_K          209 VLLYGPPGTGKTMLV-KAVANSTKA  232 (428)
T ss_dssp             EEEESCTTTTHHHHH-HHHHHHHTC
T ss_pred             EEEECCCCCCHHHHH-HHHHHHhCC
Confidence            789999999999999 788887653

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.41  E-value=0.11  Score=55.55  Aligned_cols=24  Identities=42%  Similarity=0.540  Sum_probs=21.0

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      ++++|++|||||.|| ..|+++...
T Consensus       219 vLLyGPPGTGKTlLA-kAiA~e~~~  242 (437)
T 4b4t_I          219 VILYGAPGTGKTLLA-KAVANQTSA  242 (437)
T ss_dssp             EEEESSTTTTHHHHH-HHHHHHHTC
T ss_pred             CceECCCCchHHHHH-HHHHHHhCC
Confidence            789999999999999 788887654

>3cmw_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 2.80A {Escherichia coli} PDB: 3cmt_A* 3cmx_A* 3cmv_A*

Probab=94.34  E-value=0.037  Score=67.91  Aligned_cols=44  Identities=25%  Similarity=0.360  Sum_probs=38.6

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+.||+..+|.++.   +-+|.-..|.|++|+|||+|++..+.+.
T Consensus       361 ~~~isTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~  407 (1706)
T 3cmw_A          361 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA  407 (1706)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CceeccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5678999999999987   7799999999999999999997665544

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.07  E-value=0.099  Score=55.26  Aligned_cols=44  Identities=20%  Similarity=0.344  Sum_probs=36.2

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ...+.||+..+|-++. +-+|+-+.|.|++|+|||++++....+.
T Consensus       183 ~~~i~tG~~~LD~~~gGl~~G~liiI~G~pG~GKTtl~l~ia~~~  227 (454)
T 2r6a_A          183 ITGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNV  227 (454)
T ss_dssp             CCSBCCSCHHHHHHHSSBCTTCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCCCCCcHHHHhhcCCCCCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3567899999998873 6689999999999999999996544443

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=93.83  E-value=0.028  Score=51.10  Aligned_cols=28  Identities=21%  Similarity=0.347  Sum_probs=22.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.++.+|+.++|+|++|+|||||+ ..++
T Consensus         3 m~~i~~g~~i~l~G~~GsGKSTl~-~~La   30 (191)
T 1zp6_A            3 MTDDLGGNILLLSGHPGSGKSTIA-EALA   30 (191)
T ss_dssp             ---CCTTEEEEEEECTTSCHHHHH-HHHH
T ss_pred             ccCCCCCeEEEEECCCCCCHHHHH-HHHH
Confidence            567889999999999999999998 5554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.80  E-value=0.15  Score=54.89  Aligned_cols=25  Identities=32%  Similarity=0.383  Sum_probs=21.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      -+++.|++|||||.|| ..|++....
T Consensus       245 GILLyGPPGTGKTlLA-kAiA~e~~~  269 (467)
T 4b4t_H          245 GILLYGPPGTGKTLCA-RAVANRTDA  269 (467)
T ss_dssp             EEEECSCTTSSHHHHH-HHHHHHHTC
T ss_pred             ceEeeCCCCCcHHHHH-HHHHhccCC
Confidence            3789999999999999 788887653

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=93.70  E-value=0.03  Score=54.85  Aligned_cols=39  Identities=21%  Similarity=0.383  Sum_probs=32.7

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHH
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAID  225 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~  225 (539)
                      .+.+.||+..+|-+++ +-+|+-.+|+|++|+|||||+..
T Consensus        10 ~~~i~tg~~~ld~~lggl~~G~i~~i~G~~GsGKTtl~~~   49 (279)
T 1nlf_A           10 LEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQ   49 (279)
T ss_dssp             HHHHHSCCCCCCEEETTEETTSEEEEEESTTSSHHHHHHH
T ss_pred             HHHhcCCCCChheeECCccCCCEEEEEcCCCCCHHHHHHH
Confidence            5667899988887764 44889999999999999999953

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=93.64  E-value=0.32  Score=48.33  Aligned_cols=42  Identities=12%  Similarity=0.030  Sum_probs=33.2

Q ss_pred             ccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        190 LSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       190 l~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.|||..+|-++.  +-+|--.+|.|++++|||++++..+.+..
T Consensus         3 i~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~   46 (260)
T 3bs4_A            3 LSWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKL   46 (260)
T ss_dssp             BCCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHH
T ss_pred             CccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHH
Confidence            5799999999874  33778889999999999999865555443

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=93.49  E-value=0.004  Score=66.10  Aligned_cols=43  Identities=16%  Similarity=0.183  Sum_probs=39.1

Q ss_pred             ccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhh
Q psy13776        234 YAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       234 ~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~  276 (539)
                      +++..++.++++++++||+|+|+|+|+|+++||+.++|.||+.
T Consensus       237 ep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A~A~re  279 (422)
T 3ice_A          237 EPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNT  279 (422)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHHHHHHH
Confidence            5666777888999999999999999999999999999999875

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=93.47  E-value=0.064  Score=66.78  Aligned_cols=44  Identities=25%  Similarity=0.360  Sum_probs=38.2

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+.||+..+|-++.   +-+|.-+.|.|++|+|||+|++..+.+.
T Consensus       361 ~~~I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~  407 (2050)
T 3cmu_A          361 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAA  407 (2050)
T ss_dssp             CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceeeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            5669999999999987   7899999999999999999997655543

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=93.47  E-value=0.04  Score=49.97  Aligned_cols=29  Identities=24%  Similarity=0.286  Sum_probs=24.1

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.+|+.++|+|++|+|||||+ ..|++..
T Consensus        34 ~~~~g~~~~l~G~~G~GKTtL~-~~i~~~~   62 (180)
T 3ec2_A           34 NPEEGKGLTFVGSPGVGKTHLA-VATLKAI   62 (180)
T ss_dssp             CGGGCCEEEECCSSSSSHHHHH-HHHHHHH
T ss_pred             cccCCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence            4567899999999999999998 6676654

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=93.44  E-value=0.13  Score=54.79  Aligned_cols=44  Identities=7%  Similarity=0.013  Sum_probs=35.6

Q ss_pred             cccccc-cceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSA-GIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~T-GIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ...+.| |+..+|-++- +-+|+=..|.|++|+|||++++....+.
T Consensus       221 ~~~i~t~G~~~LD~~lgGl~~G~l~li~G~pG~GKT~lal~~a~~~  266 (503)
T 1q57_A          221 SVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMVMSTFVRQQALQW  266 (503)
T ss_dssp             TTCSCCSSCTTHHHHHCCCCTTCEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cCCccccchhhhhHhhcccCCCeEEEEeecCCCCchHHHHHHHHHH
Confidence            346788 9999998874 5578899999999999999997655543

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.42  E-value=0.2  Score=52.72  Aligned_cols=43  Identities=30%  Similarity=0.475  Sum_probs=34.7

Q ss_pred             ccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        188 NLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       188 epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ..+.||+..+|-++. +-+|+-..|.|++|+|||++++....|.
T Consensus       181 ~~i~tG~~~LD~~lgGl~~G~l~ii~G~pg~GKT~lal~ia~~~  224 (444)
T 2q6t_A          181 AGVRTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNA  224 (444)
T ss_dssp             --CCCSCHHHHHHHCCCCTTCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CcccCCCHhhhhhcCCcCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            467899999998873 6689999999999999999997655543

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=92.97  E-value=0.051  Score=50.41  Aligned_cols=39  Identities=18%  Similarity=0.267  Sum_probs=21.2

Q ss_pred             ccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        190 LSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       190 l~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ++++--..+.+.+..+|+.++|+|++|+||||++ ..+..
T Consensus        13 ~~~~~~~~~~~m~~~~g~~i~l~G~~GsGKSTl~-~~L~~   51 (200)
T 4eun_A           13 LGTENLYFQSMMTGEPTRHVVVMGVSGSGKTTIA-HGVAD   51 (200)
T ss_dssp             ---------------CCCEEEEECCTTSCHHHHH-HHHHH
T ss_pred             cCchhhHHHhhhcCCCCcEEEEECCCCCCHHHHH-HHHHH
Confidence            4444455677777788999999999999999998 55554

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=92.73  E-value=0.034  Score=54.71  Aligned_cols=42  Identities=12%  Similarity=0.082  Sum_probs=33.4

Q ss_pred             cccccc-cceeeeeee-eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSA-GIKAVDSLV-PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~T-GIraID~l~-pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ..-+.| |+.++|.+. .+-+|+-.+|.|++|+|||||+. .|+.
T Consensus        14 ~~~i~t~g~~~Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~-~ia~   57 (296)
T 1cr0_A           14 SVGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVR-QQAL   57 (296)
T ss_dssp             CCCBCCCSCTTHHHHHCSBCTTCEEEEEESTTSSHHHHHH-HHHH
T ss_pred             cCCcccCCHHHHHHHhcCCCCCeEEEEEeCCCCCHHHHHH-HHHH
Confidence            344668 888888654 67899999999999999999984 4443

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=92.69  E-value=0.057  Score=50.45  Aligned_cols=28  Identities=18%  Similarity=0.401  Sum_probs=22.3

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ++-+|+..+|+|++|+|||||+ .+|+..
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl-~~l~gl   43 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVV-RCLRER   43 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHH-HHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            7889999999999999999998 666654

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=92.50  E-value=0.036  Score=56.94  Aligned_cols=41  Identities=32%  Similarity=0.416  Sum_probs=35.2

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+.+.||+..+|.++  .+-+|+-.+|+|++|+|||||+. +++
T Consensus       110 ~~~isTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~-~l~  152 (349)
T 1pzn_A          110 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAH-TLA  152 (349)
T ss_dssp             CCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHH-HHH
T ss_pred             CCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHH-HHH
Confidence            467889999999985  57799999999999999999984 444

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.45  E-value=0.06  Score=51.16  Aligned_cols=29  Identities=21%  Similarity=0.233  Sum_probs=21.7

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      =+.+-+|+.++|+|++|+|||||+ .+|+.
T Consensus        17 sl~i~~G~~~~lvGpsGsGKSTLl-~~L~g   45 (218)
T 1z6g_A           17 RGSMNNIYPLVICGPSGVGKGTLI-KKLLN   45 (218)
T ss_dssp             -----CCCCEEEECSTTSSHHHHH-HHHHH
T ss_pred             ceecCCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            456779999999999999999998 66664

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=92.41  E-value=0.062  Score=48.93  Aligned_cols=23  Identities=26%  Similarity=0.417  Sum_probs=21.5

Q ss_pred             eeccccceeeeeccCCCCchHhH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      +.+.+|+..+|+|++|+|||||+
T Consensus         4 l~i~~gei~~l~G~nGsGKSTl~   26 (171)
T 4gp7_A            4 LTIPELSLVVLIGSSGSGKSTFA   26 (171)
T ss_dssp             EEEESSEEEEEECCTTSCHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHHH
Confidence            57789999999999999999998

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.34  E-value=0.068  Score=48.97  Aligned_cols=27  Identities=19%  Similarity=0.362  Sum_probs=22.2

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-+|+.++|+|++|+|||||+ .++...
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~-~~L~~~   30 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLV-RALVKA   30 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             CCCCcEEEEECcCCCCHHHHH-HHHHhh
Confidence            457999999999999999998 666643

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=92.30  E-value=0.39  Score=49.45  Aligned_cols=43  Identities=19%  Similarity=0.373  Sum_probs=36.0

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -..+.||+..+|-++. +-+|+-+.|.|.+|+|||++++....+
T Consensus        26 ~~gi~TG~~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al~ia~~   69 (338)
T 4a1f_A           26 VTGIPTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLS   69 (338)
T ss_dssp             CCSBCCSCHHHHHHHCSBCTTCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             cCcccCCChHHHHHhcCCCCCcEEEEEeCCCCCHHHHHHHHHHH
Confidence            3567899999998874 778999999999999999999754444

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=92.11  E-value=0.077  Score=51.40  Aligned_cols=30  Identities=23%  Similarity=0.344  Sum_probs=25.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|.
T Consensus        23 ~isl~i~~Ge~~~iiG~nGsGKSTLl-~~l~   52 (235)
T 3tif_A           23 NVNLNIKEGEFVSIMGPSGSGKSTML-NIIG   52 (235)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eeeEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            34578899999999999999999997 5554

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=91.90  E-value=0.41  Score=47.96  Aligned_cols=26  Identities=31%  Similarity=0.342  Sum_probs=20.6

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.-++|.|++|+|||+++ ..++++.
T Consensus        44 ~~~~vll~G~~G~GKT~la-~~l~~~~   69 (384)
T 2qby_B           44 VKFSNLFLGLTGTGKTFVS-KYIFNEI   69 (384)
T ss_dssp             CCCEEEEEECTTSSHHHHH-HHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHH-HHHHHHH
Confidence            3556899999999999998 5666543

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=91.88  E-value=0.65  Score=43.94  Aligned_cols=25  Identities=28%  Similarity=0.488  Sum_probs=20.4

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      .-++|.|++|||||+++ ..++++..
T Consensus        40 ~~vll~G~~GtGKT~la-~~la~~~~   64 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLA-KAVATEAQ   64 (262)
T ss_dssp             CEEEEESCTTSSHHHHH-HHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHH-HHHHHHhC
Confidence            44789999999999998 67776653

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=91.85  E-value=0.085  Score=51.14  Aligned_cols=30  Identities=20%  Similarity=0.374  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        23 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   52 (237)
T 2cbz_A           23 GITFSIPEGALVAVVGQVGCGKSSLL-SALL   52 (237)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eeEEEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34567889999999999999999998 5555

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=91.85  E-value=0.083  Score=50.71  Aligned_cols=30  Identities=23%  Similarity=0.317  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        22 ~vsl~i~~Ge~~~iiG~nGsGKSTLl-~~l~   51 (224)
T 2pcj_A           22 GISLSVKKGEFVSIIGASGSGKSTLL-YILG   51 (224)
T ss_dssp             EEEEEEETTCEEEEEECTTSCHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34567889999999999999999997 5554

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=91.75  E-value=0.093  Score=49.03  Aligned_cols=27  Identities=19%  Similarity=0.244  Sum_probs=22.7

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ..+|+.++|+|++|+|||||+ ..|...
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~-~~l~~~   45 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLS-NPLAAA   45 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHH-HHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHH-HHHHHH
Confidence            468999999999999999998 556543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=91.73  E-value=0.089  Score=48.16  Aligned_cols=27  Identities=19%  Similarity=0.282  Sum_probs=21.8

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+|..++|.|++|+||||++ ..+..
T Consensus         2 ~i~~g~~i~l~G~~GsGKSTl~-~~L~~   28 (207)
T 2j41_A            2 DNEKGLLIVLSGPSGVGKGTVR-KRIFE   28 (207)
T ss_dssp             --CCCCEEEEECSTTSCHHHHH-HHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHH-HHHHH
Confidence            3568999999999999999998 66654

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=91.62  E-value=0.11  Score=50.71  Aligned_cols=31  Identities=16%  Similarity=0.384  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        21 ~vsl~i~~Ge~~~l~G~nGsGKSTLl-k~l~G   51 (250)
T 2d2e_A           21 GVNLVVPKGEVHALMGPNGAGKSTLG-KILAG   51 (250)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHH-HHHHT
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34578899999999999999999997 66664

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=91.62  E-value=0.093  Score=51.26  Aligned_cols=30  Identities=27%  Similarity=0.387  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        27 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   56 (247)
T 2ff7_A           27 NINLSIKQGEVIGIVGRSGSGKSTLT-KLIQ   56 (247)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34567889999999999999999997 5554

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=91.51  E-value=0.27  Score=49.11  Aligned_cols=25  Identities=28%  Similarity=0.410  Sum_probs=20.6

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ..+++.|++|||||+|| ..+++...
T Consensus        52 ~~vLl~GppGtGKT~la-~aia~~~~   76 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLA-KAVATEAN   76 (322)
T ss_dssp             CEEEEECSSSSCHHHHH-HHHHHHHT
T ss_pred             CeEEEECCCCCcHHHHH-HHHHHHHC
Confidence            34799999999999999 67777653

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=91.43  E-value=0.098  Score=51.79  Aligned_cols=29  Identities=28%  Similarity=0.398  Sum_probs=24.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        30 vsl~i~~Ge~~~liG~nGsGKSTLl-~~l~   58 (266)
T 4g1u_C           30 VSLHIASGEMVAIIGPNGAGKSTLL-RLLT   58 (266)
T ss_dssp             EEEEEETTCEEEEECCTTSCHHHHH-HHHT
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            3478889999999999999999998 5554

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=91.42  E-value=0.64  Score=44.81  Aligned_cols=27  Identities=30%  Similarity=0.396  Sum_probs=21.6

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      .+..++|.|++|||||+++ ..+++...
T Consensus        50 ~~~~~ll~G~~GtGKT~la-~~la~~~~   76 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLA-KAVATETN   76 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHH-HHHHHHTT
T ss_pred             CCCeEEEECCCCCcHHHHH-HHHHHHhC
Confidence            3455899999999999999 67776643

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=91.39  E-value=0.1  Score=50.26  Aligned_cols=31  Identities=35%  Similarity=0.417  Sum_probs=25.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        26 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~G   56 (229)
T 2pze_A           26 DINFKIERGQLLAVAGSTGAGKTSLL-MMIMG   56 (229)
T ss_dssp             EEEEEEETTCEEEEECCTTSSHHHHH-HHHTT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            34567889999999999999999997 55553

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=91.38  E-value=0.1  Score=51.45  Aligned_cols=30  Identities=23%  Similarity=0.284  Sum_probs=25.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        24 ~vsl~i~~Ge~~~liG~nGsGKSTLl-k~l~   53 (262)
T 1b0u_A           24 GVSLQARAGDVISIIGSSGSGKSTFL-RCIN   53 (262)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34567889999999999999999997 5554

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=91.33  E-value=0.12  Score=51.02  Aligned_cols=30  Identities=23%  Similarity=0.423  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        39 vsl~i~~Ge~~~l~G~NGsGKSTLl-k~l~G   68 (267)
T 2zu0_C           39 LSLDVHPGEVHAIMGPNGSGKSTLS-ATLAG   68 (267)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHH-HHHHT
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999997 66654

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=91.24  E-value=0.41  Score=48.92  Aligned_cols=28  Identities=11%  Similarity=0.179  Sum_probs=23.3

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -+++..+.|.|++|||||+++ ..++++-
T Consensus        42 ~~~~~~lli~GpPGTGKT~~v-~~v~~~L   69 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQLV-NDVMDEL   69 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHHH-HHHHHHH
T ss_pred             CCCCCeEEEECCCCCCHHHHH-HHHHHHH
Confidence            467888999999999999998 6666554

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=91.23  E-value=0.11  Score=50.50  Aligned_cols=30  Identities=13%  Similarity=0.086  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        20 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   49 (243)
T 1mv5_A           20 DISFEAQPNSIIAFAGPSGGGKSTIF-SLLE   49 (243)
T ss_dssp             EEEEEECTTEEEEEECCTTSSHHHHH-HHHT
T ss_pred             EeEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34467889999999999999999998 5554

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=91.23  E-value=0.11  Score=51.95  Aligned_cols=30  Identities=27%  Similarity=0.386  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        26 ~isl~i~~Ge~~~iiGpnGsGKSTLl-~~l~   55 (275)
T 3gfo_A           26 GINMNIKRGEVTAILGGNGVGKSTLF-QNFN   55 (275)
T ss_dssp             EEEEEEETTSEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHH
Confidence            34578899999999999999999998 5554

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=91.22  E-value=0.11  Score=51.52  Aligned_cols=30  Identities=23%  Similarity=0.361  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        42 ~vsl~i~~Gei~~liG~NGsGKSTLl-k~l~   71 (263)
T 2olj_A           42 GINVHIREGEVVVVIGPSGSGKSTFL-RCLN   71 (263)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEEcCCCCcHHHHH-HHHH
Confidence            34567889999999999999999998 5554

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=91.16  E-value=0.2  Score=49.76  Aligned_cols=26  Identities=31%  Similarity=0.238  Sum_probs=20.9

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.-++|.|++|||||+|+ ..|+++.
T Consensus        36 ~~~~lll~G~~GtGKT~la-~~i~~~~   61 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLL-QAAGNEA   61 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHH-HHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHH-HHHHHHH
Confidence            4567889999999999998 5666554

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=91.16  E-value=0.1  Score=47.70  Aligned_cols=29  Identities=21%  Similarity=0.310  Sum_probs=24.3

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.+.+|+.++|+|+.|+|||||+ ..|+..
T Consensus        28 l~i~~Ge~v~L~G~nGaGKTTLl-r~l~g~   56 (158)
T 1htw_A           28 LHTEKAIMVYLNGDLGAGKTTLT-RGMLQG   56 (158)
T ss_dssp             HCCSSCEEEEEECSTTSSHHHHH-HHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHH-HHHHHh
Confidence            46689999999999999999998 666543

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=91.15  E-value=0.11  Score=51.17  Aligned_cols=29  Identities=28%  Similarity=0.245  Sum_probs=25.0

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+.+|+..+|+|++|+|||||+ .+|+
T Consensus        34 vsl~i~~Gei~~l~G~NGsGKSTLl-k~l~   62 (256)
T 1vpl_A           34 ISFEIEEGEIFGLIGPNGAGKTTTL-RIIS   62 (256)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 5554

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=91.13  E-value=0.11  Score=51.48  Aligned_cols=30  Identities=17%  Similarity=0.308  Sum_probs=25.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        37 ~vsl~i~~Ge~~~i~G~nGsGKSTLl-k~l~   66 (271)
T 2ixe_A           37 GLTFTLYPGKVTALVGPNGSGKSTVA-ALLQ   66 (271)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eeEEEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34567889999999999999999998 5554

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=91.09  E-value=0.11  Score=49.92  Aligned_cols=29  Identities=31%  Similarity=0.337  Sum_probs=24.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        28 vsl~i~~Ge~~~iiG~NGsGKSTLl-k~l~   56 (214)
T 1sgw_A           28 ITMTIEKGNVVNFHGPNGIGKTTLL-KTIS   56 (214)
T ss_dssp             EEEEEETTCCEEEECCTTSSHHHHH-HHHT
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999997 5554

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=91.05  E-value=0.12  Score=50.25  Aligned_cols=29  Identities=31%  Similarity=0.381  Sum_probs=24.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        25 vsl~i~~Ge~~~l~G~nGsGKSTLl-~~l~   53 (240)
T 1ji0_A           25 IDLKVPRGQIVTLIGANGAGKTTTL-SAIA   53 (240)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999997 5554

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.05  E-value=0.11  Score=51.75  Aligned_cols=30  Identities=23%  Similarity=0.353  Sum_probs=25.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        39 ~isl~i~~Ge~~~liG~NGsGKSTLl-k~l~   68 (279)
T 2ihy_A           39 KISWQIAKGDKWILYGLNGAGKTTLL-NILN   68 (279)
T ss_dssp             EEEEEEETTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeeEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            34567889999999999999999997 5554

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=91.05  E-value=0.11  Score=50.99  Aligned_cols=29  Identities=21%  Similarity=0.318  Sum_probs=24.8

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        39 vsl~i~~Ge~~~i~G~nGsGKSTLl-~~l~   67 (260)
T 2ghi_A           39 INFFIPSGTTCALVGHTGSGKSTIA-KLLY   67 (260)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eEEEECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 5554

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=91.03  E-value=0.11  Score=49.85  Aligned_cols=29  Identities=17%  Similarity=0.224  Sum_probs=22.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -+.+.+|..++|.|++|+|||||+ ..|..
T Consensus        19 sl~i~~g~iigI~G~~GsGKSTl~-k~L~~   47 (245)
T 2jeo_A           19 YFQSMRPFLIGVSGGTASGKSTVC-EKIME   47 (245)
T ss_dssp             ----CCSEEEEEECSTTSSHHHHH-HHHHH
T ss_pred             eccCCCCEEEEEECCCCCCHHHHH-HHHHH
Confidence            357889999999999999999998 66654

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=91.00  E-value=0.1  Score=51.10  Aligned_cols=29  Identities=31%  Similarity=0.591  Sum_probs=24.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        26 vsl~i~~Ge~~~liG~nGsGKSTLl-k~l~   54 (257)
T 1g6h_A           26 VSISVNKGDVTLIIGPNGSGKSTLI-NVIT   54 (257)
T ss_dssp             ECCEEETTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eEEEEeCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3467889999999999999999998 5554

>2vhj_A Ntpase P4, P4; non- hydrolysable ATP analogue, hydrolase, virus dsRNA, molecular motor, packaging ATPase, hexameric helicase; HET: ADP; 1.80A {Pseudomonas phage PHI12} PDB: 2vhq_A* 1w44_A* 1w46_A* 1w47_A* 1w48_A* 1w49_A* 1w4a_A* 1w4b_A* 1w4c_A 2vht_A* 2vhu_A* 2vhc_A*

Probab=90.90  E-value=0.18  Score=52.03  Aligned_cols=43  Identities=16%  Similarity=0.091  Sum_probs=33.3

Q ss_pred             cccccccceeeeeee-eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        187 YNLLSAGIKAVDSLV-PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       187 ~epl~TGIraID~l~-pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ...+.||+..+|-++ .+-+|.-.+|.|++|+|||+|++. ++++
T Consensus       103 ~~~i~TGi~~LD~lLGGi~~gsviLI~GpPGsGKTtLAlq-lA~~  146 (331)
T 2vhj_A          103 TGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHA-LGEA  146 (331)
T ss_dssp             STTCCSBCCEEEEETTEEEESEEEEEECSCSSSHHHHHHH-HHHH
T ss_pred             hhccccCcHHHHHHhCCCCCCcEEEEEcCCCCCHHHHHHH-HHHh
Confidence            445679999999987 233677789999999999999953 4433

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=90.90  E-value=0.12  Score=50.69  Aligned_cols=30  Identities=17%  Similarity=0.242  Sum_probs=25.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ ..|+
T Consensus        18 ~vsl~i~~Ge~~~liG~NGsGKSTLl-k~l~   47 (249)
T 2qi9_C           18 PLSGEVRAGEILHLVGPNGAGKSTLL-ARMA   47 (249)
T ss_dssp             EEEEEEETTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            34567889999999999999999998 5554

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=90.76  E-value=0.13  Score=50.80  Aligned_cols=29  Identities=24%  Similarity=0.434  Sum_probs=24.9

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+
T Consensus        26 vsl~i~~Ge~~~liG~nGsGKSTLl-~~i~   54 (266)
T 2yz2_A           26 VSLVINEGECLLVAGNTGSGKSTLL-QIVA   54 (266)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            3478899999999999999999997 5554

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=90.73  E-value=0.12  Score=50.58  Aligned_cols=30  Identities=20%  Similarity=0.419  Sum_probs=25.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        24 isl~i~~Ge~~~l~G~nGsGKSTLl-~~l~G   53 (253)
T 2nq2_C           24 LNFDLNKGDILAVLGQNGCGKSTLL-DLLLG   53 (253)
T ss_dssp             EEEEEETTCEEEEECCSSSSHHHHH-HHHTT
T ss_pred             EEEEECCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            3467889999999999999999997 55553

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=90.48  E-value=0.1  Score=49.38  Aligned_cols=27  Identities=19%  Similarity=0.265  Sum_probs=19.0

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.+-+|+.++|+|++|+|||||+ .++.
T Consensus        22 l~v~~G~ii~l~Gp~GsGKSTl~-~~L~   48 (231)
T 3lnc_A           22 MLKSVGVILVLSSPSGCGKTTVA-NKLL   48 (231)
T ss_dssp             CCEECCCEEEEECSCC----CHH-HHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHH-HHHH
Confidence            34668999999999999999998 6665

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=90.37  E-value=0.15  Score=46.56  Aligned_cols=25  Identities=16%  Similarity=0.445  Sum_probs=21.2

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|+.++|+|++|+|||||+ ..+...
T Consensus         4 ~g~~i~i~GpsGsGKSTL~-~~L~~~   28 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIK-NTLITK   28 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHH-HHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            5788999999999999998 666654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=90.23  E-value=0.15  Score=47.10  Aligned_cols=30  Identities=20%  Similarity=0.238  Sum_probs=21.3

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+.+-+|..+.|+|++|+||||++ ..++..
T Consensus        19 ~~~~~~~~~i~l~G~~GsGKsTl~-~~La~~   48 (199)
T 3vaa_A           19 YFQSNAMVRIFLTGYMGAGKTTLG-KAFARK   48 (199)
T ss_dssp             -----CCCEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             eEecCCCCEEEEEcCCCCCHHHHH-HHHHHH
Confidence            345668999999999999999998 555543

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=90.22  E-value=0.17  Score=52.70  Aligned_cols=31  Identities=29%  Similarity=0.431  Sum_probs=26.9

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        22 ~vsl~i~~Ge~~~llGpsGsGKSTLL-r~iaG   52 (359)
T 3fvq_A           22 DISLSLDPGEILFIIGASGCGKTTLL-RCLAG   52 (359)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHHH-HHHHT
T ss_pred             eeEEEEcCCCEEEEECCCCchHHHHH-HHHhc
Confidence            45678999999999999999999998 66664

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=90.21  E-value=0.15  Score=47.23  Aligned_cols=27  Identities=26%  Similarity=0.262  Sum_probs=21.5

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .-+|..++|.|++|+|||||+ ..|...
T Consensus         3 ~~~~~~i~i~G~~GsGKSTl~-~~l~~~   29 (211)
T 3asz_A            3 APKPFVIGIAGGTASGKTTLA-QALART   29 (211)
T ss_dssp             --CCEEEEEEESTTSSHHHHH-HHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHH-HHHHHH
Confidence            457889999999999999998 666543

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=90.21  E-value=0.68  Score=46.54  Aligned_cols=24  Identities=29%  Similarity=0.457  Sum_probs=20.2

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .-+++.|++|||||+|| ..+++..
T Consensus        46 ~~iLL~GppGtGKT~la-~ala~~~   69 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLA-KAVATEA   69 (322)
T ss_dssp             SEEEEESSSSSCHHHHH-HHHHHHT
T ss_pred             ceEEEECCCCccHHHHH-HHHHHHc
Confidence            45789999999999999 6777664

>2b8t_A Thymidine kinase; deoxyribonucleoside kinase, zinc-binding domain, TK1, UU-TK, transferase; HET: THM; 2.00A {Ureaplasma parvum} SCOP: c.37.1.24 g.39.1.14 PDB: 2uz3_A*

Probab=90.18  E-value=2.5  Score=40.78  Aligned_cols=27  Identities=33%  Similarity=0.282  Sum_probs=21.5

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+|+-+.|.|+.|+||||+++..+.+.
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~   36 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRL   36 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHH
Confidence            467888999999999999997665544

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=90.16  E-value=0.089  Score=48.14  Aligned_cols=31  Identities=19%  Similarity=0.392  Sum_probs=25.6

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +++. +++.+|.+++|+|++|+|||||+ ..++
T Consensus        17 ~l~~-~~~~~~~~v~lvG~~g~GKSTLl-~~l~   47 (210)
T 1pui_A           17 DIRH-LPSDTGIEVAFAGRSNAGKSSAL-NTLT   47 (210)
T ss_dssp             SGGG-SSCSCSEEEEEEECTTSSHHHHH-TTTC
T ss_pred             CHhH-CCCCCCcEEEEECCCCCCHHHHH-HHHh
Confidence            4444 88999999999999999999997 4443

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=90.05  E-value=0.7  Score=49.69  Aligned_cols=23  Identities=35%  Similarity=0.528  Sum_probs=20.1

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ++|.|++|||||+|+ ..|+++..
T Consensus        52 vLL~GppGtGKT~La-raia~~~~   74 (476)
T 2ce7_A           52 ILLVGPPGTGKTLLA-RAVAGEAN   74 (476)
T ss_dssp             EEEECCTTSSHHHHH-HHHHHHHT
T ss_pred             EEEECCCCCCHHHHH-HHHHHHcC
Confidence            899999999999998 77887654

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=90.03  E-value=0.17  Score=45.53  Aligned_cols=26  Identities=27%  Similarity=0.420  Sum_probs=22.8

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +|+.++|+|++|+|||+|+ ..|++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~-~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLL-QAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHH-HHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHHHH
Confidence            8999999999999999998 6677654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=90.01  E-value=0.15  Score=47.61  Aligned_cols=25  Identities=16%  Similarity=0.344  Sum_probs=20.1

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|+.++|+|++|+|||||+ ..+...
T Consensus         3 ~g~~i~lvGpsGaGKSTLl-~~L~~~   27 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLL-KKLFQE   27 (198)
T ss_dssp             --CCEEEECCTTSSHHHHH-HHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHHhh
Confidence            6889999999999999998 666654

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=90.00  E-value=0.57  Score=49.74  Aligned_cols=24  Identities=33%  Similarity=0.455  Sum_probs=19.2

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .-++|.|++|||||+++ ..|.+..
T Consensus        51 ~~vLL~GppGtGKTtlA-r~ia~~~   74 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLA-EVIARYA   74 (447)
T ss_dssp             CEEEEECSTTSSHHHHH-HHHHHHT
T ss_pred             cEEEEECCCCCcHHHHH-HHHHHHh
Confidence            45799999999999998 5666543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=89.94  E-value=0.45  Score=50.16  Aligned_cols=25  Identities=32%  Similarity=0.232  Sum_probs=20.5

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.-++|.|++|+|||+|+ ..|.+..
T Consensus       130 ~~~lll~Gp~G~GKTtLa-~aia~~l  154 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLL-QSIGNYV  154 (440)
T ss_dssp             SCCEEEECSSSSSHHHHH-HHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHH-HHHHHHH
Confidence            456889999999999998 6676654

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=89.87  E-value=0.1  Score=53.00  Aligned_cols=30  Identities=30%  Similarity=0.400  Sum_probs=25.5

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .-+.|-+|++++|+|++|+|||||+ ..|+.
T Consensus       119 vsl~i~~Ge~vaIvGpsGsGKSTLl-~lL~g  148 (305)
T 2v9p_A          119 WLKGIPKKNCLAFIGPPNTGKSMLC-NSLIH  148 (305)
T ss_dssp             HHHTCTTCSEEEEECSSSSSHHHHH-HHHHH
T ss_pred             ceEEecCCCEEEEECCCCCcHHHHH-HHHhh
Confidence            3567889999999999999999998 55553

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=89.84  E-value=0.59  Score=50.11  Aligned_cols=22  Identities=27%  Similarity=0.231  Sum_probs=17.5

Q ss_pred             cceeeeeccCCCCchHhHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+-++|.|++|+|||+||. .++
T Consensus       147 ~~~v~I~G~~GiGKTtLa~-~~~  168 (591)
T 1z6t_A          147 PGWVTIHGMAGCGKSVLAA-EAV  168 (591)
T ss_dssp             CEEEEEECCTTSSHHHHHH-HHH
T ss_pred             CceEEEEcCCCCCHHHHHH-HHH
Confidence            4567899999999999983 344

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=89.84  E-value=0.19  Score=52.15  Aligned_cols=31  Identities=23%  Similarity=0.312  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        33 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   63 (355)
T 1z47_A           33 GVSFQIREGEMVGLLGPSGSGKTTIL-RLIAG   63 (355)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHH-HHHHT
T ss_pred             eeEEEECCCCEEEEECCCCCcHHHHH-HHHhC
Confidence            45677889999999999999999998 66663

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=89.71  E-value=0.15  Score=48.66  Aligned_cols=27  Identities=30%  Similarity=0.222  Sum_probs=23.4

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-+|+..+|+|++|+|||||+ ..|+..
T Consensus        19 i~~Ge~~~liG~nGsGKSTLl-~~l~Gl   45 (208)
T 3b85_A           19 IDTNTIVFGLGPAGSGKTYLA-MAKAVQ   45 (208)
T ss_dssp             HHHCSEEEEECCTTSSTTHHH-HHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHHH-HHHhcC
Confidence            478999999999999999998 666654

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=89.69  E-value=0.2  Score=52.06  Aligned_cols=31  Identities=16%  Similarity=0.199  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   51 (359)
T 2yyz_A           21 GVSFEVKDGEFVALLGPSGCGKTTTL-LMLAG   51 (359)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH-HHHHT
T ss_pred             eeEEEEcCCCEEEEEcCCCchHHHHH-HHHHC
Confidence            45678889999999999999999998 66663

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=89.69  E-value=0.2  Score=53.15  Aligned_cols=45  Identities=24%  Similarity=0.286  Sum_probs=37.0

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ..-+.||+..+|-++. +-+|+-+.|.|.+|+|||++++....|..
T Consensus       177 ~~gi~TG~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal~ia~~~a  222 (444)
T 3bgw_A          177 ITGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMS  222 (444)
T ss_dssp             CCSBCCSCHHHHHHHSSBCSSCEEEEEECSSSSHHHHHHHHHHHHH
T ss_pred             CCCcCCCcHHHHhhcCCCCCCcEEEEEeCCCCChHHHHHHHHHHHH
Confidence            4567899999998874 66899999999999999999976555443

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=89.57  E-value=0.2  Score=52.21  Aligned_cols=31  Identities=23%  Similarity=0.291  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        29 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   59 (372)
T 1v43_A           29 KLNLTIKDGEFLVLLGPSGCGKTTTL-RMIAG   59 (372)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHHT
T ss_pred             eeEEEECCCCEEEEECCCCChHHHHH-HHHHc
Confidence            44578889999999999999999998 66663

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=89.57  E-value=0.2  Score=52.01  Aligned_cols=31  Identities=26%  Similarity=0.355  Sum_probs=26.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   51 (362)
T 2it1_A           21 NINLKIKDGEFMALLGPSGSGKSTLL-YTIAG   51 (362)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHHT
T ss_pred             eeEEEECCCCEEEEECCCCchHHHHH-HHHhc
Confidence            44578889999999999999999998 66663

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=89.46  E-value=0.21  Score=52.39  Aligned_cols=31  Identities=26%  Similarity=0.374  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~vsl~i~~Ge~~~llGpsGsGKSTLL-r~iaG   51 (381)
T 3rlf_A           21 DINLDIHEGEFVVFVGPSGCGKSTLL-RMIAG   51 (381)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHHT
T ss_pred             eeEEEECCCCEEEEEcCCCchHHHHH-HHHHc
Confidence            44578899999999999999999998 66653

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=89.40  E-value=0.21  Score=51.99  Aligned_cols=31  Identities=19%  Similarity=0.335  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   51 (372)
T 1g29_1           21 EMSLEVKDGEFMILLGPSGCGKTTTL-RMIAG   51 (372)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHH-HHHHT
T ss_pred             eeEEEEcCCCEEEEECCCCcHHHHHH-HHHHc
Confidence            45578889999999999999999997 66663

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=89.35  E-value=0.17  Score=46.84  Aligned_cols=28  Identities=25%  Similarity=0.152  Sum_probs=23.2

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -.+.+|+.++|.|++|+||||++ ..+..
T Consensus        16 ~~~~~~~~i~i~G~~GsGKSTl~-~~L~~   43 (207)
T 2qt1_A           16 PRGSKTFIIGISGVTNSGKTTLA-KNLQK   43 (207)
T ss_dssp             CCSCCCEEEEEEESTTSSHHHHH-HHHHT
T ss_pred             ccCCCCeEEEEECCCCCCHHHHH-HHHHH
Confidence            35677889999999999999998 55654

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=89.32  E-value=0.19  Score=50.50  Aligned_cols=30  Identities=33%  Similarity=0.379  Sum_probs=25.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|+.
T Consensus        57 isl~i~~Ge~~~i~G~NGsGKSTLl-k~l~G   86 (290)
T 2bbs_A           57 INFKIERGQLLAVAGSTGAGKTSLL-MMIMG   86 (290)
T ss_dssp             EEEEECTTCEEEEEESTTSSHHHHH-HHHTT
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHH-HHHhc
Confidence            3467889999999999999999997 65553

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=89.29  E-value=0.17  Score=49.98  Aligned_cols=27  Identities=33%  Similarity=0.447  Sum_probs=21.8

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.+|  ++++|++|||||+|+ ..|++..
T Consensus        42 ~~~~G--vlL~Gp~GtGKTtLa-kala~~~   68 (274)
T 2x8a_A           42 VTPAG--VLLAGPPGCGKTLLA-KAVANES   68 (274)
T ss_dssp             CCCSE--EEEESSTTSCHHHHH-HHHHHHT
T ss_pred             CCCCe--EEEECCCCCcHHHHH-HHHHHHc
Confidence            34466  999999999999998 7777654

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=89.27  E-value=0.17  Score=48.29  Aligned_cols=26  Identities=35%  Similarity=0.589  Sum_probs=20.8

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.+|  ++|+|++|+|||+|+ ..|++..
T Consensus        48 ~~~g--~ll~G~~G~GKTtl~-~~i~~~~   73 (254)
T 1ixz_A           48 IPKG--VLLVGPPGVGKTHLA-RAVAGEA   73 (254)
T ss_dssp             CCSE--EEEECCTTSSHHHHH-HHHHHHT
T ss_pred             CCCe--EEEECCCCCCHHHHH-HHHHHHh
Confidence            4455  899999999999998 6676543

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=89.20  E-value=0.22  Score=45.58  Aligned_cols=28  Identities=36%  Similarity=0.488  Sum_probs=22.7

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +..+|.+++|+|++|+||||++ ..+...
T Consensus         6 ~~~~~~~I~l~G~~GsGKSTv~-~~La~~   33 (184)
T 1y63_A            6 EQPKGINILITGTPGTGKTSMA-EMIAAE   33 (184)
T ss_dssp             CCCSSCEEEEECSTTSSHHHHH-HHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHH-HHHHHh
Confidence            4557889999999999999998 555543

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=89.01  E-value=0.24  Score=51.73  Aligned_cols=33  Identities=24%  Similarity=0.341  Sum_probs=26.9

Q ss_pred             eee-eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        195 KAV-DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       195 raI-D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .++ |.=+.|-+|+..+|+|++|+|||||+ .+|.
T Consensus        42 ~aL~~vsl~i~~Gei~~IiGpnGaGKSTLl-r~i~   75 (366)
T 3tui_C           42 QALNNVSLHVPAGQIYGVIGASGAGKSTLI-RCVN   75 (366)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHH-HHHH
T ss_pred             EEEEeeEEEEcCCCEEEEEcCCCchHHHHH-HHHh
Confidence            344 44578999999999999999999997 5554

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=88.90  E-value=0.47  Score=47.07  Aligned_cols=22  Identities=36%  Similarity=0.418  Sum_probs=17.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .++|.|++|||||++| ..|++.
T Consensus        57 ~vll~G~~GtGKT~la-~~ia~~   78 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLA-NIISYE   78 (338)
T ss_dssp             CEEEECSTTSSHHHHH-HHHHHH
T ss_pred             eEEEECcCCCCHHHHH-HHHHHH
Confidence            5789999999999998 455443

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=88.82  E-value=0.24  Score=51.94  Aligned_cols=30  Identities=27%  Similarity=0.444  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|+.
T Consensus        40 vsl~i~~Ge~~~llGpsGsGKSTLL-r~iaG   69 (390)
T 3gd7_A           40 ISFSISPGQRVGLLGRTGSGKSTLL-SAFLR   69 (390)
T ss_dssp             EEEEECTTCEEEEEESTTSSHHHHH-HHHHT
T ss_pred             eeEEEcCCCEEEEECCCCChHHHHH-HHHhC
Confidence            3468899999999999999999998 66663

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=88.80  E-value=0.21  Score=46.88  Aligned_cols=25  Identities=20%  Similarity=0.271  Sum_probs=21.1

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|+|++|+|||||+ .+|+...
T Consensus         1 G~~i~i~G~nG~GKTTll-~~l~g~~   25 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLI-HKASEVL   25 (189)
T ss_dssp             CCCEEEESCCSSCHHHHH-HHHHHHH
T ss_pred             CCEEEEECCCCChHHHHH-HHHHhhc
Confidence            789999999999999997 6666543

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=88.77  E-value=0.23  Score=45.82  Aligned_cols=29  Identities=17%  Similarity=0.158  Sum_probs=23.1

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      -++++.++|.|++|+|||+++ ..++++..
T Consensus        49 ~~~~~~~ll~G~~G~GKT~la-~~l~~~~~   77 (242)
T 3bos_A           49 GDGVQAIYLWGPVKSGRTHLI-HAACARAN   77 (242)
T ss_dssp             TCSCSEEEEECSTTSSHHHHH-HHHHHHHH
T ss_pred             CCCCCeEEEECCCCCCHHHHH-HHHHHHHH
Confidence            346788999999999999998 56665543

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=88.76  E-value=0.18  Score=52.18  Aligned_cols=31  Identities=23%  Similarity=0.374  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|+.
T Consensus        18 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   48 (348)
T 3d31_A           18 NLSLKVESGEYFVILGPTGAGKTLFL-ELIAG   48 (348)
T ss_dssp             EEEEEECTTCEEEEECCCTHHHHHHH-HHHHT
T ss_pred             eeEEEEcCCCEEEEECCCCccHHHHH-HHHHc
Confidence            44578899999999999999999998 66663

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=88.75  E-value=0.22  Score=49.22  Aligned_cols=27  Identities=30%  Similarity=0.561  Sum_probs=23.1

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.+- |+..+|+|++|+|||||+ ..|+
T Consensus        25 sl~i~-Ge~~~i~G~NGsGKSTLl-k~l~   51 (263)
T 2pjz_A           25 NLEVN-GEKVIILGPNGSGKTTLL-RAIS   51 (263)
T ss_dssp             EEEEC-SSEEEEECCTTSSHHHHH-HHHT
T ss_pred             eEEEC-CEEEEEECCCCCCHHHHH-HHHh
Confidence            45677 999999999999999998 5554

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=88.66  E-value=0.62  Score=47.52  Aligned_cols=24  Identities=29%  Similarity=0.425  Sum_probs=20.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      -++|.|++|||||+|| ..+++...
T Consensus        86 ~iLL~GppGtGKT~la-~ala~~~~  109 (355)
T 2qp9_X           86 GILLYGPPGTGKSYLA-KAVATEAN  109 (355)
T ss_dssp             CEEEECSTTSCHHHHH-HHHHHHHT
T ss_pred             eEEEECCCCCcHHHHH-HHHHHHhC
Confidence            4789999999999999 67776653

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=88.54  E-value=0.16  Score=51.56  Aligned_cols=30  Identities=20%  Similarity=0.362  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+|++++|+|++|+|||||+ ..|.
T Consensus        72 ~isl~i~~Ge~vaivG~sGsGKSTLl-~ll~  101 (306)
T 3nh6_A           72 DVSFTVMPGQTLALVGPSGAGKSTIL-RLLF  101 (306)
T ss_dssp             EEEEEECTTCEEEEESSSCHHHHHHH-HHHT
T ss_pred             eeeEEEcCCCEEEEECCCCchHHHHH-HHHH
Confidence            33468899999999999999999998 5554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=88.45  E-value=0.26  Score=43.29  Aligned_cols=27  Identities=22%  Similarity=0.439  Sum_probs=21.2

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.+..++|.|++|+|||+++ ..++++.
T Consensus        41 ~~~~~~ll~G~~G~GKT~l~-~~~~~~~   67 (195)
T 1jbk_A           41 RTKNNPVLIGEPGVGKTAIV-EGLAQRI   67 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHH-HHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHH-HHHHHHH
Confidence            44567899999999999998 5566544

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=88.16  E-value=0.27  Score=43.98  Aligned_cols=24  Identities=21%  Similarity=0.380  Sum_probs=20.1

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|..++|+|++|+||||++ ..+..
T Consensus         7 ~g~~i~l~G~~GsGKSTl~-~~l~~   30 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVA-SEVAH   30 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHH-HHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHH-HHHHH
Confidence            5788999999999999998 55543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=88.12  E-value=0.26  Score=43.87  Aligned_cols=24  Identities=17%  Similarity=0.418  Sum_probs=19.6

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |..++|.|++|+||||++ ..+...
T Consensus         4 ~~~i~l~G~~GsGKSTl~-~~La~~   27 (173)
T 1kag_A            4 KRNIFLVGPMGAGKSTIG-RQLAQQ   27 (173)
T ss_dssp             CCCEEEECCTTSCHHHHH-HHHHHH
T ss_pred             CCeEEEECCCCCCHHHHH-HHHHHH
Confidence            567899999999999998 555543

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=87.95  E-value=0.25  Score=50.03  Aligned_cols=28  Identities=14%  Similarity=-0.015  Sum_probs=23.8

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+|+.++|.|++|+|||||+ ..|...
T Consensus        86 ~~~~g~ivgI~G~sGsGKSTL~-~~L~gl  113 (312)
T 3aez_A           86 DRPVPFIIGVAGSVAVGKSTTA-RVLQAL  113 (312)
T ss_dssp             SSCCCEEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             CCCCCEEEEEECCCCchHHHHH-HHHHhh
Confidence            3788999999999999999998 666543

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=87.92  E-value=0.24  Score=48.23  Aligned_cols=26  Identities=35%  Similarity=0.589  Sum_probs=20.8

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.+|  ++|+|++|+|||||+ ..|++..
T Consensus        72 ~~~g--vll~Gp~GtGKTtl~-~~i~~~~   97 (278)
T 1iy2_A           72 IPKG--VLLVGPPGVGKTHLA-RAVAGEA   97 (278)
T ss_dssp             CCCE--EEEECCTTSSHHHHH-HHHHHHT
T ss_pred             CCCe--EEEECCCcChHHHHH-HHHHHHc
Confidence            4455  899999999999998 6676543

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=87.84  E-value=0.28  Score=45.44  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=19.2

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++|+|++|+|||||+ ..|+...
T Consensus         2 ~i~l~G~nGsGKTTLl-~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLV-KKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHh
Confidence            6899999999999998 6666543

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=87.73  E-value=0.18  Score=52.11  Aligned_cols=31  Identities=29%  Similarity=0.405  Sum_probs=26.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ .+|+.
T Consensus        23 ~vsl~i~~Ge~~~llGpnGsGKSTLL-r~iaG   53 (353)
T 1oxx_K           23 NVNINIENGERFGILGPSGAGKTTFM-RIIAG   53 (353)
T ss_dssp             EEEEEECTTCEEEEECSCHHHHHHHH-HHHHT
T ss_pred             ceEEEECCCCEEEEECCCCCcHHHHH-HHHhC
Confidence            44567889999999999999999998 66663

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=87.73  E-value=0.27  Score=47.08  Aligned_cols=26  Identities=15%  Similarity=0.392  Sum_probs=21.4

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+|+.++|+|++|+|||||+ ..+...
T Consensus        14 ~~G~ii~l~GpsGsGKSTLl-k~L~g~   39 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLI-QALLKT   39 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHH-HHHhcc
Confidence            46889999999999999997 666644

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=87.64  E-value=0.17  Score=54.41  Aligned_cols=37  Identities=27%  Similarity=0.420  Sum_probs=31.1

Q ss_pred             ccccccceeeeeee--eccccceeeeeccCCCCchHhHH
Q psy13776        188 NLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAI  224 (539)
Q Consensus       188 epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~  224 (539)
                      +.+.||+.++|.+.  .+-+|+..+|+|++|+|||||+.
T Consensus        19 ~~~~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~   57 (525)
T 1tf7_A           19 AKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSI   57 (525)
T ss_dssp             CEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHH
T ss_pred             ccccCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHH
Confidence            34568888887654  67899999999999999999983

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=87.59  E-value=3.6  Score=36.27  Aligned_cols=23  Identities=26%  Similarity=0.559  Sum_probs=19.2

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++|+|||||+ ..+.+..
T Consensus        25 ~i~v~G~~~~GKSsli-~~l~~~~   47 (195)
T 3pqc_A           25 EVAFVGRSNVGKSSLL-NALFNRK   47 (195)
T ss_dssp             EEEEEEBTTSSHHHHH-HHHHTSC
T ss_pred             EEEEECCCCCCHHHHH-HHHHcCc
Confidence            7889999999999997 6676543

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=87.48  E-value=1.4  Score=39.59  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++|+|++|+|||+|+ ..+.+..
T Consensus        25 ki~v~G~~~~GKSsli-~~l~~~~   47 (191)
T 3dz8_A           25 KLLIIGNSSVGKTSFL-FRYADDT   47 (191)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHHT
T ss_pred             EEEEECCCCcCHHHHH-HHHhcCC
Confidence            6789999999999997 6777654

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=87.48  E-value=0.14  Score=52.78  Aligned_cols=21  Identities=48%  Similarity=1.007  Sum_probs=18.8

Q ss_pred             eecccccccchhhccccCCCcc
Q psy13776        477 VDVPVGEDLLGRVVDALGIRPA  498 (539)
Q Consensus       477 ~~~~~~~~~l~~v~~~lg~~Pa  498 (539)
                      ++||||+++||||+|+|| .|-
T Consensus         3 ~~~~vg~~~lGrv~~~~g-~p~   23 (347)
T 2obl_A            3 HKIRVGDALLGRLIDGIG-RPM   23 (347)
T ss_dssp             CEEEECGGGTTCEECTTS-CBC
T ss_pred             ceeecCccccCCEECCCC-CcC
Confidence            689999999999999999 453

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=87.34  E-value=1.7  Score=46.84  Aligned_cols=22  Identities=18%  Similarity=0.308  Sum_probs=17.6

Q ss_pred             ceeeeeccCCCCchHhHHHHHHH
Q psy13776        207 QRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .-+.|.|..|+|||||| ..+.|
T Consensus       153 ~vv~I~G~gGvGKTtLA-~~v~~  174 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIA-SQALS  174 (549)
T ss_dssp             EEEEEECSTTSSHHHHH-HHHHH
T ss_pred             eEEEEEcCCCCCHHHHH-HHHHH
Confidence            45689999999999999 35554

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=87.06  E-value=0.32  Score=48.69  Aligned_cols=28  Identities=18%  Similarity=0.031  Sum_probs=23.2

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +..+|..++|.|++|+|||||+ ..|...
T Consensus        76 ~~~~g~iigI~G~~GsGKSTl~-~~L~~~  103 (308)
T 1sq5_A           76 GQRIPYIISIAGSVAVGKSTTA-RVLQAL  103 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHH-HHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHH-HHHHHH
Confidence            4588999999999999999998 666543

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=87.00  E-value=1.1  Score=47.52  Aligned_cols=23  Identities=22%  Similarity=0.278  Sum_probs=18.3

Q ss_pred             ccceeeeeccCCCCchHhHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ++..+++.|++|+||||++ ..++
T Consensus        96 ~~~vI~lvG~~GsGKTTt~-~kLA  118 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTA-GKLA  118 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHH-HHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHH
Confidence            4667789999999999998 3444

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=86.98  E-value=0.36  Score=43.46  Aligned_cols=28  Identities=29%  Similarity=0.694  Sum_probs=22.6

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .-+.+..| ..+|+|++|+|||||+ +.|.
T Consensus        20 ~~~~~~~g-~~~i~G~NGsGKStll-~ai~   47 (182)
T 3kta_A           20 VVIPFSKG-FTAIVGANGSGKSNIG-DAIL   47 (182)
T ss_dssp             EEEECCSS-EEEEEECTTSSHHHHH-HHHH
T ss_pred             EEEecCCC-cEEEECCCCCCHHHHH-HHHH
Confidence            34566677 7899999999999998 6665

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=86.93  E-value=0.44  Score=54.86  Aligned_cols=17  Identities=35%  Similarity=0.335  Sum_probs=15.1

Q ss_pred             eeeeeccCCCCchHhHH
Q psy13776        208 RELIIGDRQTGKTALAI  224 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~  224 (539)
                      .+.|.|..|+||||||.
T Consensus       149 ~v~i~G~gG~GKTtLa~  165 (1249)
T 3sfz_A          149 WVTIYGMAGCGKSVLAA  165 (1249)
T ss_dssp             EEEEECSTTSSHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHH
Confidence            46899999999999993

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=86.91  E-value=0.39  Score=46.67  Aligned_cols=29  Identities=21%  Similarity=0.417  Sum_probs=24.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+ +..+|+|++|+|||||+ ..|+
T Consensus        17 ~isl~i~~-e~~~liG~nGsGKSTLl-~~l~   45 (240)
T 2onk_A           17 NVDFEMGR-DYCVLLGPTGAGKSVFL-ELIA   45 (240)
T ss_dssp             EEEEEECS-SEEEEECCTTSSHHHHH-HHHH
T ss_pred             eeEEEECC-EEEEEECCCCCCHHHHH-HHHh
Confidence            34567889 99999999999999998 5555

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=86.76  E-value=0.36  Score=44.59  Aligned_cols=25  Identities=24%  Similarity=0.299  Sum_probs=20.7

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHH
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -+|+.+.|.|++|+||||++ ..+..
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~-~~La~   47 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLA-CALNQ   47 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHH-HHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHH-HHHHH
Confidence            46888999999999999998 55543

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=86.50  E-value=0.36  Score=45.13  Aligned_cols=26  Identities=19%  Similarity=0.400  Sum_probs=21.5

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+|.-++|.|++|+|||||+ ..++..
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~-~~L~~~   31 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVR-EAVFKD   31 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHH-HHHHHS
T ss_pred             CCCcEEEEECcCCCCHHHHH-HHHHhh
Confidence            36888999999999999998 666643

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=86.41  E-value=0.27  Score=52.60  Aligned_cols=30  Identities=37%  Similarity=0.505  Sum_probs=25.2

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.+-+|++++|+|++|+|||||+ .+|++-.
T Consensus       133 l~i~~Ge~v~IvGpnGsGKSTLl-r~L~Gl~  162 (460)
T 2npi_A          133 MSNFEGPRVVIVGGSQTGKTSLS-RTLCSYA  162 (460)
T ss_dssp             HHSSSCCCEEEEESTTSSHHHHH-HHHHHTT
T ss_pred             eEeCCCCEEEEECCCCCCHHHHH-HHHhCcc
Confidence            44569999999999999999998 7777643

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=86.09  E-value=0.36  Score=43.80  Aligned_cols=22  Identities=18%  Similarity=0.296  Sum_probs=18.7

Q ss_pred             cceeeeeccCCCCchHhHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |+.++|+|++|+||||++ ..+.
T Consensus         2 g~ii~l~G~~GaGKSTl~-~~L~   23 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTC-KRLA   23 (189)
T ss_dssp             EEEEEEECSTTSSHHHHH-HHHH
T ss_pred             CeEEEEECCCCCcHHHHH-HHHh
Confidence            567899999999999998 5565

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=86.07  E-value=0.93  Score=51.92  Aligned_cols=26  Identities=35%  Similarity=0.390  Sum_probs=21.6

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      ..++++|++|||||.+| ..++++...
T Consensus       512 ~gvLl~GPPGtGKT~lA-kaiA~e~~~  537 (806)
T 3cf2_A          512 KGVLFYGPPGCGKTLLA-KAIANECQA  537 (806)
T ss_dssp             SCCEEESSTTSSHHHHH-HHHHHTTTC
T ss_pred             ceEEEecCCCCCchHHH-HHHHHHhCC
Confidence            35899999999999998 788877643

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=86.07  E-value=0.33  Score=43.49  Aligned_cols=25  Identities=24%  Similarity=0.542  Sum_probs=20.5

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|.|++|+|++|+|||||+ ..+.+.
T Consensus         3 ~~~ki~ivG~~g~GKStLl-~~l~~~   27 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLL-NALAGR   27 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHH-HHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHH-HHHhCC
Confidence            5789999999999999997 666643

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=86.06  E-value=0.39  Score=44.46  Aligned_cols=27  Identities=19%  Similarity=0.364  Sum_probs=22.3

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.+|.-+.|.|++|+|||||+ ..+...
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~-~~L~~~   35 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLI-KKVLSE   35 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHH-HHHHHH
T ss_pred             cccCCEEEEECCCCCCHHHHH-HHHHHh
Confidence            457888999999999999998 666644

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=86.05  E-value=0.32  Score=42.84  Aligned_cols=27  Identities=22%  Similarity=0.418  Sum_probs=20.8

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +....++|.|++|+|||+++ ..++++.
T Consensus        41 ~~~~~vll~G~~G~GKT~la-~~~~~~~   67 (187)
T 2p65_A           41 RTKNNPILLGDPGVGKTAIV-EGLAIKI   67 (187)
T ss_dssp             SSSCEEEEESCGGGCHHHHH-HHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHH-HHHHHHH
Confidence            34567889999999999998 5565543

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=86.02  E-value=1.7  Score=39.21  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=19.0

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..+.+..
T Consensus        10 ki~v~G~~~~GKSsli-~~l~~~~   32 (203)
T 1zbd_A           10 KILIIGNSSVGKTSFL-FRYADDS   32 (203)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHTCC
T ss_pred             EEEEECCCCCCHHHHH-HHHhcCC
Confidence            6899999999999997 6666543

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=86.00  E-value=0.42  Score=44.43  Aligned_cols=24  Identities=21%  Similarity=0.239  Sum_probs=19.6

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.+++|.|++|+||||++ ..+...
T Consensus         5 ~~~i~i~G~~GsGKSTl~-~~L~~~   28 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLC-KAMAEA   28 (227)
T ss_dssp             SCEEEEECCTTSSHHHHH-HHHHHH
T ss_pred             CeEEEEECCCCCCHHHHH-HHHHHH
Confidence            568999999999999998 555543

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=85.97  E-value=5  Score=40.60  Aligned_cols=26  Identities=23%  Similarity=0.221  Sum_probs=21.3

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+.+|+.++|.|++|+||||++ ..++
T Consensus       101 ~~~~~~vI~ivG~~G~GKTT~~-~~LA  126 (320)
T 1zu4_A          101 KENRLNIFMLVGVNGTGKTTSL-AKMA  126 (320)
T ss_dssp             CTTSCEEEEEESSTTSSHHHHH-HHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHH-HHHH
Confidence            4677889999999999999998 3444

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=85.87  E-value=0.38  Score=45.92  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=19.8

Q ss_pred             ccceeeeeccCCCCchHhHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ++..++|+|++|+||||++ ..|+
T Consensus        26 ~~~~i~l~G~~GsGKSTl~-k~La   48 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVC-QRIA   48 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHH-HHHH
T ss_pred             CCcEEEEECCCCCCHHHHH-HHHH
Confidence            4688999999999999998 5555

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=85.87  E-value=0.4  Score=43.12  Aligned_cols=24  Identities=25%  Similarity=0.405  Sum_probs=20.1

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|..+.+.|++|+||||++ ..+..
T Consensus         3 ~g~~I~l~G~~GsGKST~~-~~La~   26 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQA-SRLAQ   26 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHH-HHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHHH
Confidence            5778999999999999998 55543

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=85.87  E-value=0.32  Score=49.67  Aligned_cols=28  Identities=18%  Similarity=0.348  Sum_probs=23.2

Q ss_pred             eccc--cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGR--GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGr--GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ++-+  |++.+|+|++|+|||||+ ..|+..
T Consensus       164 ~v~~~lg~k~~IvG~nGsGKSTLl-k~L~gl  193 (365)
T 1lw7_A          164 EARPFFAKTVAILGGESSGKSVLV-NKLAAV  193 (365)
T ss_dssp             TTGGGTCEEEEEECCTTSHHHHHH-HHHHHH
T ss_pred             HHHHhhhCeEEEECCCCCCHHHHH-HHHHHH
Confidence            3456  999999999999999998 666654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=85.82  E-value=1.1  Score=39.85  Aligned_cols=23  Identities=30%  Similarity=0.502  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++|+|++|+|||+|+ ..+.+..
T Consensus        18 ki~v~G~~~~GKSsli-~~l~~~~   40 (196)
T 3tkl_A           18 KLLLIGDSGVGKSCLL-LRFADDT   40 (196)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECcCCCCHHHHH-HHHHcCC
Confidence            6889999999999997 6777543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=85.71  E-value=0.41  Score=47.05  Aligned_cols=27  Identities=19%  Similarity=0.258  Sum_probs=23.6

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-+|+.++|.|++|+||||++ ..|+..
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll-~~l~g~   48 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTI-ASMIDY   48 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHH-HHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHH-HHHHHh
Confidence            789999999999999999998 666654

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=85.67  E-value=0.23  Score=53.40  Aligned_cols=42  Identities=24%  Similarity=0.311  Sum_probs=33.6

Q ss_pred             cccccccceeeeeee--eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLV--PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~--pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+.+.||+.-+|-++  .+-+|+..+|.|++|+|||||+ .+++.
T Consensus       260 ~~~l~~g~~~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl-~~l~g  303 (525)
T 1tf7_A          260 NVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLV-SRFVE  303 (525)
T ss_dssp             CCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHH-HHHHH
T ss_pred             cceeecChHHHHHHhCCCCCCCcEEEEEeCCCCCHHHHH-HHHHH
Confidence            455678887777653  6889999999999999999998 45553

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=85.24  E-value=0.48  Score=43.95  Aligned_cols=27  Identities=26%  Similarity=0.191  Sum_probs=22.2

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +..+|..++|.|++|+||||++ ..+..
T Consensus        18 ~~~~~~~i~i~G~~GsGKstl~-~~l~~   44 (201)
T 1rz3_A           18 KTAGRLVLGIDGLSRSGKTTLA-NQLSQ   44 (201)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHH-HHHHH
T ss_pred             ccCCCeEEEEECCCCCCHHHHH-HHHHH
Confidence            3567889999999999999998 55554

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=84.97  E-value=0.48  Score=51.49  Aligned_cols=32  Identities=22%  Similarity=0.278  Sum_probs=25.8

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +++.+..+.+|++.+|+|++|+|||||+ ..|.
T Consensus        37 ~l~~vs~i~~Ge~~~LvG~NGaGKSTLl-k~l~   68 (538)
T 1yqt_A           37 VLYRLPVVKEGMVVGIVGPNGTGKSTAV-KILA   68 (538)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHH-HHHH
T ss_pred             cccCcCcCCCCCEEEEECCCCCCHHHHH-HHHh
Confidence            3444436899999999999999999998 5554

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=84.90  E-value=0.54  Score=44.29  Aligned_cols=16  Identities=31%  Similarity=0.447  Sum_probs=14.5

Q ss_pred             eeeeccCCCCchHhHH
Q psy13776        209 ELIIGDRQTGKTALAI  224 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~  224 (539)
                      ++|+|++|+|||++|.
T Consensus         2 ilV~Gg~~SGKS~~A~   17 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAE   17 (180)
T ss_dssp             EEEEECTTSSHHHHHH
T ss_pred             EEEECCCCCcHHHHHH
Confidence            5799999999999993

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=84.80  E-value=0.45  Score=41.86  Aligned_cols=24  Identities=17%  Similarity=0.111  Sum_probs=19.3

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.-++|.|++|||||++| ..|.+.
T Consensus        24 ~~~vll~G~~GtGKt~lA-~~i~~~   47 (145)
T 3n70_A           24 DIAVWLYGAPGTGRMTGA-RYLHQF   47 (145)
T ss_dssp             CSCEEEESSTTSSHHHHH-HHHHHS
T ss_pred             CCCEEEECCCCCCHHHHH-HHHHHh
Confidence            456889999999999998 556544

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=84.70  E-value=0.15  Score=51.84  Aligned_cols=31  Identities=19%  Similarity=0.425  Sum_probs=26.9

Q ss_pred             eeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        197 VDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       197 ID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +|.|+++-+|+..+|+|++|+|||||+ ..|.
T Consensus       164 ~~~L~~~~~G~~~~lvG~sG~GKSTLl-n~L~  194 (307)
T 1t9h_A          164 LADIIPHFQDKTTVFAGQSGVGKSSLL-NAIS  194 (307)
T ss_dssp             CTTTGGGGTTSEEEEEESHHHHHHHHH-HHHC
T ss_pred             HHHHHhhcCCCEEEEECCCCCCHHHHH-HHhc
Confidence            567788889999999999999999997 5554

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=84.42  E-value=0.38  Score=49.06  Aligned_cols=30  Identities=30%  Similarity=0.308  Sum_probs=25.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+.+.+|+.++|+|++|+|||||+ ..++..
T Consensus        49 ~~~~~~g~~v~i~G~~GaGKSTLl-~~l~g~   78 (337)
T 2qm8_A           49 LPQTGRAIRVGITGVPGVGKSTTI-DALGSL   78 (337)
T ss_dssp             GGGCCCSEEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             CcccCCCeEEEEECCCCCCHHHHH-HHHHHh
Confidence            356889999999999999999997 666643

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=84.23  E-value=0.53  Score=46.59  Aligned_cols=26  Identities=35%  Similarity=0.391  Sum_probs=21.5

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.-++|.|++|||||+|+ ..+++..
T Consensus        48 ~~~~vLL~Gp~GtGKT~la-~ala~~~   73 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLA-KAIANEC   73 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHH-HHHHHHT
T ss_pred             CCceEEEECCCCcCHHHHH-HHHHHHh
Confidence            4566899999999999998 6777654

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=84.07  E-value=0.28  Score=49.13  Aligned_cols=31  Identities=23%  Similarity=0.373  Sum_probs=27.6

Q ss_pred             eeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        197 VDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       197 ID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ||-|+.+-+|+..+++|++|+|||||+ .+|.
T Consensus       156 i~~L~~~l~G~i~~l~G~sG~GKSTLl-n~l~  186 (302)
T 2yv5_A          156 IDELVDYLEGFICILAGPSGVGKSSIL-SRLT  186 (302)
T ss_dssp             HHHHHHHTTTCEEEEECSTTSSHHHHH-HHHH
T ss_pred             HHHHHhhccCcEEEEECCCCCCHHHHH-HHHH
Confidence            677888889999999999999999997 6665

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=84.07  E-value=0.58  Score=42.82  Aligned_cols=24  Identities=29%  Similarity=0.293  Sum_probs=19.9

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +-++|.|++|||||+|+ ..|++..
T Consensus        55 ~~~~l~G~~GtGKT~la-~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLL-AAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHH-HHHHHHH
T ss_pred             CeEEEECCCCCCHHHHH-HHHHHHH
Confidence            67899999999999998 5666554

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=84.07  E-value=0.57  Score=42.12  Aligned_cols=24  Identities=33%  Similarity=0.260  Sum_probs=19.2

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ...++|.|++|+|||+++ ..++++
T Consensus        38 ~~~~ll~G~~G~GKT~l~-~~l~~~   61 (226)
T 2chg_A           38 IPHLLFSGPPGTGKTATA-IALARD   61 (226)
T ss_dssp             CCCEEEECSTTSSHHHHH-HHHHHH
T ss_pred             CCeEEEECCCCCCHHHHH-HHHHHH
Confidence            345899999999999998 556654

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=83.89  E-value=0.56  Score=47.22  Aligned_cols=28  Identities=18%  Similarity=0.251  Sum_probs=23.6

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+|+.++|+|++|+||||++ ..|+..
T Consensus        96 ~~~~g~vi~lvG~nGsGKTTll-~~Lag~  123 (302)
T 3b9q_A           96 GFRKPAVIMIVGVNGGGKTTSL-GKLAHR  123 (302)
T ss_dssp             CSSSCEEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             ccCCCcEEEEEcCCCCCHHHHH-HHHHHH
Confidence            4678999999999999999998 566644

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=83.77  E-value=2.6  Score=36.87  Aligned_cols=22  Identities=23%  Similarity=0.521  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus        14 ki~v~G~~~~GKSsli-~~l~~~   35 (181)
T 2efe_B           14 KLVLLGDVGAGKSSLV-LRFVKD   35 (181)
T ss_dssp             EEEEECCTTSCHHHHH-HHHHHC
T ss_pred             EEEEECcCCCCHHHHH-HHHHcC
Confidence            6899999999999997 666654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=83.53  E-value=0.55  Score=45.39  Aligned_cols=24  Identities=17%  Similarity=0.195  Sum_probs=20.7

Q ss_pred             cccceeeeeccCCCCchHhHHHHHH
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      -+|..++|.|++|+||||++ ..++
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~-k~La   48 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLC-KALA   48 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHH-HHHH
T ss_pred             CCCcEEEEECCCCCCHHHHH-HHHH
Confidence            47889999999999999998 5555

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=83.45  E-value=0.6  Score=51.67  Aligned_cols=32  Identities=19%  Similarity=0.232  Sum_probs=26.4

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .++.+..+.+|+..+|+|++|+|||||+ ..|.
T Consensus        93 ~l~~l~~~~~Gei~~LvGpNGaGKSTLL-kiL~  124 (608)
T 3j16_B           93 KLHRLPTPRPGQVLGLVGTNGIGKSTAL-KILA  124 (608)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHH-HHHH
T ss_pred             eecCCCCCCCCCEEEEECCCCChHHHHH-HHHh
Confidence            3455557889999999999999999997 5555

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=83.37  E-value=0.68  Score=42.40  Aligned_cols=26  Identities=15%  Similarity=0.321  Sum_probs=21.0

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+|..+.|.|++|+||||++ ..+...
T Consensus         8 ~~~~~I~l~G~~GsGKST~~-~~L~~~   33 (212)
T 2wwf_A            8 KKGKFIVFEGLDRSGKSTQS-KLLVEY   33 (212)
T ss_dssp             BCSCEEEEEESTTSSHHHHH-HHHHHH
T ss_pred             hcCCEEEEEcCCCCCHHHHH-HHHHHH
Confidence            35778999999999999998 555543

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=83.34  E-value=0.57  Score=51.10  Aligned_cols=30  Identities=23%  Similarity=0.417  Sum_probs=25.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+..+|+|++|+|||||+ ..|.
T Consensus       361 ~v~~~i~~G~~~~ivG~sGsGKSTLl-~~l~  390 (582)
T 3b60_A          361 NINLKIPAGKTVALVGRSGSGKSTIA-SLIT  390 (582)
T ss_dssp             EEEEEECTTCEEEEEECTTSSHHHHH-HHHT
T ss_pred             ceeEEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34567889999999999999999998 5554

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=83.33  E-value=0.6  Score=45.38  Aligned_cols=26  Identities=31%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +..++|.|++|||||+++ ..+++...
T Consensus        54 ~~~vll~Gp~GtGKT~la-~~la~~~~   79 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLA-RAVATECS   79 (297)
T ss_dssp             CSEEEEESSSSSCHHHHH-HHHHHHTT
T ss_pred             CCeEEEECcCCCCHHHHH-HHHHHHhC
Confidence            567899999999999998 67776543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=83.27  E-value=0.58  Score=50.84  Aligned_cols=27  Identities=26%  Similarity=0.412  Sum_probs=23.6

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+-+|++.+|+|++|+|||||+ ..|+.
T Consensus       308 ~i~~Ge~~~i~G~NGsGKSTLl-k~l~G  334 (538)
T 1yqt_A          308 EIKKGEVIGIVGPNGIGKTTFV-KMLAG  334 (538)
T ss_dssp             EEETTCEEEEECCTTSSHHHHH-HHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            4679999999999999999998 66664

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=83.19  E-value=0.57  Score=44.75  Aligned_cols=22  Identities=41%  Similarity=0.572  Sum_probs=18.9

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++|.|++|||||+++ ..|++..
T Consensus        48 vll~G~~GtGKT~la-~~la~~~   69 (257)
T 1lv7_A           48 VLMVGPPGTGKTLLA-KAIAGEA   69 (257)
T ss_dssp             EEEECCTTSCHHHHH-HHHHHHH
T ss_pred             EEEECcCCCCHHHHH-HHHHHHc
Confidence            899999999999998 6676654

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=83.06  E-value=0.6  Score=50.91  Aligned_cols=30  Identities=20%  Similarity=0.416  Sum_probs=25.3

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+-+|+..+|+|++|+|||||+ ..|..
T Consensus       362 i~l~i~~G~~~~ivG~sGsGKSTll-~~l~g  391 (582)
T 3b5x_A          362 VSFSIPQGKTVALVGRSGSGKSTIA-NLFTR  391 (582)
T ss_pred             ceEEECCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            3467889999999999999999998 66653

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=83.03  E-value=0.64  Score=41.80  Aligned_cols=25  Identities=24%  Similarity=0.254  Sum_probs=20.2

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHH
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .++..+.|.|.+|+||||++ ..+..
T Consensus         9 ~~~~~i~i~G~~GsGKst~~-~~l~~   33 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLG-KELAS   33 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHH-HHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHH-HHHHH
Confidence            35778999999999999998 45543

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=82.99  E-value=0.69  Score=41.39  Aligned_cols=24  Identities=13%  Similarity=0.267  Sum_probs=19.2

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|..+.|.|++|+||||++ ..+..
T Consensus         2 ~~~~I~i~G~~GsGKsT~~-~~L~~   25 (192)
T 1kht_A            2 KNKVVVVTGVPGVGSTTSS-QLAMD   25 (192)
T ss_dssp             -CCEEEEECCTTSCHHHHH-HHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHHH
Confidence            3567899999999999998 55554

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=82.95  E-value=0.58  Score=42.60  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +++|+|++|+|||||+ ..+++.
T Consensus        31 kv~lvG~~g~GKSTLl-~~l~~~   52 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLL-SRFTRN   52 (191)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHHS
T ss_pred             EEEEECcCCCCHHHHH-HHHhcC
Confidence            6789999999999997 666654

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=82.85  E-value=0.63  Score=46.91  Aligned_cols=26  Identities=23%  Similarity=0.335  Sum_probs=21.5

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ++|+.++|+|++|+||||++ ..|+..
T Consensus       100 ~~g~vi~lvG~nGsGKTTll-~~Lagl  125 (304)
T 1rj9_A          100 PKGRVVLVVGVNGVGKTTTI-AKLGRY  125 (304)
T ss_dssp             CSSSEEEEECSTTSSHHHHH-HHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHH-HHHHHH
Confidence            57889999999999999998 555543

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=82.78  E-value=0.68  Score=40.68  Aligned_cols=22  Identities=14%  Similarity=0.128  Sum_probs=17.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.|.|++|+||||++ ..+...
T Consensus         3 ~i~l~G~~GsGKsT~~-~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVA-AKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHH-HHHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHHH
Confidence            4679999999999998 555543

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=82.65  E-value=0.59  Score=46.32  Aligned_cols=23  Identities=17%  Similarity=0.257  Sum_probs=18.7

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+|+ ..|+++..
T Consensus        39 lLl~GppGtGKT~la-~aiA~~l~   61 (293)
T 3t15_A           39 LGIWGGKGQGKSFQC-ELVFRKMG   61 (293)
T ss_dssp             EEEEECTTSCHHHHH-HHHHHHHT
T ss_pred             EEEECCCCCCHHHHH-HHHHHHhC
Confidence            567799999999998 67776653

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=82.53  E-value=0.61  Score=46.94  Aligned_cols=24  Identities=33%  Similarity=0.433  Sum_probs=20.4

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.++|+|++|+|||||+ ..|++..
T Consensus        52 ~~~ll~Gp~G~GKTTLa-~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLA-HIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHH-HHHHHHH
T ss_pred             CeEEEECCCCCcHHHHH-HHHHHHh
Confidence            56899999999999998 6777654

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=82.50  E-value=1.5  Score=43.22  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=16.1

Q ss_pred             eeeeecc-CCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGD-RQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~-~gtGKTtLa~~~I~nq~  231 (539)
                      ...++++ +|||||+++ ..++++.
T Consensus        49 ~~~L~~G~~G~GKT~la-~~la~~l   72 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVA-KALCHDV   72 (324)
T ss_dssp             SEEEECSSTTSSHHHHH-HHHHHHT
T ss_pred             eEEEeeCcCCCCHHHHH-HHHHHHh
Confidence            4555555 999999998 5565443

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=82.49  E-value=2.3  Score=50.50  Aligned_cols=22  Identities=32%  Similarity=0.317  Sum_probs=17.3

Q ss_pred             ceeeeeccCCCCchHhHHHHHHH
Q psy13776        207 QRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .-++|.|..|.||||||. .+.+
T Consensus       151 RVV~IvGmGGIGKTTLAk-~Vy~  172 (1221)
T 1vt4_I          151 KNVLIDGVLGSGKTWVAL-DVCL  172 (1221)
T ss_dssp             CEEEECCSTTSSHHHHHH-HHHH
T ss_pred             eEEEEEcCCCccHHHHHH-HHHH
Confidence            356899999999999993 4443

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=82.37  E-value=0.68  Score=42.14  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=18.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +++|+|++|+|||||+ ..+++.
T Consensus         7 kv~lvG~~g~GKSTLl-~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLL-SRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECcCCCCHHHHH-HHHhcC
Confidence            6789999999999997 667654

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=82.31  E-value=0.76  Score=41.32  Aligned_cols=24  Identities=25%  Similarity=0.345  Sum_probs=20.0

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|..+.|.|.+|+||||++ ..+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~-~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVS-MALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHH-HHHHH
T ss_pred             CCcEEEEECCCCCCHHHHH-HHHHH
Confidence            5788999999999999998 55543

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=82.25  E-value=7.1  Score=38.62  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -.+|.|++|+|||+++ ..+++..
T Consensus        40 ~~ll~G~~G~GKT~la-~~la~~l   62 (373)
T 1jr3_A           40 AYLFSGTRGVGKTSIA-RLLAKGL   62 (373)
T ss_dssp             EEEEESCTTSSHHHHH-HHHHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHh
Confidence            3689999999999998 5666544

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=82.01  E-value=0.69  Score=39.89  Aligned_cols=22  Identities=14%  Similarity=0.447  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||||+ ..+.+.
T Consensus         7 ~i~v~G~~~~GKssl~-~~l~~~   28 (168)
T 1z2a_A            7 KMVVVGNGAVGKSSMI-QRYCKG   28 (168)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHC
T ss_pred             EEEEECcCCCCHHHHH-HHHHcC
Confidence            6789999999999997 666654

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=82.00  E-value=0.67  Score=50.81  Aligned_cols=30  Identities=27%  Similarity=0.508  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|++.+|+|++|+|||||+ ..|.
T Consensus       373 ~isl~i~~G~~~~ivG~sGsGKSTll-~~l~  402 (598)
T 3qf4_B          373 DITFHIKPGQKVALVGPTGSGKTTIV-NLLM  402 (598)
T ss_dssp             SEEEECCTTCEEEEECCTTSSTTHHH-HHHT
T ss_pred             ceEEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            34567889999999999999999997 5554

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=81.98  E-value=0.7  Score=39.68  Aligned_cols=22  Identities=23%  Similarity=0.603  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus         3 ki~v~G~~~~GKSsli-~~l~~~   24 (161)
T 2dyk_A            3 KVVIVGRPNVGKSSLF-NRLLKK   24 (161)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHC
T ss_pred             EEEEECCCCCCHHHHH-HHHhCC
Confidence            6889999999999997 666654

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=81.89  E-value=0.67  Score=50.52  Aligned_cols=26  Identities=27%  Similarity=0.431  Sum_probs=23.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      |.=+.+-+|++.+|+|++|+|||||+
T Consensus       359 ~isl~i~~G~~~~ivG~sGsGKSTll  384 (578)
T 4a82_A          359 DINLSIEKGETVAFVGMSGGGKSTLI  384 (578)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH
T ss_pred             eeEEEECCCCEEEEECCCCChHHHHH
Confidence            34567889999999999999999997

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=81.81  E-value=0.76  Score=39.65  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=18.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..+.+..
T Consensus         2 ki~~~G~~~~GKssl~-~~l~~~~   24 (164)
T 1r8s_A            2 RILMVGLDAAGKTTIL-YKLKLGE   24 (164)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHHC
T ss_pred             EEEEECCCCCCHHHHH-HHHHcCC
Confidence            6789999999999997 6666543

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=81.80  E-value=0.81  Score=41.62  Aligned_cols=24  Identities=21%  Similarity=0.249  Sum_probs=19.8

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|..+.|.|.+|+||||++ ..+..
T Consensus         3 ~~~~I~i~G~~GsGKsT~~-~~L~~   26 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQA-TLLKD   26 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHH-HHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHH-HHHHH
Confidence            4678899999999999998 55554

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=81.80  E-value=0.62  Score=51.64  Aligned_cols=26  Identities=35%  Similarity=0.464  Sum_probs=23.0

Q ss_pred             eeeeeccccceeeeeccCCCCchHhH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      |.=+.+-+|+..+|+|++|+|||||+
T Consensus        36 ~vsl~i~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           36 NIDVEIPRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             SEEEEEETTSEEEEECSTTSSHHHHH
T ss_pred             ccEEEECCCCEEEEECCCCCCHHHHh
Confidence            33467889999999999999999996

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=81.72  E-value=0.7  Score=39.62  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=18.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +++++|++|+|||+|+ ..+.++
T Consensus         5 ~i~v~G~~~~GKSsli-~~l~~~   26 (167)
T 1kao_A            5 KVVVLGSGGVGKSALT-VQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHcC
Confidence            7899999999999997 566644

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=81.68  E-value=0.73  Score=42.20  Aligned_cols=21  Identities=24%  Similarity=0.328  Sum_probs=17.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +++|.|++|+||||++ ..+..
T Consensus         3 ~i~i~G~~GsGKSTl~-~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVA-QMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCcCHHHHH-HHHHH
Confidence            6889999999999998 55554

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=81.59  E-value=0.67  Score=51.22  Aligned_cols=32  Identities=25%  Similarity=0.272  Sum_probs=25.8

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +++.+..+-+|+..+|+|++|+|||||+ ..|.
T Consensus       107 ~l~~vs~i~~Ge~~~LiG~NGsGKSTLl-kiL~  138 (607)
T 3bk7_A          107 VLYRLPIVKDGMVVGIVGPNGTGKTTAV-KILA  138 (607)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeCCCCCCCCCCEEEEECCCCChHHHHH-HHHh
Confidence            4455446789999999999999999998 5444

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=81.54  E-value=0.77  Score=44.72  Aligned_cols=25  Identities=24%  Similarity=0.205  Sum_probs=19.9

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +..++|.|++|||||+++ ..+++..
T Consensus        67 ~~~vll~G~~GtGKT~la-~~la~~l   91 (309)
T 3syl_A           67 TLHMSFTGNPGTGKTTVA-LKMAGLL   91 (309)
T ss_dssp             CCEEEEEECTTSSHHHHH-HHHHHHH
T ss_pred             CceEEEECCCCCCHHHHH-HHHHHHH
Confidence            446899999999999998 5566544

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=81.50  E-value=0.87  Score=40.56  Aligned_cols=23  Identities=13%  Similarity=0.317  Sum_probs=18.3

Q ss_pred             cceeeeeccCCCCchHhHHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.-+.|.|.+|+||||++ ..+..
T Consensus         3 ~~~i~l~G~~GsGKST~a-~~La~   25 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIV-RCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHH-HHHHH
T ss_pred             ceEEEEECCCCCCHHHHH-HHHHH
Confidence            456789999999999998 55543

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=81.45  E-value=0.79  Score=42.44  Aligned_cols=21  Identities=19%  Similarity=0.392  Sum_probs=17.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +++|.|++|+||||++ ..+..
T Consensus         2 ~I~l~G~~GsGKsT~a-~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQG-ERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            5789999999999998 55543

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=81.34  E-value=0.73  Score=39.72  Aligned_cols=23  Identities=13%  Similarity=0.481  Sum_probs=18.9

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..+.+..
T Consensus         5 ~i~v~G~~~~GKssli-~~l~~~~   27 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIV-LRFVSND   27 (170)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCCCHHHHH-HHHhcCC
Confidence            6889999999999997 6666543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=81.25  E-value=0.39  Score=47.96  Aligned_cols=31  Identities=23%  Similarity=0.349  Sum_probs=27.0

Q ss_pred             eeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        197 VDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       197 ID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ||-++.+-+|+..+|+|++|+|||||+ .+|.
T Consensus       160 v~~lf~~l~geiv~l~G~sG~GKSTll-~~l~  190 (301)
T 1u0l_A          160 IEELKEYLKGKISTMAGLSGVGKSSLL-NAIN  190 (301)
T ss_dssp             HHHHHHHHSSSEEEEECSTTSSHHHHH-HHHS
T ss_pred             HHHHHHHhcCCeEEEECCCCCcHHHHH-HHhc
Confidence            677788889999999999999999997 5554

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=81.24  E-value=0.85  Score=53.34  Aligned_cols=30  Identities=30%  Similarity=0.411  Sum_probs=26.1

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .=+.+.+|++.+|+|++|+|||||+ .+|.+
T Consensus       454 vsl~I~~Ge~v~LiGpNGsGKSTLL-k~Lag  483 (986)
T 2iw3_A          454 TQLRLKRARRYGICGPNGCGKSTLM-RAIAN  483 (986)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHH-HHHHH
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHH-HHHhC
Confidence            4567889999999999999999998 67764

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=81.23  E-value=0.81  Score=42.26  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=17.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +++|.|++|+||||++ ..+..
T Consensus         2 ~I~l~G~~GsGKsT~a-~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQA-EQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            5789999999999998 55543

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=81.19  E-value=0.66  Score=50.50  Aligned_cols=27  Identities=26%  Similarity=0.337  Sum_probs=23.5

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.+-+|+..+|+|++|+|||||+ .+|+
T Consensus       289 ~~i~~Gei~~i~G~nGsGKSTLl-~~l~  315 (538)
T 3ozx_A          289 GEAKEGEIIGILGPNGIGKTTFA-RILV  315 (538)
T ss_dssp             EEEETTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             ceECCCCEEEEECCCCCCHHHHH-HHHh
Confidence            35789999999999999999998 5555

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=81.16  E-value=0.74  Score=39.66  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=18.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|. ..+.+.
T Consensus         5 ki~v~G~~~~GKssli-~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALT-VQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHC
T ss_pred             EEEEECCCCCCHHHHH-HHHHcC
Confidence            6889999999999997 666654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=81.16  E-value=0.78  Score=41.55  Aligned_cols=23  Identities=30%  Similarity=0.391  Sum_probs=19.0

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -++|.|++|+|||+++ ..+++..
T Consensus        47 ~~ll~G~~G~GKT~l~-~~~~~~~   69 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIA-RLLAKGL   69 (250)
T ss_dssp             EEEEECSTTSCHHHHH-HHHHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHHHh
Confidence            4789999999999998 6666554

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=81.13  E-value=0.89  Score=40.85  Aligned_cols=23  Identities=22%  Similarity=0.284  Sum_probs=18.6

Q ss_pred             cceeeeeccCCCCchHhHHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +..+.|+|++|+||||++ ..+..
T Consensus         5 ~~~i~l~G~~GsGKst~a-~~La~   27 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVG-SQLAK   27 (185)
T ss_dssp             CCEEEEECSTTSSHHHHH-HHHHH
T ss_pred             CCEEEEECCCCCCHHHHH-HHHHH
Confidence            457889999999999998 55553

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=81.11  E-value=0.51  Score=48.47  Aligned_cols=29  Identities=17%  Similarity=0.335  Sum_probs=24.5

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -+.+-+|+.++|.|++|+|||||+ ..|+.
T Consensus       169 ~~~i~~G~~i~ivG~sGsGKSTll-~~l~~  197 (361)
T 2gza_A          169 RRAVQLERVIVVAGETGSGKTTLM-KALMQ  197 (361)
T ss_dssp             HHHHHTTCCEEEEESSSSCHHHHH-HHHHT
T ss_pred             HHHHhcCCEEEEECCCCCCHHHHH-HHHHh
Confidence            346779999999999999999998 66654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=81.03  E-value=0.79  Score=39.12  Aligned_cols=22  Identities=27%  Similarity=0.530  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||||+ ..+.++
T Consensus         5 ~i~v~G~~~~GKssl~-~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALT-IQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHhC
Confidence            6899999999999997 666644

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=80.97  E-value=0.79  Score=50.69  Aligned_cols=27  Identities=26%  Similarity=0.414  Sum_probs=23.6

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .+-+|+..+|+|++|+|||||+ .+|..
T Consensus       378 ~v~~Gei~~i~G~NGsGKSTLl-k~l~G  404 (607)
T 3bk7_A          378 EIRKGEVIGIVGPNGIGKTTFV-KMLAG  404 (607)
T ss_dssp             EEETTCEEEEECCTTSSHHHHH-HHHHT
T ss_pred             ccCCCCEEEEECCCCCCHHHHH-HHHhc
Confidence            4689999999999999999998 66664

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=80.91  E-value=0.75  Score=39.76  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus         5 ~i~v~G~~~~GKssli-~~l~~~   26 (170)
T 1g16_A            5 KILLIGDSGVGKSCLL-VRFVED   26 (170)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHC
T ss_pred             EEEEECcCCCCHHHHH-HHHHhC
Confidence            6789999999999997 666644

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=80.91  E-value=0.83  Score=47.36  Aligned_cols=28  Identities=18%  Similarity=0.251  Sum_probs=24.0

Q ss_pred             eccccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        202 PIGRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       202 pIGrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .+.+|+.++|+|++|+||||++ ..|+..
T Consensus       153 ~~~~g~vi~lvG~nGsGKTTll-~~Lag~  180 (359)
T 2og2_A          153 GFRKPAVIMIVGVNGGGKTTSL-GKLAHR  180 (359)
T ss_dssp             CSSSSEEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             ecCCCeEEEEEcCCCChHHHHH-HHHHhh
Confidence            5778999999999999999998 566654

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=80.91  E-value=3.9  Score=43.65  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=18.4

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ++..+++.|.+|+||||++ ..++.
T Consensus        99 ~p~vIlivG~~G~GKTTt~-~kLA~  122 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTV-AKLAR  122 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHH-HHHHH
T ss_pred             CCeEEEEECcCCCCHHHHH-HHHHH
Confidence            4556789999999999998 34443

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=80.90  E-value=0.78  Score=39.36  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=18.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus         6 ~i~v~G~~~~GKssl~-~~l~~~   27 (168)
T 1u8z_A            6 KVIMVGSGGVGKSALT-LQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHhC
Confidence            6899999999999997 666644

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=80.88  E-value=0.89  Score=40.35  Aligned_cols=23  Identities=30%  Similarity=0.359  Sum_probs=18.8

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |-++|.|.+|+||||++ ..+...
T Consensus         8 ~~i~l~G~~GsGKSTva-~~La~~   30 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLA-QELGLA   30 (168)
T ss_dssp             CEEEEESCTTSSHHHHH-HHHHHH
T ss_pred             ceEEEECCCCCCHHHHH-HHHHHH
Confidence            67899999999999998 555543

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=80.63  E-value=0.7  Score=49.14  Aligned_cols=30  Identities=30%  Similarity=0.474  Sum_probs=24.6

Q ss_pred             eeeccccce--eeeeccCCCCchHhHHHHHHHh
Q psy13776        200 LVPIGRGQR--ELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       200 l~pIGrGQR--~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      =+.+-+|+.  ++|+|++|+|||||+ .+|++.
T Consensus        34 sl~i~~Gei~~vaLvG~nGaGKSTLl-n~L~G~   65 (427)
T 2qag_B           34 NKSVSQGFCFNILCVGETGLGKSTLM-DTLFNT   65 (427)
T ss_dssp             HHSCC-CCEEEEEEECSTTSSSHHHH-HHHHTS
T ss_pred             ceEecCCCeeEEEEECCCCCCHHHHH-HHHhCc
Confidence            356789999  999999999999997 777654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=80.63  E-value=0.63  Score=44.56  Aligned_cols=23  Identities=35%  Similarity=0.536  Sum_probs=19.5

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ++|.|++|||||+++ ..+++...
T Consensus        47 vll~G~~GtGKT~la-~~la~~~~   69 (268)
T 2r62_A           47 VLLVGPPGTGKTLLA-KAVAGEAH   69 (268)
T ss_dssp             CCCBCSSCSSHHHHH-HHHHHHHT
T ss_pred             EEEECCCCCcHHHHH-HHHHHHhC
Confidence            789999999999998 67776553

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=80.63  E-value=3.2  Score=37.78  Aligned_cols=22  Identities=23%  Similarity=0.490  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++|+|++|+|||+|+ ..+.+.
T Consensus        31 ki~vvG~~~vGKSsli-~~l~~~   52 (201)
T 2hup_A           31 KLVLVGDASVGKTCVV-QRFKTG   52 (201)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHHS
T ss_pred             EEEEECcCCCCHHHHH-HHHhhC
Confidence            6789999999999997 666654

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=80.56  E-value=0.78  Score=47.83  Aligned_cols=28  Identities=29%  Similarity=0.386  Sum_probs=23.8

Q ss_pred             eeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        201 VPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       201 ~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.+.+|+.++|.|++|+|||||+ ..+++
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~-~~l~~  191 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLA-AALLE  191 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHH-HHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHH-HHHHh
Confidence            56778999999999999999998 55553

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=80.51  E-value=0.83  Score=39.58  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus         8 ~i~v~G~~~~GKssli-~~l~~~   29 (170)
T 1z08_A            8 KVVLLGEGCVGKTSLV-LRYCEN   29 (170)
T ss_dssp             EEEEECCTTSCHHHHH-HHHHHC
T ss_pred             EEEEECcCCCCHHHHH-HHHHcC
Confidence            6889999999999997 666654

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=80.51  E-value=0.69  Score=40.29  Aligned_cols=22  Identities=36%  Similarity=0.617  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus         6 ki~i~G~~~vGKSsl~-~~l~~~   27 (175)
T 2nzj_A            6 RVVLLGDPGVGKTSLA-SLFAGK   27 (175)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHCC
T ss_pred             EEEEECCCCccHHHHH-HHHhcC
Confidence            6889999999999997 566543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=80.50  E-value=0.8  Score=40.43  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++|+|++|+|||+|+ ..+.+..
T Consensus        13 ki~v~G~~~~GKSsli-~~l~~~~   35 (195)
T 3bc1_A           13 KFLALGDSGVGKTSVL-YQYTDGK   35 (195)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCCCHHHHH-HHHhcCC
Confidence            6889999999999997 6666543

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=80.48  E-value=0.95  Score=41.40  Aligned_cols=26  Identities=19%  Similarity=0.391  Sum_probs=20.9

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -+|-.+.|.|.+|+||||++ ..+...
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~-~~L~~~   32 (215)
T 1nn5_A            7 RRGALIVLEGVDRAGKSTQS-RKLVEA   32 (215)
T ss_dssp             CCCCEEEEEESTTSSHHHHH-HHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHH-HHHHHH
Confidence            45778899999999999998 555543

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=80.46  E-value=0.82  Score=45.11  Aligned_cols=23  Identities=22%  Similarity=0.560  Sum_probs=19.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++|+|++|+|||||+ .+|++..
T Consensus         4 ~v~lvG~nGaGKSTLl-n~L~g~~   26 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLV-NTLFKSQ   26 (270)
T ss_dssp             EEEEEESSSSSHHHHH-HHHHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHhCCC
Confidence            4689999999999997 8888765

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=80.43  E-value=1.7  Score=49.67  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=19.7

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+|+ ..+++...
T Consensus       241 ILL~GPPGTGKT~LA-raiA~elg  263 (806)
T 3cf2_A          241 ILLYGPPGTGKTLIA-RAVANETG  263 (806)
T ss_dssp             EEEECCTTSCHHHHH-HHHHTTTT
T ss_pred             EEEECCCCCCHHHHH-HHHHHHhC
Confidence            789999999999999 77876654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=80.38  E-value=0.87  Score=45.51  Aligned_cols=25  Identities=40%  Similarity=0.492  Sum_probs=20.6

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |.-++|.|++|||||+++ ..+++..
T Consensus        70 ~~~vLl~GppGtGKT~la-~~la~~l   94 (368)
T 3uk6_A           70 GRAVLIAGQPGTGKTAIA-MGMAQAL   94 (368)
T ss_dssp             TCEEEEEESTTSSHHHHH-HHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHH-HHHHHHh
Confidence            467899999999999998 5666554

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=80.38  E-value=0.84  Score=40.74  Aligned_cols=23  Identities=35%  Similarity=0.264  Sum_probs=14.7

Q ss_pred             ccceeeeeccCCCCchHhHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ++..+.|.|.+|+||||++ ..+.
T Consensus         4 ~~~~I~l~G~~GsGKST~a-~~La   26 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTA-HTLH   26 (183)
T ss_dssp             -CCEEEEECCC----CHHH-HHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHH
Confidence            5677899999999999998 5554

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=80.38  E-value=0.97  Score=41.86  Aligned_cols=26  Identities=23%  Similarity=0.267  Sum_probs=21.0

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +|+-..|.|++|+||||+++..+.+.
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~   27 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIY   27 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHH
Confidence            47778899999999999997655543

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=80.38  E-value=0.82  Score=39.50  Aligned_cols=23  Identities=17%  Similarity=0.437  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..+++..
T Consensus         8 ~i~v~G~~~~GKSsli-~~l~~~~   30 (170)
T 1z0j_A            8 KVCLLGDTGVGKSSIM-WRFVEDS   30 (170)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECcCCCCHHHHH-HHHHcCC
Confidence            6789999999999997 6666543

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=80.27  E-value=0.84  Score=44.02  Aligned_cols=25  Identities=36%  Similarity=0.409  Sum_probs=19.9

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ...++|.|++|||||++| ..++++.
T Consensus        64 ~~~vLl~G~~GtGKT~la-~~ia~~~   88 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALA-AKIAEES   88 (272)
T ss_dssp             EEEEEEECSTTSSHHHHH-HHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHH-HHHHHHh
Confidence            346789999999999998 5666553

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=80.21  E-value=0.95  Score=41.15  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=19.9

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|..+.|.|++|+||||++ ..+..
T Consensus         3 ~~~~I~l~G~~GsGKsT~~-~~L~~   26 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQC-MNIME   26 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHH-HHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHH-HHHHH
Confidence            5778899999999999998 55543

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=80.19  E-value=0.89  Score=43.89  Aligned_cols=25  Identities=28%  Similarity=0.408  Sum_probs=20.3

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +..++|.|++|||||+++ ..+++..
T Consensus        50 ~~~vll~G~~GtGKT~la-~~la~~l   74 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIA-RRLAKLA   74 (310)
T ss_dssp             CCCEEEECCTTSSHHHHH-HHHHHHH
T ss_pred             CceEEEECCCCCCHHHHH-HHHHHHh
Confidence            456899999999999998 5666554

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=80.18  E-value=0.96  Score=39.59  Aligned_cols=22  Identities=27%  Similarity=0.598  Sum_probs=18.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..+.+.
T Consensus         8 ki~v~G~~~~GKssl~-~~l~~~   29 (178)
T 2hxs_A            8 KIVVLGDGASGKTSLT-TCFAQE   29 (178)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHGG
T ss_pred             EEEEECcCCCCHHHHH-HHHHhC
Confidence            6789999999999997 666644

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=80.09  E-value=0.46  Score=49.33  Aligned_cols=31  Identities=19%  Similarity=0.392  Sum_probs=24.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.+...-+|+..+|+|++|+|||||+ ..|+.
T Consensus       207 ~~L~~~~~G~~~~lvG~sG~GKSTLl-n~L~g  237 (358)
T 2rcn_A          207 KPLEEALTGRISIFAGQSGVGKSSLL-NALLG  237 (358)
T ss_dssp             HHHHHHHTTSEEEEECCTTSSHHHHH-HHHHC
T ss_pred             HHHHHhcCCCEEEEECCCCccHHHHH-HHHhc
Confidence            44445568999999999999999997 66653

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=80.04  E-value=0.85  Score=39.90  Aligned_cols=22  Identities=23%  Similarity=0.604  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +++++|++|+|||+|+ ..+.+.
T Consensus         9 ~i~v~G~~~~GKSsli-~~l~~~   30 (177)
T 1wms_A            9 KVILLGDGGVGKSSLM-NRYVTN   30 (177)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHcC
Confidence            6789999999999997 666644

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	539
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	2e-92
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	8e-33
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	3e-04
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	9e-75
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	1e-27
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	0.002
d1fx0a3	276	c.37.1.11 (A:97-372) Central domain of alpha subun	5e-72
d1fx0a3	276	c.37.1.11 (A:97-372) Central domain of alpha subun	1e-31
d1fx0a3	276	c.37.1.11 (A:97-372) Central domain of alpha subun	9e-04
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	1e-38
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	3e-12
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	4e-08
d1skyb2	75	b.49.1.1 (B:21-95) F1 ATP synthase alpha subunit,	4e-12
d2jdia2	71	b.49.1.1 (A:24-94) F1 ATP synthase alpha subunit,	5e-12
d1fx0a2	72	b.49.1.1 (A:25-96) F1 ATP synthase alpha subunit,	4e-11

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]} Length = 285

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  282 bits (722), Expect = 2e-92
 Identities = 213/331 (64%), Positives = 225/331 (67%), Gaps = 90/331 (27%)

Query: 183 RLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLA 242
           R+     +  GIKAVDSLVPIGRGQRELIIGDRQTGKT++AIDTIINQK           
Sbjct: 45  RISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDG------ 98

Query: 243 PYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKR 302
                                             DEKKKLYCIYVAIGQKRSTVAQ+VKR
Sbjct: 99  ---------------------------------TDEKKKLYCIYVAIGQKRSTVAQLVKR 125

Query: 303 LTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR 362
           LTD+ AM YTI+VSATASDAAPLQYLAPYSGC+MGE+FRDNGKHALIIYDDLSKQAVAYR
Sbjct: 126 LTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYR 185

Query: 363 QMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIP 422
           QMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGDVSAYIP
Sbjct: 186 QMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIP 245

Query: 423 TNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVG 482
           TNVISITDGQIFLETELFYK                                        
Sbjct: 246 TNVISITDGQIFLETELFYK---------------------------------------- 265

Query: 483 EDLLGRVVDALGIRPAINVGLSVSRVGSAAQ 513
                      GIRPAINVGLSVSRVGSAAQ
Sbjct: 266 -----------GIRPAINVGLSVSRVGSAAQ 285

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]} Length = 285

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  124 bits (314), Expect = 8e-33
 Identities = 84/93 (90%), Positives = 89/93 (95%)

Query: 60  KAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGD 119
           +AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AKM++A GGGSLTALPVIETQAGD
Sbjct: 180 QAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGD 239

Query: 120 VSAYIPTNVISITDGQIFLETELFYKVDRGSIN 152
           VSAYIPTNVISITDGQIFLETELFYK  R +IN
Sbjct: 240 VSAYIPTNVISITDGQIFLETELFYKGIRPAIN 272

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]} Length = 285

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 40.6 bits (95), Expect = 3e-04
 Identities = 17/18 (94%), Positives = 18/18 (100%)

Query: 477 VDVPVGEDLLGRVVDALG 494
           VDVPVGE+LLGRVVDALG
Sbjct: 1   VDVPVGEELLGRVVDALG 18

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  236 bits (603), Expect = 9e-75
 Identities = 55/334 (16%), Positives = 98/334 (29%), Gaps = 108/334 (32%)

Query: 182 RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYL 241
              ++  +L  GIK VD L P  +G +  + G    GKT L ++ I N    +       
Sbjct: 44  EMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGG----- 98

Query: 242 APYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVK 301
                                                    Y ++  +G++      +  
Sbjct: 99  -----------------------------------------YSVFAGVGERTREGNDLYH 117

Query: 302 RLTDSG------AMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDL 354
            + +SG      A     +V    ++    +     +G  + E+FRD  G+  L+  D++
Sbjct: 118 EMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNI 177

Query: 355 SKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQA 414
            +   A  ++S LL R P    Y   +      + ER          GS+T++  I   A
Sbjct: 178 FRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT----KKGSITSVQAIYVPA 233

Query: 415 GDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTG 474
            D++   P    +  D    L   +                                   
Sbjct: 234 DDLTDPAPATTFAHLDATTVLSRAIAEL-------------------------------- 261

Query: 475 AIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRV 508
                              GI PA++   S SR+
Sbjct: 262 -------------------GIYPAVDPLDSTSRI 276

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  109 bits (275), Expect = 1e-27
 Identities = 18/92 (19%), Positives = 32/92 (34%), Gaps = 4/92 (4%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
             A  ++S LL R P    Y   +      + ER          GS+T++  I   A D+
Sbjct: 181 TQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTT----KKGSITSVQAIYVPADDL 236

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSIN 152
           +   P    +  D    L   +       +++
Sbjct: 237 TDPAPATTFAHLDATTVLSRAIAELGIYPAVD 268

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 37.8 bits (88), Expect = 0.002
 Identities = 7/16 (43%), Positives = 13/16 (81%)

Query: 479 VPVGEDLLGRVVDALG 494
           +PVG + LGR+++ +G
Sbjct: 3   IPVGPETLGRIMNVIG 18

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

 Score =  229 bits (584), Expect = 5e-72
 Identities = 165/332 (49%), Positives = 193/332 (58%), Gaps = 98/332 (29%)

Query: 182 RRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYL 241
            R   Y  L  G+ A+D+++P+GRGQRELIIGDRQTGKTA+A DTI+NQ+          
Sbjct: 43  SRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQG--------- 93

Query: 242 APYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVK 301
                                                 + + C+YVAIGQK S+VAQ+V 
Sbjct: 94  --------------------------------------QNVICVYVAIGQKASSVAQVVT 115

Query: 302 RLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAY 361
              + GAM YTI+V+ TA   A LQYLAPY+G A+ E+F    +H LIIYDDLSKQA AY
Sbjct: 116 NFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAY 175

Query: 362 RQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYI 421
           RQMSLLLRRPPGREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDVSAYI
Sbjct: 176 RQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYI 235

Query: 422 PTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPV 481
           PTNVISITDGQIFL  +LF                                         
Sbjct: 236 PTNVISITDGQIFLSADLFNA--------------------------------------- 256

Query: 482 GEDLLGRVVDALGIRPAINVGLSVSRVGSAAQ 513
                       GIRPAINVG+SVSRVGSAAQ
Sbjct: 257 ------------GIRPAINVGISVSRVGSAAQ 276

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

 Score =  121 bits (304), Expect = 1e-31
 Identities = 73/92 (79%), Positives = 80/92 (86%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AYRQMSLLLRRPPGREAYPGDVFYLHSRLLER+AK+S   G GS+TALP++ETQAGDV
Sbjct: 172 AQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDV 231

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSIN 152
           SAYIPTNVISITDGQIFL  +LF    R +IN
Sbjct: 232 SAYIPTNVISITDGQIFLSADLFNAGIRPAIN 263

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 276

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

 Score = 39.1 bits (91), Expect = 9e-04
 Identities = 9/16 (56%), Positives = 12/16 (75%)

Query: 479 VPVGEDLLGRVVDALG 494
           +PV E  LGRV++AL 
Sbjct: 2   IPVSEAYLGRVINALA 17

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]} Length = 289

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

 Score =  140 bits (355), Expect = 1e-38
 Identities = 33/252 (13%), Positives = 72/252 (28%), Gaps = 55/252 (21%)

Query: 193 GIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEF 252
             + +D   PIGRGQR LI+   + GKT L  +   +                       
Sbjct: 30  TARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIA--------------------- 68

Query: 253 FRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYT 312
                                           + + I ++   V ++ + +         
Sbjct: 69  ------------------------YNHPDCVLMVLLIDERPEEVTEMQRLV-------KG 97

Query: 313 IIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPP 372
            +V++T  + A              +   ++ K  +I+ D +++ A AY  +     +  
Sbjct: 98  EVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVL 157

Query: 373 GREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQ 432
                  +  +   R     A+  E  GG        +      +   I        + +
Sbjct: 158 -TGGVDANALHRPKRFFGA-ARNVE-EGGSLTIIATALIDTGSKMDEVIYEEFKGTGNME 214

Query: 433 IFLETELFYKGM 444
           + L  ++  K +
Sbjct: 215 LHLSRKIAEKRV 226

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]} Length = 289

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

 Score = 65.0 bits (158), Expect = 3e-12
 Identities = 18/125 (14%), Positives = 35/125 (28%), Gaps = 8/125 (6%)

Query: 61  AVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDV 120
           A AY  +     +         +  +   R     A+  E  GG        +      +
Sbjct: 143 ARAYNTVVPASGKVL-TGGVDANALHRPKRFFGA-ARNVE-EGGSLTIIATALIDTGSKM 199

Query: 121 SAYIPTNVISITDGQIFLETELFYKVDRGSINCGQLIIGDRQTGKTALAIDTIINQKRKK 180
              I        + ++ L  ++  K    +I+          T K  L       QK   
Sbjct: 200 DEVIYEEFKGTGNMELHLSRKIAEKRVFPAID-----YNRSGTRKEELLTTQEELQKMWI 254

Query: 181 RRRLL 185
            R+++
Sbjct: 255 LRKII 259

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]} Length = 289

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

 Score = 52.7 bits (126), Expect = 4e-08
 Identities = 19/128 (14%), Positives = 37/128 (28%), Gaps = 21/128 (16%)

Query: 151 INCGQ--LIIGDRQTGKTALAIDTIINQKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQR 208
           I  GQ  LI+   + GKT L  +   +                     V  ++ I     
Sbjct: 40  IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN-------------HPDCVLMVLLIDERPE 86

Query: 209 ELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLS 268
           E      +  +       ++       A              +   ++ K  +I+ D ++
Sbjct: 87  E----VTEMQRLVKGE--VVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSIT 140

Query: 269 KQAVAYRQ 276
           + A AY  
Sbjct: 141 RLARAYNT 148

>d1skyb2 b.49.1.1 (B:21-95) F1 ATP synthase alpha subunit, domain 1 {Bacillus sp., strain ps3 [TaxId: 1409]} Length = 75

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Bacillus sp., strain ps3 [TaxId: 1409]

 Score = 59.7 bits (145), Expect = 4e-12
 Identities = 22/36 (61%), Positives = 27/36 (75%)

Query: 442 KGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIV 477
            GMALNLE +NVG+V+ G    IKEGD V+RTG I+
Sbjct: 40  MGMALNLEENNVGIVILGPYTGIKEGDEVRRTGRIM 75

>d2jdia2 b.49.1.1 (A:24-94) F1 ATP synthase alpha subunit, domain 1 {Cow (Bos taurus) [TaxId: 9913]} Length = 71

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 58.9 bits (143), Expect = 5e-12
 Identities = 39/64 (60%), Positives = 43/64 (67%), Gaps = 12/64 (18%)

Query: 425 VISITDGQI------------FLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKR 472
           V+SI DG               +E     KGM+LNLEPDNVGVVVFGND+LIKEGDIVKR
Sbjct: 8   VLSIGDGIARVHGLRNVQAEEMVEFSSGLKGMSLNLEPDNVGVVVFGNDKLIKEGDIVKR 67

Query: 473 TGAI 476
           TGAI
Sbjct: 68  TGAI 71

>d1fx0a2 b.49.1.1 (A:25-96) F1 ATP synthase alpha subunit, domain 1 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 72

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

 Score = 56.6 bits (137), Expect = 4e-11
 Identities = 20/34 (58%), Positives = 26/34 (76%)

Query: 443 GMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAI 476
           G+ALNLE +NVGVV+ G+  +I+EG  VK TG I
Sbjct: 38  GIALNLESNNVGVVLMGDGLMIQEGSSVKATGRI 71

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	539
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	100.0
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	100.0
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	100.0
d1xpua3	289	Transcription termination factor Rho, ATPase domai	100.0
d1skyb2	75	F1 ATP synthase alpha subunit, domain 1 {Bacillus	99.26
d1fx0a2	72	F1 ATP synthase alpha subunit, domain 1 {Spinach (	99.25
d2jdia2	71	F1 ATP synthase alpha subunit, domain 1 {Cow (Bos	99.24
d1skyb2	75	F1 ATP synthase alpha subunit, domain 1 {Bacillus	98.37
d2jdia2	71	F1 ATP synthase alpha subunit, domain 1 {Cow (Bos	98.36
d1fx0a2	72	F1 ATP synthase alpha subunit, domain 1 {Spinach (	98.35
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.73
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.32
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.03
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.95
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.74
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.58
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.55
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.33
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.18
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.99
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.98
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.68
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	95.53
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.78
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	94.12
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	93.57
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	93.44
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.36
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	93.12
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.02
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	92.8
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	92.49
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.4
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.35
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	92.31
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.05
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	91.9
d2awna2	232	Maltose transport protein MalK, N-terminal domain	91.71
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.7
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	91.7
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	91.6
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	91.59
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	91.56
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	91.35
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	91.32
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	91.31
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	91.25
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	90.78
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	90.6
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	90.42
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	90.35
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	90.35
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	90.35
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	90.33
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	90.33
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	90.32
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	90.3
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	90.19
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	90.17
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	89.98
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	89.88
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	89.77
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	89.74
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	89.71
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.2
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	89.2
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	89.03
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	88.99
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	88.68
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	88.66
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	88.56
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	88.4
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	88.23
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	88.17
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	87.94
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	87.83
d1nrjb_	209	Signal recognition particle receptor beta-subunit	87.64
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	87.57
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	87.4
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	87.22
d1fx0b2	79	F1 ATP synthase beta subunit, domain 1 {Spinach (S	87.11
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	86.98
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	86.91
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	86.74
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	86.67
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	86.67
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	86.6
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	86.37
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	86.37
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	86.34
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	86.21
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	85.67
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	85.67
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	85.56
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	85.53
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	85.51
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	85.41
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	85.36
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	85.31
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	85.3
d1skye2	82	F1 ATP synthase beta subunit, domain 1 {Bacillus s	85.16
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	85.1
d2jdid2	72	F1 ATP synthase beta subunit, domain 1 {Rat (Rattu	85.0
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	84.96
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	84.87
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	84.84
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.77
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	84.77
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	84.67
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	84.6
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	84.44
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	84.42
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	84.41
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	84.38
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	84.33
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	84.32
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	84.15
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	84.05
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	84.05
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	83.91
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	83.86
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	83.82
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	83.75
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	83.64
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	83.17
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	83.16
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	83.16
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	82.87
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	82.86
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	82.78
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	82.72
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	82.69
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	82.66
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	82.64
d1okkd2	207	GTPase domain of the signal recognition particle r	82.41
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	82.29
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	81.93
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	81.86
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	81.85
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	81.79
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	81.69
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	81.64
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	81.59
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	81.58
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	81.33
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	81.26
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	81.08
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	80.97
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	80.94
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	80.93
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	80.91
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	80.68
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	80.52
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	80.43
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	80.24
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	80.2

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1e-85  Score=666.03  Aligned_cols=279  Identities=79%  Similarity=1.144  Sum_probs=256.1

Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCc
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGK  219 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGK  219 (539)
                      +||||++|||||+  +|+||||++++..++.++   .++++..|..+++||.||||+||+|+|||||||++|||++|+||
T Consensus         2 ~VPVG~~lLGRVid~~G~piDg~~~~~~~~~~~i~~~~p~~~~R~~i~e~l~TGIraID~l~pig~GQr~~If~~~g~GK   81 (285)
T d2jdia3           2 DVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGK   81 (285)
T ss_dssp             EEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESSCCCCCSTTBCCCCSBCCCSCHHHHHHSCCBTTCBCEEEESTTSSH
T ss_pred             ccccCcCccCcEECCCccccCCCCCCCCCccccccCCCcCchhccCCCcccccCceEEecccCccCCCEEEeecCCCCCh
Confidence            6899999999999  999999999887655332   12333333344999999999999999999999999999999999


Q ss_pred             hHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHH
Q psy13776        220 TALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI  299 (539)
Q Consensus       220 TtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~  299 (539)
                      |+|+++++.||+...                    +                   ..+++++++|||++||||++|+.+|
T Consensus        82 t~ll~~~~~~~~~~~--------------------~-------------------~~~~~~~~~~v~~~IGer~~E~~e~  122 (285)
T d2jdia3          82 TSIAIDTIINQKRFN--------------------D-------------------GTDEKKKLYCIYVAIGQKRSTVAQL  122 (285)
T ss_dssp             HHHHHHHHHHTHHHH--------------------T-------------------SSCTTTCCEEEEEEESCCHHHHHHH
T ss_pred             HHHHHHHHHhHHhhc--------------------c-------------------ccccccceEEEEeeeCccHHHHHHH
Confidence            999999999887540                    0                   1123456899999999999999999


Q ss_pred             HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCC
Q psy13776        300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPG  379 (539)
Q Consensus       300 ~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg  379 (539)
                      ++.+++.++++||++|++|+|+||.+|+++||+|||+||||||+|||||+++|||||||+|+||||+++||||+++||||
T Consensus       123 ~~~~~~~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A~A~rEis~~~ge~p~~~gyp~  202 (285)
T d2jdia3         123 VKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPG  202 (285)
T ss_dssp             HHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCT
T ss_pred             HHHhcccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHHHHHHHHHHhcCCCCCcCCcCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEec
Q psy13776        380 DVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFG  459 (539)
Q Consensus       380 ~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~  459 (539)
                      ++|+.|++|+||||++++..++||||+||+|++|+||++|||||++++|+||||+|||+||++|                
T Consensus       203 ~~~~~~~~l~ERag~~~~~~~~GSiT~i~~v~~~~dD~tdpI~~~~~~i~dg~ivLsr~la~~g----------------  266 (285)
T d2jdia3         203 DVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG----------------  266 (285)
T ss_dssp             THHHHHHHHHTTCCBBCGGGTCCEEEEEEEEECSTTCTTSHHHHHHHHHSSEEEEBCHHHHHHT----------------
T ss_pred             hHHHHHHHHHHHHhcccCCCCCeeEEEEEEEEecCCCCCCchhHHHHhhcCcEEEEcHHHHhcC----------------
Confidence            9999999999999998876779999999999999999999999999999999999999999999                


Q ss_pred             ccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhh
Q psy13776        460 NDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQ  513 (539)
Q Consensus       460 ~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~  513 (539)
                                                         +|||||++.|+||+|+++|
T Consensus       267 -----------------------------------~yPAID~l~S~SR~~~~~q  285 (285)
T d2jdia3         267 -----------------------------------IRPAINVGLSVSRVGSAAQ  285 (285)
T ss_dssp             -----------------------------------CSSCBCTTTCEESSGGGGS
T ss_pred             -----------------------------------CCCCcCCcccccccCcccC
Confidence                                               7999999999999999997

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=100.00  E-value=5e-85  Score=658.38  Aligned_cols=271  Identities=62%  Similarity=0.958  Sum_probs=251.8

Q ss_pred             cccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCCc
Q psy13776        145 KVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGK  219 (539)
Q Consensus       145 ~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtGK  219 (539)
                      +||||++|||||+  +|+|+||++++..++.++   .++++..|..+++||+||||+||+|+|||||||++|||++|+||
T Consensus         1 qvPvg~~llGRv~d~~G~piDg~~~~~~~~~~~i~~~~p~~~~R~~~~~~l~TGi~~ID~l~pig~GQr~~Ifg~~g~GK   80 (276)
T d1fx0a3           1 QIPVSEAYLGRVINALAKPIDGRGEITASESRLIESPAPGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGK   80 (276)
T ss_dssp             EEEESSSCSSCCCCSSSCCSSSSCCCCCSEEEESSCCCCCSSSBCCCCSBCCCSCTTTTTTSCCBTTCBCBEEESSSSSH
T ss_pred             CCCCCccccccEeCCCccccCCCCCCCCCccccccCCCcChhhccCCCccccccceEEeccccccCCceEeeccCCCCCh
Confidence            5899999999999  999999999887655432   22333333334999999999999999999999999999999999


Q ss_pred             hHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHH
Q psy13776        220 TALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQI  299 (539)
Q Consensus       220 TtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~  299 (539)
                      |+|++++++|+...                                               .++|||++||||++|+.+|
T Consensus        81 t~l~~~~~~~~~~~-----------------------------------------------~~v~V~~~iGer~~Ev~e~  113 (276)
T d1fx0a3          81 TAVATDTILNQQGQ-----------------------------------------------NVICVYVAIGQKASSVAQV  113 (276)
T ss_dssp             HHHHHHHHHTCCTT-----------------------------------------------TCEEEEEEESCCHHHHHHH
T ss_pred             HHHHHHHHhhhccc-----------------------------------------------CceeeeeeecchhHHHHHH
Confidence            99998877765432                                               3689999999999999999


Q ss_pred             HHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHhHHhhhccCCCCCCCCCCC
Q psy13776        300 VKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPG  379 (539)
Q Consensus       300 ~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~Reisl~lgepP~r~gyPg  379 (539)
                      ++++++.++++||++|++++|+|+.+|+++||+|+++||||||+|||||+++|||||||+||||||+++||||+++||||
T Consensus       114 ~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~Vlll~Dsltr~A~A~rEis~~~ge~p~~~gyp~  193 (276)
T d1fx0a3         114 VTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPG  193 (276)
T ss_dssp             HHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCS
T ss_pred             HHhhccCCcceeeeecccccCccHHHHHHHHHHHHHHHHHHHHcCCceeEEeeccHHHHHHHHHHHHHcCCCCCcCCcCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEec
Q psy13776        380 DVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFG  459 (539)
Q Consensus       380 ~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~  459 (539)
                      ++|+.|++|+||||++.+.+++||||+|++|++|+||++||||+++++|+||||+|||+||++|                
T Consensus       194 ~~~~~~~~l~ERag~~~~~~~~GSIT~i~~v~~~~~d~~dpi~~~~~~~~dg~i~Lsr~la~~g----------------  257 (276)
T d1fx0a3         194 DVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAG----------------  257 (276)
T ss_dssp             CSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTCTTSHHHHHHHTTSSCBCCCCSSSSSSS----------------
T ss_pred             hHHHHHHHHHHHHhccccCCCCcceEEEEEEEecCCCcCcchHHHHHhhcCeEEEECHHHHhCC----------------
Confidence            9999999999999999887789999999999999999999999999999999999999999999                


Q ss_pred             ccccccccceeeeccceeecccccccchhhccccCCCccccccccccccCchhh
Q psy13776        460 NDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSVSRVGSAAQ  513 (539)
Q Consensus       460 ~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~sr~~~~~~  513 (539)
                                                         +|||||+++|+||+|+++|
T Consensus       258 -----------------------------------~~PAId~l~S~SR~~~~aq  276 (276)
T d1fx0a3         258 -----------------------------------IRPAINVGISVSRVGSAAQ  276 (276)
T ss_dssp             -----------------------------------CSSCCCTTTCCCTTGGGGS
T ss_pred             -----------------------------------CCCCcCCCccccccCcccC
Confidence                                               7999999999999999987

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=5.1e-83  Score=643.06  Aligned_cols=250  Identities=21%  Similarity=0.352  Sum_probs=226.8

Q ss_pred             ccccCCCcccceeE--eeeccCCCCCcccchhcc---ccccccccccccccccccceeeeeeeeccccceeeeeccCCCC
Q psy13776        144 YKVDRGSINCGQLI--IGDRQTGKTALAIDTIIN---QKRKKRRRLLKYNLLSAGIKAVDSLVPIGRGQRELIIGDRQTG  218 (539)
Q Consensus       144 ~~VpVG~~LLGRVv--lG~PiDgk~~i~~~~~~~---~~~~~r~ri~~~epl~TGIraID~l~pIGrGQR~lI~g~~gtG  218 (539)
                      ++||||++|||||+  +|+|+||++++...+.++   .++++..|..+++||+||||+||+|+|||||||++|||++|+|
T Consensus         1 l~vpVG~~lLGRVid~lG~piDg~~~i~~~~~~~i~~~~p~~~~R~~i~~~l~TGIraID~l~pigkGQr~~If~~~g~G   80 (276)
T d2jdid3           1 IRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVG   80 (276)
T ss_dssp             CEEECSGGGBTCEECTTSCBCSSSCCCCCSCEEESCCCCCCGGGCCCCCCEECCSCHHHHHHSCEETTCEEEEEECTTSS
T ss_pred             CeeecCccccCCEeCCCcceeCCCCCCCCcccccccCCCCChhHhcCCCcccccCceeeeeeccccCCCEEEeeCCCCCC
Confidence            47999999999999  999999999987665433   2233344444599999999999999999999999999999999


Q ss_pred             chHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEEeeccchhHHHH
Q psy13776        219 KTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQ  298 (539)
Q Consensus       219 KTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e  298 (539)
                      ||+|+.+++.|+...                                              +..+|||++||||++|+++
T Consensus        81 Kt~l~~~i~~~~~~~----------------------------------------------~~~v~V~~~iGer~~ev~~  114 (276)
T d2jdid3          81 KTVLIMELINNVAKA----------------------------------------------HGGYSVFAGVGERTREGND  114 (276)
T ss_dssp             HHHHHHHHHHHHTTT----------------------------------------------CSSEEEEEEESCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhh----------------------------------------------CCCeEEEEEeccChHHHHH
Confidence            999997777664322                                              1347999999999999999


Q ss_pred             HHHHHhcCC------CCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC-CCcEEEEecChhHHHHHhHHhhhccCCC
Q psy13776        299 IVKRLTDSG------AMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYRQMSLLLRRP  371 (539)
Q Consensus       299 ~~~~l~~~~------~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~-GkdVLli~DslTr~A~A~Reisl~lgep  371 (539)
                      |++++.+.+      +++||++|++|+|+||.+|+++||+||++||||||+ |+|||+++|||||||+||||+|+++|||
T Consensus       115 ~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A~A~reis~~~ge~  194 (276)
T d2jdid3         115 LYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRI  194 (276)
T ss_dssp             HHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCC
T ss_pred             HHHHHHhcCccccccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHHHHHHHHHHHhcCCC
Confidence            999998754      567999999999999999999999999999999975 9999999999999999999999999999


Q ss_pred             CCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeCCCcCCccccccccccceeEEeehhHHhcc
Q psy13776        372 PGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKG  443 (539)
Q Consensus       372 P~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~~D~s~pIp~~~~sitDGqIvLsr~La~~g  443 (539)
                      |+++||||++|+.|++|+|||++.    ++||||+||+|++|+||++||||||++|||||||+|||+||++|
T Consensus       195 p~~~gyp~~l~~~~~~l~ERag~~----~~GSIT~i~~v~~~~~d~~dpi~~~~~sitdg~i~Lsr~la~~g  262 (276)
T d2jdid3         195 PSAVGYQPTLATDMGTMQERITTT----KKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELG  262 (276)
T ss_dssp             CCGGGCCTTHHHHHHHHHTTSSCC----SSCCEEEEEEEECGGGCTTSHHHHHHGGGCSEEEEBCHHHHTTT
T ss_pred             CCcccCchhHHHHHHHHHHhhccC----CCcccceEEEEEccCCCCCCcchHHHHhhcceEEEECHHHHhCC
Confidence            999999999999999999999974    47999999999999999999999999999999999999999999

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=1.5e-67  Score=533.07  Aligned_cols=241  Identities=17%  Similarity=0.191  Sum_probs=214.1

Q ss_pred             cccccccceeeeeeeeccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhh
Q psy13776        187 YNLLSAGIKAVDSLVPIGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDD  266 (539)
Q Consensus       187 ~epl~TGIraID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~  266 (539)
                      .+++.||+|+||+|+|||||||++|||++|+|||+|+.+++.|++..                                 
T Consensus        24 ~~~~~~~~r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~---------------------------------   70 (289)
T d1xpua3          24 GSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYN---------------------------------   70 (289)
T ss_dssp             CCSTHHHHHHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHH---------------------------------
T ss_pred             CCcccccceeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhc---------------------------------
Confidence            55788999999999999999999999999999999985444444321                                 


Q ss_pred             hhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCc
Q psy13776        267 LSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKH  346 (539)
Q Consensus       267 ~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~Gkd  346 (539)
                                  +..++||+++||||++|+.+|.+..       +++||++|+|+||.+|+++||+|+++||||||+|+|
T Consensus        71 ------------~~~~v~~~~~iger~~ev~~~~~~~-------~~~vv~~t~d~~~~~r~~~~~~a~~iAEyfrd~G~d  131 (289)
T d1xpua3          71 ------------HPDCVLMVLLIDERPEEVTEMQRLV-------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKD  131 (289)
T ss_dssp             ------------CTTSEEEEEEEEECHHHHHHHHHHC-------SSEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCE
T ss_pred             ------------CCCeEEEEEeeceeHHHHHhHHhhc-------ceEEEeccCCCchhHHHHHHHHHHHHHHHHHHhccC
Confidence                        1346888999999999999998754       679999999999999999999999999999999999


Q ss_pred             EEEEecChhHHHHHhHHhhhccCCCCCCCCCCCchhhchhHHHHhhhcccCCCCCccceeeeEEEeeC-CCcCCcccccc
Q psy13776        347 ALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERSAKMSEAHGGGSLTALPVIETQA-GDVSAYIPTNV  425 (539)
Q Consensus       347 VLli~DslTr~A~A~Reisl~lgepP~r~gyPg~vf~~~srLlERag~~~~~~g~GSITal~~v~~~~-~D~s~pIp~~~  425 (539)
                      ||+++||+||||+||||||+++||||+ +||||++|+.+++|+|||++++   ++||||++++++++. ||++|||||++
T Consensus       132 VLli~Dsltr~A~A~rEis~~~ge~p~-~gyp~~~~~~~~~l~era~~~~---~gGsit~~~~~~~~~~dd~~~pI~~~~  207 (289)
T d1xpua3         132 VIILLDSITRLARAYNTVVPASGKVLT-GGVDANALHRPKRFFGAARNVE---EGGSLTIIATALIDTGSKMDEVIYEEF  207 (289)
T ss_dssp             EEEEESCHHHHHHHHHHHSCC---CBS-SSSBTTTTHHHHHHHHTCEECT---TSCEEEEEEEEECSSSCHHHHHHHHHH
T ss_pred             ceeecCcHHHHHHHHHHHHhhccCCCc-CCcChhhhhhhHHHHHhccCCC---CCCcceEEEEEeecCCCccCchHHHHH
Confidence            999999999999999999999999996 7999999999999999999875   479999999999985 57999999999


Q ss_pred             ccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccceeecccccccchhhccccCCCccccccccc
Q psy13776        426 ISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIVDVPVGEDLLGRVVDALGIRPAINVGLSV  505 (539)
Q Consensus       426 ~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~l~~v~~~lg~~Pai~v~~s~  505 (539)
                      ++|+||||+|||+||++|                                                   +|||||++.|+
T Consensus       208 ~~i~dg~ivLsr~la~~g---------------------------------------------------~~PAId~~~S~  236 (289)
T d1xpua3         208 KGTGNMELHLSRKIAEKR---------------------------------------------------VFPAIDYNRSG  236 (289)
T ss_dssp             TTTSSEEEEBCHHHHTTT---------------------------------------------------CSSCBCTTTCE
T ss_pred             hcccCeEEEEchhHHhCC---------------------------------------------------CCCCCccCCcc
Confidence            999999999999999999                                                   79999999999


Q ss_pred             cccCchhhhHHH-HHhhhhhhHHHHHHHhh
Q psy13776        506 SRVGSAAQTRAM-KQTGKIRSWNGWLSLLK  534 (539)
Q Consensus       506 sr~~~~~~~~~~-~~~~~~r~~~~~~~~~~  534 (539)
                      ||+++..++++| +.+..+|+++..++.|+
T Consensus       237 SR~~~~l~~~~~~~~~~~lRr~l~~~~~~~  266 (289)
T d1xpua3         237 TRKEELLTTQEELQKMWILRKIIHPMGEID  266 (289)
T ss_dssp             ESCGGGGSCHHHHHHHHHHHHHHTTSCHHH
T ss_pred             cccchhhCCHHHHHHHHHHHHHHHhcchHH
Confidence            999999999999 88889999554444443

>d1skyb2 b.49.1.1 (B:21-95) F1 ATP synthase alpha subunit, domain 1 {Bacillus sp., strain ps3 [TaxId: 1409]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Bacillus sp., strain ps3 [TaxId: 1409]

Probab=99.26  E-value=2.2e-12  Score=104.50  Aligned_cols=65  Identities=22%  Similarity=0.097  Sum_probs=63.2

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      ++.|.+.+|||+    +||+++   +++|+|.|+++.+|+++||++   |.+++++|+++..|++|+.|++||+.
T Consensus         6 ~e~G~V~~V~DGIA~v~GL~~a---~~gElv~F~~g~~GlvlnLe~---d~VgvVllg~~~~i~~G~~V~rTg~v   74 (75)
T d1skyb2           6 SDVGTVIQVGDGIARAHGLDNV---MSGEAVEFANAVMGMALNLEE---NNVGIVILGPYTGIKEGDEVRRTGRI   74 (75)
T ss_dssp             GGEEEEEEEETTEEEEEECTTC---CTTEEEEETTSCEEEEEEEET---TEEEEEESSCCSSCCTTCEEEEEEEE
T ss_pred             EEeEEEEEEcCcEEEEECCccc---ccCCeEEeCCCCEEEEEeccC---cEEEEEEECCCCcccCCCEEEecccc
Confidence            789999999999    899999   999999999999999999999   99999999999999999999999985

>d1fx0a2 b.49.1.1 (A:25-96) F1 ATP synthase alpha subunit, domain 1 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=99.25  E-value=2.3e-12  Score=103.60  Aligned_cols=65  Identities=18%  Similarity=0.135  Sum_probs=63.0

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      +++|.+.+|||+    +||+++   +++|+|.|+++.+|+++||++   |.+++++|+++..+++|+.|++||+.
T Consensus         3 ~~~G~V~~VgDGIa~V~GL~~~---~~~Elv~F~~g~~G~alnLe~---d~VgvVllg~~~~i~~G~~V~rTG~v   71 (72)
T d1fx0a2           3 VNTGTVLQVGDGIARIHGLDEV---MAGELVEFEEGTIGIALNLES---NNVGVVLMGDGLMIQEGSSVKATGRI   71 (72)
T ss_dssp             TTEEEECCCCSSEEEEEECTTC---CTTCCEEETTCCEEEEEEECS---SEEEEEECSCGGGCCTTCEEECCCCC
T ss_pred             eEEEEEEEecCcEEEEeCCccc---ccCCEEEeCCCCeEEEEeccC---CEEEEEEECCCCccCCCCEEEecccc
Confidence            689999999999    899999   999999999999999999999   99999999999999999999999985

>d2jdia2 b.49.1.1 (A:24-94) F1 ATP synthase alpha subunit, domain 1 {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.24  E-value=3e-12  Score=102.68  Aligned_cols=65  Identities=23%  Similarity=0.197  Sum_probs=62.7

Q ss_pred             ccCceeeecCCe----eEEccchhhhhcccccccCCeEEEEEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776         73 RPPGREAYPGDV----FYLHSRLLERSAKMSEAHGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus        73 e~~G~v~~IGDg----~gL~~~~~~~~gEVV~f~~g~~G~vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      +++|.+.+|||+    +||+++   +++|+|.|+++.+|+++||++   |.+++++|+++..+++|++|++||+.
T Consensus         3 ~e~G~V~~VgDGIA~V~GL~~a---~~~Elv~F~~g~~GlalnL~e---~~VgvVllg~~~~i~eG~~V~rTG~v   71 (71)
T d2jdia2           3 EETGRVLSIGDGIARVHGLRNV---QAEEMVEFSSGLKGMSLNLEP---DNVGVVVFGNDKLIKEGDIVKRTGAI   71 (71)
T ss_dssp             TTEEEEEEEETTEEEEEECTTC---BTTCEEEETTSCEEEEEEECS---SCEEEEESSCGGGCCTTCEEECCCCC
T ss_pred             ceEEEEEEEcCcEEEEECCccc---ccCCEEEECCCCEEEEEeecc---cEEEEEEECCCCccCCCCEEEecccC
Confidence            689999999999    899999   999999999999999999999   99999999999999999999999974

>d1skyb2 b.49.1.1 (B:21-95) F1 ATP synthase alpha subunit, domain 1 {Bacillus sp., strain ps3 [TaxId: 1409]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Bacillus sp., strain ps3 [TaxId: 1409]

Probab=98.37  E-value=2.3e-08  Score=80.55  Aligned_cols=37  Identities=59%  Similarity=0.864  Sum_probs=35.4

Q ss_pred             hccCcCCCCCCCcccEEecccccccccceeeecccee
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIV  477 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~  477 (539)
                      .+|+++|||+|+||+|+||++..|+|||.|||||+|+
T Consensus        39 ~~GlvlnLe~d~VgvVllg~~~~i~~G~~V~rTg~vl   75 (75)
T d1skyb2          39 VMGMALNLEENNVGIVILGPYTGIKEGDEVRRTGRIM   75 (75)
T ss_dssp             CEEEEEEEETTEEEEEESSCCSSCCTTCEEEEEEEES
T ss_pred             CEEEEEeccCcEEEEEEECCCCcccCCCEEEeccccC
Confidence            5699999999999999999999999999999999986

>d2jdia2 b.49.1.1 (A:24-94) F1 ATP synthase alpha subunit, domain 1 {Cow (Bos taurus) [TaxId: 9913]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.36  E-value=3.7e-08  Score=78.52  Aligned_cols=51  Identities=67%  Similarity=1.061  Sum_probs=41.7

Q ss_pred             cCCccccccccccceeEEeehhHHhccCcCCCCCCCcccEEecccccccccceeeeccce
Q psy13776        417 VSAYIPTNVISITDGQIFLETELFYKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAI  476 (539)
Q Consensus       417 ~s~pIp~~~~sitDGqIvLsr~La~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~  476 (539)
                      +++.-..++..+.+|         ..|+++|||+++||+|+||++..|+|||.|||||+|
T Consensus        21 L~~a~~~Elv~F~~g---------~~GlalnL~e~~VgvVllg~~~~i~eG~~V~rTG~v   71 (71)
T d2jdia2          21 LRNVQAEEMVEFSSG---------LKGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAI   71 (71)
T ss_dssp             CTTCBTTCEEEETTS---------CEEEEEEECSSCEEEEESSCGGGCCTTCEEECCCCC
T ss_pred             CcccccCCEEEECCC---------CEEEEEeecccEEEEEEECCCCccCCCCEEEecccC
Confidence            344444555555555         459999999999999999999999999999999986

>d1fx0a2 b.49.1.1 (A:25-96) F1 ATP synthase alpha subunit, domain 1 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 1
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=98.35  E-value=3.8e-08  Score=78.66  Aligned_cols=37  Identities=54%  Similarity=0.829  Sum_probs=34.9

Q ss_pred             hccCcCCCCCCCcccEEecccccccccceeeecccee
Q psy13776        441 YKGMALNLEPDNVGVVVFGNDRLIKEGDIVKRTGAIV  477 (539)
Q Consensus       441 ~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~t~~~~  477 (539)
                      .+|+++|||+|+||+|+||++..|+|||.|||||+|.
T Consensus        36 ~~G~alnLe~d~VgvVllg~~~~i~~G~~V~rTG~va   72 (72)
T d1fx0a2          36 TIGIALNLESNNVGVVLMGDGLMIQEGSSVKATGRIA   72 (72)
T ss_dssp             CEEEEEEECSSEEEEEECSCGGGCCTTCEEECCCCCC
T ss_pred             CeEEEEeccCCEEEEEEECCCCccCCCCEEEeccccC
Confidence            3699999999999999999999999999999999973

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=97.73  E-value=8.6e-05  Score=68.35  Aligned_cols=45  Identities=24%  Similarity=0.228  Sum_probs=38.6

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.-+.||+..+|-++.  +-+|.-..|.|++|+|||++++..+.|..
T Consensus         5 ~~ri~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~   51 (242)
T d1tf7a2           5 NVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENAC   51 (242)
T ss_dssp             CCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCccCCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4457899999999998  88999999999999999999976555543

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.32  E-value=0.00025  Score=68.87  Aligned_cols=111  Identities=18%  Similarity=0.322  Sum_probs=74.1

Q ss_pred             cccccccceeeeeeee---ccccceeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhh
Q psy13776        187 YNLLSAGIKAVDSLVP---IGRGQRELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALII  263 (539)
Q Consensus       187 ~epl~TGIraID~l~p---IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i  263 (539)
                      .+.+.||...+|.++.   +-+|+=..|+|++++|||+|++.++.++...                              
T Consensus        38 ~~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~------------------------------   87 (269)
T d1mo6a1          38 ISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA------------------------------   87 (269)
T ss_dssp             SCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHT------------------------------
T ss_pred             cceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcC------------------------------
Confidence            5678999999999885   4567788999999999999997655543321                              


Q ss_pred             hhhhhhHHHHhhhcccCceEEEEEeeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHC
Q psy13776        264 YDDLSKQAVAYRQDEKKKLYCIYVAIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDN  343 (539)
Q Consensus       264 ~d~~~~~a~~~~~~~~~~~~~Vy~~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~  343 (539)
                                       +..|||+-.=..-+  .++.+.+   |.-..-++++.+.   ..++      ++.++|.+..+
T Consensus        88 -----------------g~~~vyIDtE~~~~--~e~a~~~---GvD~d~il~~~~~---~~E~------~~~~~~~l~~~  136 (269)
T d1mo6a1          88 -----------------GGVAAFIDAEHALD--PDYAKKL---GVDTDSLLVSQPD---TGEQ------ALEIADMLIRS  136 (269)
T ss_dssp             -----------------TCEEEEEESSCCCC--HHHHHHH---TCCGGGCEEECCS---SHHH------HHHHHHHHHHT
T ss_pred             -----------------CCEEEEEECCccCC--HHHHHHh---CCCHHHeEEecCC---CHHH------HHHHHHHHHhc
Confidence                             23567664322222  2344454   2222234444332   1333      46788999999


Q ss_pred             CCcEEEEecChhHHH
Q psy13776        344 GKHALIIYDDLSKQA  358 (539)
Q Consensus       344 GkdVLli~DslTr~A  358 (539)
                      +...|||+||++-+.
T Consensus       137 ~~~~liIiDSi~al~  151 (269)
T d1mo6a1         137 GALDIVVIDSVAALV  151 (269)
T ss_dssp             TCEEEEEEECSTTCC
T ss_pred             CCCCEEEEecccccc
Confidence            999999999998766

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.03  E-value=0.00038  Score=67.39  Aligned_cols=43  Identities=30%  Similarity=0.492  Sum_probs=35.6

Q ss_pred             cccccccceeeeeeeecc---ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVPIG---RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~pIG---rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -+++.||...+|.++..|   +|.=..|+|++++|||+|++.++.+
T Consensus        35 ~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          35 VQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHH
Confidence            567999999999998755   5566699999999999999765554

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.95  E-value=0.00044  Score=66.71  Aligned_cols=45  Identities=27%  Similarity=0.397  Sum_probs=37.2

Q ss_pred             cccccccceeeeeeeecc---ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVPIG---RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~pIG---rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -+++.||...+|.++--|   +|+=..|+|++|+|||+|++.++.+..
T Consensus        32 ~~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q   79 (263)
T d1u94a1          32 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ   79 (263)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHH
Confidence            468899999999877433   778889999999999999987666543

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.74  E-value=0.00043  Score=63.25  Aligned_cols=45  Identities=27%  Similarity=0.337  Sum_probs=38.8

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -+.+.|||..+|.++-  +.+|+-..|.|++|+|||++++..+.|..
T Consensus        15 i~ri~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          15 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             CCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCeECCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            3568899999999987  77899999999999999999987666543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.58  E-value=0.00026  Score=61.57  Aligned_cols=43  Identities=26%  Similarity=0.431  Sum_probs=37.5

Q ss_pred             cccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        189 LLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       189 pl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -+.||++.+|.++.  +-+|+=..|.|++|+|||++++..++|..
T Consensus         4 ri~TG~~~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~   48 (242)
T d1n0wa_           4 QITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQ   48 (242)
T ss_dssp             EECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             EEcCCCHHHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            46799999999997  88999999999999999999976666544

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.0043  Score=56.03  Aligned_cols=45  Identities=22%  Similarity=0.268  Sum_probs=38.8

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -..+.|||..+|-++.  |-+|+-..|.|++|+|||++++..+.|+.
T Consensus        16 ~~ri~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          16 VFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             CCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             CceecCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3468999999999986  88999999999999999999976666543

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.33  E-value=0.00028  Score=63.76  Aligned_cols=43  Identities=26%  Similarity=0.420  Sum_probs=37.9

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -+++.|||..+|.++.  +-+|+-..|.|++|+|||++++..++|
T Consensus        13 ~~~i~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          13 LICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SCEECCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCeecCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            5678999999999997  779999999999999999999765544

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.18  E-value=0.00058  Score=61.31  Aligned_cols=46  Identities=20%  Similarity=0.203  Sum_probs=40.7

Q ss_pred             cccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        187 YNLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       187 ~epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ...+.||+.-+|-++.  +.+|+=..|.|++|+|||++++..++|...
T Consensus        13 ~~~i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          13 VWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             CCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             CceecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            5678999999999988  889999999999999999999877776653

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.99  E-value=0.0017  Score=58.07  Aligned_cols=42  Identities=26%  Similarity=0.411  Sum_probs=36.6

Q ss_pred             ccccccceeeeeeee--ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        188 NLLSAGIKAVDSLVP--IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       188 epl~TGIraID~l~p--IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +-+.|||..+|-++-  +-+|.-..|+|++|+|||++++..+.+
T Consensus         6 ~~i~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~   49 (242)
T d1tf7a1           6 AKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYN   49 (242)
T ss_dssp             CEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcccCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            346799999999986  789999999999999999999766554

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.98  E-value=0.00015  Score=70.87  Aligned_cols=42  Identities=21%  Similarity=0.380  Sum_probs=38.4

Q ss_pred             ccccccccccccCCCcccccccc-CcchhhhhhhhhhHHHHhh
Q psy13776        234 YAAPLQYLAPYSGCAMGEFFRDN-GKHALIIYDDLSKQAVAYR  275 (539)
Q Consensus       234 ~~~~~~~la~~~g~~~~e~~~d~-~~~~~~i~d~~~~~a~~~~  275 (539)
                      +++..+++++|++|++||||+|+ |+|+|+++||+++||.+|+
T Consensus       143 ~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A~A~r  185 (276)
T d2jdid3         143 EPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGS  185 (276)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEcchhHHHHHHH
Confidence            56778899999999999999965 9999999999999999975

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=95.68  E-value=0.00036  Score=67.95  Aligned_cols=43  Identities=63%  Similarity=0.967  Sum_probs=39.8

Q ss_pred             hccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhh
Q psy13776        233 IYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR  275 (539)
Q Consensus       233 ~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~  275 (539)
                      .+++...++++|+++++||||+|.|+|+|+++||++++|.|++
T Consensus       134 d~p~~~r~~a~~~a~tiAEyfrd~G~~Vlll~Dsltr~A~A~r  176 (276)
T d1fx0a3         134 DSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYR  176 (276)
T ss_dssp             TSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHcCCceeEEeeccHHHHHHHH
Confidence            3567788999999999999999999999999999999999975

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=95.53  E-value=0.00031  Score=68.77  Aligned_cols=43  Identities=91%  Similarity=1.436  Sum_probs=39.3

Q ss_pred             hccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhh
Q psy13776        233 IYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYR  275 (539)
Q Consensus       233 ~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~  275 (539)
                      .+++...++++|++|++||||+|+|+|+|+++||+.++|.|++
T Consensus       143 ~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A~A~r  185 (285)
T d2jdia3         143 SDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYR  185 (285)
T ss_dssp             TSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcChHHHHHHHH
Confidence            3567778899999999999999999999999999999999975

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=94.78  E-value=0.00074  Score=66.17  Aligned_cols=43  Identities=16%  Similarity=0.183  Sum_probs=39.1

Q ss_pred             ccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhh
Q psy13776        234 YAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQ  276 (539)
Q Consensus       234 ~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~  276 (539)
                      .++..++.++|+++++||||+|.|+|+|+++|+++++|.+|+.
T Consensus       106 ~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~A~A~rE  148 (289)
T d1xpua3         106 EPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNT  148 (289)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHHHHHhccCceeecCcHHHHHHHHHH
Confidence            4666678889999999999999999999999999999999864

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=94.12  E-value=0.023  Score=47.45  Aligned_cols=52  Identities=17%  Similarity=0.107  Sum_probs=30.3

Q ss_pred             HHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChh
Q psy13776        296 VAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLS  355 (539)
Q Consensus       296 v~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslT  355 (539)
                      ..+.++.....+.-.+++++.++.-.+.        ..-.+.+.+++.|.+|.+|+=+.+
T Consensus        64 ~~~~~~~~~~~~~~~~~vi~d~~~~~~~--------~~~~~~~~~~~~~~~~~~i~l~~~  115 (152)
T d1ly1a_          64 QFDTAKSILYGGDSVKGVIISDTNLNPE--------RRLAWETFAKEYGWKVEHKVFDVP  115 (152)
T ss_dssp             HHHHHHHHHTSCSSCCEEEECSCCCSHH--------HHHHHHHHHHHHTCEEEEEECCCC
T ss_pred             HHHHHHHHHHhhccCCCcccccccCCHH--------HHHHHHHhhhhhccchhhhhcCCC
Confidence            4455555666666666777766553322        222345566777887777765544

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=93.57  E-value=0.086  Score=49.17  Aligned_cols=25  Identities=36%  Similarity=0.513  Sum_probs=20.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKSI  233 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~~  233 (539)
                      .+++.|++|||||+++ ..|+++...
T Consensus        42 ~vLL~GppGtGKT~la-~alA~~~~~   66 (246)
T d1d2na_          42 SVLLEGPPHSGKTALA-AKIAEESNF   66 (246)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHHHTC
T ss_pred             EEEEECcCCCCHHHHH-HHHhhcccc
Confidence            3689999999999998 778877653

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=93.44  E-value=0.036  Score=52.38  Aligned_cols=23  Identities=39%  Similarity=0.549  Sum_probs=20.2

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+++ ..|++...
T Consensus        48 iLL~GppGtGKT~la-~~iA~~~~   70 (256)
T d1lv7a_          48 VLMVGPPGTGKTLLA-KAIAGEAK   70 (256)
T ss_dssp             EEEECCTTSCHHHHH-HHHHHHHT
T ss_pred             EEeeCCCCCCccHHH-HHHHHHcC
Confidence            689999999999998 88887664

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=93.36  E-value=0.028  Score=52.22  Aligned_cols=45  Identities=13%  Similarity=0.219  Sum_probs=36.7

Q ss_pred             cccccccceeeeeeee-ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        187 YNLLSAGIKAVDSLVP-IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       187 ~epl~TGIraID~l~p-IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ...+.||+..+|-++- +-+||-..|.|++|+|||++++....|..
T Consensus        15 ~~~i~TG~~~lD~~~~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a   60 (277)
T d1cr2a_          15 VGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWG   60 (277)
T ss_dssp             SCBCCCSCTTHHHHHCSBCTTCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             ccccCCCchhHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHhhh
Confidence            4568999999997753 55999999999999999999976655543

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.12  E-value=0.022  Score=48.85  Aligned_cols=23  Identities=30%  Similarity=0.560  Sum_probs=19.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++|.|++|+|||||+ ..|+..-
T Consensus         2 ki~I~G~~G~GKSTLl-~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLV-KKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHHH
T ss_pred             EEEEECCCCcHHHHHH-HHHHhcC
Confidence            6899999999999998 6777654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=93.02  E-value=0.033  Score=52.61  Aligned_cols=34  Identities=24%  Similarity=0.360  Sum_probs=28.1

Q ss_pred             ceeee-eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAVD-SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraID-~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ..++| .=+.+-+|+..+|+|++|+|||||+ .+|+
T Consensus        16 ~~al~~vsl~i~~Ge~~~liG~sGaGKSTll-~~i~   50 (240)
T d1g2912          16 VTAVREMSLEVKDGEFMILLGPSGCGKTTTL-RMIA   50 (240)
T ss_dssp             EEEEEEEEEEEETTCEEEEECSTTSSHHHHH-HHHH
T ss_pred             EEEEcceeeEEcCCCEEEEECCCCChHHHHH-HHHh
Confidence            34555 4488999999999999999999997 5555

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=92.80  E-value=0.021  Score=48.22  Aligned_cols=23  Identities=22%  Similarity=0.462  Sum_probs=18.9

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .++.|+|++|+|||||+ ..+++.
T Consensus         8 K~I~i~G~~GsGKTTla-~~La~~   30 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLV-NKLAAV   30 (192)
T ss_dssp             EEEEEECCTTSHHHHHH-HHHHHH
T ss_pred             eEEEEECCCCCCHHHHH-HHHHHH
Confidence            47899999999999998 555543

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=92.49  E-value=0.19  Score=47.19  Aligned_cols=22  Identities=18%  Similarity=0.369  Sum_probs=18.0

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      -++|.|..|.|||||| ..+.|.
T Consensus        46 ~v~I~GmgGiGKTtLA-~~v~~~   67 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIA-SQALSK   67 (277)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHHh
Confidence            4689999999999999 556654

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=92.40  E-value=0.035  Score=52.54  Aligned_cols=30  Identities=17%  Similarity=0.344  Sum_probs=25.8

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+||.++|+|++|+|||||+ ..|.
T Consensus        32 ~isl~i~~Ge~vaivG~sGsGKSTLl-~li~   61 (251)
T d1jj7a_          32 GLTFTLRPGEVTALVGPNGSGKSTVA-ALLQ   61 (251)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             ceEEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            45678999999999999999999998 5554

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=92.35  E-value=0.029  Score=51.15  Aligned_cols=31  Identities=29%  Similarity=0.318  Sum_probs=26.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.+-+|+..+|.|++|+|||||+ .+|+.
T Consensus        19 ~is~~i~~Gei~~l~G~NGsGKSTLl-~~i~g   49 (200)
T d1sgwa_          19 RITMTIEKGNVVNFHGPNGIGKTTLL-KTIST   49 (200)
T ss_dssp             EEEEEEETTCCEEEECCTTSSHHHHH-HHHTT
T ss_pred             ceEEEEcCCCEEEEECCCCChHHHHH-HHHhc
Confidence            34578889999999999999999998 66664

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=92.31  E-value=0.2  Score=45.85  Aligned_cols=31  Identities=19%  Similarity=0.366  Sum_probs=24.6

Q ss_pred             eeeeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        196 AVDSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       196 aID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      .|+.++|   |+-..|+|++|+|||++++...++
T Consensus        22 li~G~~p---g~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          22 VLPNMVA---GTVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             EETTEET---TSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             HhCCccC---CcEEEEEeCCCCCHHHHHHHHHHH
Confidence            4567765   678899999999999999765443

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=92.05  E-value=0.042  Score=52.84  Aligned_cols=31  Identities=29%  Similarity=0.396  Sum_probs=26.6

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|-+|+.++|+|++|+|||||+ .+|+.
T Consensus        54 ~isl~i~~Ge~vaivG~nGsGKSTLl-~~i~G   84 (281)
T d1r0wa_          54 NINLNIEKGEMLAITGSTGSGKTSLL-MLILG   84 (281)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHHH-HHHHT
T ss_pred             CeEEEEcCCCEEEEECCCCChHHHHH-HHHhC
Confidence            44578899999999999999999998 66653

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.90  E-value=0.038  Score=52.34  Aligned_cols=30  Identities=23%  Similarity=0.417  Sum_probs=25.2

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+|++++|+|++|+|||||+ ..|+
T Consensus        33 ~isl~i~~Ge~iaivG~sGsGKSTLl-~ll~   62 (253)
T d3b60a1          33 NINLKIPAGKTVALVGRSGSGKSTIA-SLIT   62 (253)
T ss_dssp             EEEEEECTTCEEEEEECTTSSHHHHH-HHHT
T ss_pred             ceEEEEcCCCEEEEECCCCChHHHHH-HHHh
Confidence            34477889999999999999999998 5554

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.71  E-value=0.05  Score=51.08  Aligned_cols=30  Identities=27%  Similarity=0.382  Sum_probs=26.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+|+..+|+|++|+|||||+ .+|.
T Consensus        18 ~isl~i~~Gei~~liGpsGsGKSTLl-~~i~   47 (232)
T d2awna2          18 DINLDIHEGEFVVFVGPSGCGKSTLL-RMIA   47 (232)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHH
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHH-HHHh
Confidence            45688999999999999999999997 6665

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=91.70  E-value=0.042  Score=52.26  Aligned_cols=33  Identities=21%  Similarity=0.294  Sum_probs=27.1

Q ss_pred             eeee-eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        195 KAVD-SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       195 raID-~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .++| .=+.+-+|+..+|+|++|+|||||+ .+|.
T Consensus        16 ~al~~vs~~i~~GEi~~iiG~sGsGKSTLl-~~i~   49 (258)
T d1b0ua_          16 EVLKGVSLQARAGDVISIIGSSGSGKSTFL-RCIN   49 (258)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             EEEcceeeEEcCCCEEEEECCCCCcHHHHH-HHHH
Confidence            3443 3489999999999999999999998 5554

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.70  E-value=0.17  Score=43.48  Aligned_cols=23  Identities=30%  Similarity=0.556  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++|+|||+|+ ..++++.
T Consensus         5 KivvvG~~~vGKTsli-~r~~~~~   27 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLL-LQFTDKR   27 (173)
T ss_dssp             EEEEESSTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHhcCC
Confidence            6889999999999997 6666553

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=91.60  E-value=0.072  Score=48.08  Aligned_cols=24  Identities=33%  Similarity=0.423  Sum_probs=19.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      .+++.||+|||||++| ..++++..
T Consensus        37 ~~L~~GPpGtGKT~lA-~~la~~~~   60 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLA-HIIASELQ   60 (238)
T ss_dssp             CEEEESSTTSSHHHHH-HHHHHHHT
T ss_pred             eEEEECCCCCcHHHHH-HHHHhccC
Confidence            4789999999999998 66766543

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=91.59  E-value=0.049  Score=51.25  Aligned_cols=30  Identities=27%  Similarity=0.387  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+|++++|+|++|+|||||+ ..|.
T Consensus        21 ~isl~i~~Ge~vaIvG~sGsGKSTLl-~ll~   50 (241)
T d2pmka1          21 NINLSIKQGEVIGIVGRSGSGKSTLT-KLIQ   50 (241)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHH
Confidence            44678899999999999999999998 5444

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=91.56  E-value=0.044  Score=51.53  Aligned_cols=30  Identities=13%  Similarity=0.086  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+|++++|+|++|+|||||+ ..|.
T Consensus        20 ~isl~i~~Ge~vaivG~sGsGKSTLl-~ll~   49 (242)
T d1mv5a_          20 DISFEAQPNSIIAFAGPSGGGKSTIF-SLLE   49 (242)
T ss_dssp             EEEEEECTTEEEEEECCTTSSHHHHH-HHHT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHH-HHHH
Confidence            34578999999999999999999997 5554

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=91.35  E-value=0.049  Score=51.06  Aligned_cols=29  Identities=24%  Similarity=0.330  Sum_probs=24.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|.
T Consensus        24 isl~i~~Ge~~~iiG~sGsGKSTLl-~~i~   52 (230)
T d1l2ta_          24 VNLNIKEGEFVSIMGPSGSGKSTML-NIIG   52 (230)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eEEEEcCCCEEEEECCCCCCcchhh-Hhcc
Confidence            3478899999999999999999997 5444

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=91.32  E-value=0.058  Score=50.87  Aligned_cols=34  Identities=26%  Similarity=0.345  Sum_probs=27.4

Q ss_pred             ceeee-eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAVD-SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraID-~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ..++| .=+.+-+|+..+|+|++|+|||||+ .+|.
T Consensus        19 ~~al~~vsl~v~~Ge~~~liGpsGaGKSTLl-~~i~   53 (239)
T d1v43a3          19 FTAVNKLNLTIKDGEFLVLLGPSGCGKTTTL-RMIA   53 (239)
T ss_dssp             EEEEEEEEEEECTTCEEEEECCTTSSHHHHH-HHHH
T ss_pred             EEEEcceeEEECCCCEEEEECCCCChHHHHH-HHHH
Confidence            34443 4578999999999999999999998 5554

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=91.31  E-value=0.046  Score=45.96  Aligned_cols=21  Identities=29%  Similarity=0.237  Sum_probs=18.0

Q ss_pred             eeeeccCCCCchHhHHHHHHHh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      ++|.|.+|+|||||+ ..+++.
T Consensus         5 i~itG~~GSGKTTL~-~~L~~~   25 (170)
T d1np6a_           5 LAFAAWSGTGKTTLL-KKLIPA   25 (170)
T ss_dssp             EEEECCTTSCHHHHH-HHHHHH
T ss_pred             EEEEcCCCCCHHHHH-HHHHHH
Confidence            689999999999998 677754

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.25  E-value=0.045  Score=45.15  Aligned_cols=24  Identities=29%  Similarity=0.472  Sum_probs=20.4

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .|++++|++++|||+|+ ..+.++.
T Consensus         1 ~KI~liG~~nvGKSSLl-n~l~~~~   24 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLL-HMLKNDR   24 (166)
T ss_dssp             CEEEEECSTTSSHHHHH-HHHHHSC
T ss_pred             CEEEEECCCCCCHHHHH-HHHhCCC
Confidence            48999999999999998 6777654

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.78  E-value=0.3  Score=41.18  Aligned_cols=23  Identities=22%  Similarity=0.523  Sum_probs=19.2

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++|+|||+|+ ..++++.
T Consensus         2 Kv~vvG~~~vGKTsLi-~r~~~~~   24 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLI-TRFMYDS   24 (164)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            6889999999999998 6666543

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.60  E-value=0.06  Score=45.24  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+.|.|++|||||||+ ..++..-
T Consensus         3 ~v~ItG~~GtGKTtl~-~~i~~~l   25 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLI-HKASEVL   25 (189)
T ss_dssp             CEEEESCCSSCHHHHH-HHHHHHH
T ss_pred             EEEEECCCCCcHHHHH-HHHHHHH
Confidence            4789999999999998 5666544

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=90.42  E-value=0.072  Score=45.00  Aligned_cols=24  Identities=42%  Similarity=0.601  Sum_probs=19.0

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +|=++.|+|++|+||||++ ..+..
T Consensus         4 k~~~I~i~G~~GsGKTT~~-~~La~   27 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMA-EMIAA   27 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHH-HHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHH-HHHHH
Confidence            3456889999999999998 55553

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=90.35  E-value=0.026  Score=55.55  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=18.5

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      .++.|++|||||.|+ ..+++...
T Consensus       126 ~l~~G~pG~GKT~la-~ala~~~~  148 (321)
T d1w44a_         126 VIVTGKGNSGKTPLV-HALGEALG  148 (321)
T ss_dssp             EEEECSSSSCHHHHH-HHHHHHHH
T ss_pred             EEEECCCCccHHHHH-HHHHHHhc
Confidence            455799999999999 77877653

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=90.35  E-value=0.064  Score=50.87  Aligned_cols=26  Identities=27%  Similarity=0.431  Sum_probs=23.4

Q ss_pred             eeeeeccccceeeeeccCCCCchHhH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALA  223 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa  223 (539)
                      |.=+.|-+|++++|+|++|+|||||+
T Consensus        36 ~isl~i~~Ge~vaivG~sGsGKSTLl   61 (255)
T d2hyda1          36 DINLSIEKGETVAFVGMSGGGKSTLI   61 (255)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHH
T ss_pred             ceEEEEcCCCEEEEECCCCCcHHHHH
Confidence            34578899999999999999999997

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=90.35  E-value=0.27  Score=44.44  Aligned_cols=46  Identities=11%  Similarity=0.033  Sum_probs=36.9

Q ss_pred             CChhhhhhhhHHHHHHHHHHHHCCCcEEEEecChhHHHHHh-HHhhh
Q psy13776        321 DAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAY-RQMSL  366 (539)
Q Consensus       321 ~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~DslTr~A~A~-Reisl  366 (539)
                      -+...|.....-...+|.++.++|..|++-..+..+..+.. |++..
T Consensus        74 ys~~~r~~~~~r~~~~a~~~~~~g~~viv~~i~~~~~~R~~~r~i~~  120 (208)
T d1m7ga_          74 FSEADRNENIRRIAEVAKLFADSNSIAITSFISPYRKDRDTARQLHE  120 (208)
T ss_dssp             SSHHHHHHHHHHHHHHHHHHHHTTCEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHHhccCCceeeecccccHHHHHHHHHHhh
Confidence            45777888888899999999999999999888888766654 55543

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=90.33  E-value=0.062  Score=45.15  Aligned_cols=20  Identities=30%  Similarity=0.473  Sum_probs=16.7

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ++.|.|++|+||||++ ..++
T Consensus         6 ~I~i~G~pGsGKTTia-~~La   25 (173)
T d1rkba_           6 NILLTGTPGVGKTTLG-KELA   25 (173)
T ss_dssp             CEEEECSTTSSHHHHH-HHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHH
Confidence            5789999999999998 4444

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=90.33  E-value=0.16  Score=47.44  Aligned_cols=22  Identities=32%  Similarity=0.519  Sum_probs=18.5

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++.|++|||||+++ ..|++..
T Consensus        45 iLl~GppGtGKT~la-~aia~~~   66 (247)
T d1ixza_          45 VLLVGPPGVGKTHLA-RAVAGEA   66 (247)
T ss_dssp             EEEECCTTSSHHHHH-HHHHHHT
T ss_pred             EEEecCCCCChhHHH-HHHHHHc
Confidence            689999999999998 6777544

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=90.32  E-value=0.071  Score=44.75  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=19.2

Q ss_pred             ccceeeeeccCCCCchHhHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +|.-+.|.|.+|+||||++ ..+.
T Consensus         5 ~g~~I~l~G~~GsGKTTia-~~La   27 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIA-RALQ   27 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHH-HHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHH
Confidence            5778899999999999998 4444

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=90.30  E-value=0.077  Score=49.99  Aligned_cols=30  Identities=23%  Similarity=0.312  Sum_probs=25.3

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.|-+|...+|+|++|+|||||+ .+|.
T Consensus        23 ~vsl~i~~Ge~~~iiG~sGsGKSTLl-~~i~   52 (240)
T d3dhwc1          23 NVSLHVPAGQIYGVIGASGAGKSTLI-RCVN   52 (240)
T ss_dssp             EEEEEECSSCEEEEEESTTSSHHHHH-HHHT
T ss_pred             ceeEEEcCCCEEEEECCCCCCHHHHH-HHHc
Confidence            34478999999999999999999997 4443

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=90.19  E-value=0.058  Score=50.56  Aligned_cols=29  Identities=24%  Similarity=0.370  Sum_probs=25.7

Q ss_pred             eeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        199 SLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       199 ~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .=+.|-+|+..+|+|++|+|||||+ .+|.
T Consensus        19 vs~~i~~Ge~~~liGpsGaGKSTll-~~l~   47 (229)
T d3d31a2          19 LSLKVESGEYFVILGPTGAGKTLFL-ELIA   47 (229)
T ss_dssp             EEEEECTTCEEEEECCCTHHHHHHH-HHHH
T ss_pred             eEEEECCCCEEEEECCCCCcHHHHH-HHHh
Confidence            4588999999999999999999998 6665

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=90.17  E-value=0.072  Score=49.96  Aligned_cols=30  Identities=30%  Similarity=0.369  Sum_probs=25.5

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+.+|+..+|+|++|+|||||+ .+|.
T Consensus        24 ~vs~~i~~Gei~~liGpnGaGKSTl~-~~i~   53 (240)
T d1ji0a_          24 GIDLKVPRGQIVTLIGANGAGKTTTL-SAIA   53 (240)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eeeEEECCCCEEEEECCCCCcHHHHH-HHHh
Confidence            34478999999999999999999997 5554

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=89.98  E-value=0.075  Score=45.62  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=17.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.|+|++|+||||++ ..++.
T Consensus         2 ~I~i~G~pGSGKsT~a-~~La~   22 (182)
T d1zina1           2 NLVLMGLPGAGKGTQA-EKIVA   22 (182)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            6889999999999998 55553

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.88  E-value=0.26  Score=43.11  Aligned_cols=19  Identities=16%  Similarity=0.309  Sum_probs=15.0

Q ss_pred             eeeeccCCCCchHhHHHHHH
Q psy13776        209 ELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.+.|.+|+||||++ ..+.
T Consensus        17 iil~G~pGsGKST~a-~~l~   35 (172)
T d1yj5a2          17 VVAVGFPGAGKSTFI-QEHL   35 (172)
T ss_dssp             EEEECCTTSSHHHHH-HHHT
T ss_pred             EEEECCCCCCHHHHH-HHHH
Confidence            468899999999998 4443

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=89.77  E-value=0.052  Score=51.31  Aligned_cols=34  Identities=29%  Similarity=0.421  Sum_probs=27.7

Q ss_pred             ceee-eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAV-DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraI-D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +.++ |.=+.|-+|+..+|+|++|+|||||+ .+|.
T Consensus        18 ~~aL~~vsl~i~~Ge~~~iiG~sGsGKSTll-~~i~   52 (242)
T d1oxxk2          18 VVALDNVNINIENGERFGILGPSGAGKTTFM-RIIA   52 (242)
T ss_dssp             EEEEEEEEEEECTTCEEEEECSCHHHHHHHH-HHHH
T ss_pred             EEEEeceEEEECCCCEEEEECCCCCcHHHHH-HHHH
Confidence            3444 44588999999999999999999998 5555

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.74  E-value=0.083  Score=47.85  Aligned_cols=28  Identities=21%  Similarity=0.297  Sum_probs=22.5

Q ss_pred             cccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        204 GRGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       204 GrGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ++...+++.||+|||||+++ ..++++..
T Consensus        50 ~~~~~lll~GPpG~GKTt~a-~~la~~~~   77 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAA-HLVAQELG   77 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHH-HHHHHHTT
T ss_pred             CCCceEEEECCCCCCHHHHH-HHHHHHHH
Confidence            34456889999999999998 77887754

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.71  E-value=0.41  Score=44.41  Aligned_cols=23  Identities=35%  Similarity=0.505  Sum_probs=19.7

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+++ ..+++...
T Consensus        41 iLL~GppGtGKT~l~-~ala~~~~   63 (258)
T d1e32a2          41 ILLYGPPGTGKTLIA-RAVANETG   63 (258)
T ss_dssp             EEEECCTTSSHHHHH-HHHHHHTT
T ss_pred             eEEecCCCCCchHHH-HHHHHHhC
Confidence            789999999999998 77887654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=89.20  E-value=0.084  Score=49.04  Aligned_cols=28  Identities=18%  Similarity=0.292  Sum_probs=24.4

Q ss_pred             eeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        200 LVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       200 l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      =+.|-+|+-.+|+|++|+|||||+ .+|.
T Consensus        19 sl~I~~Gei~~iiG~nGaGKSTLl-~~l~   46 (231)
T d1l7vc_          19 SGEVRAGEILHLVGPNGAGKSTLL-ARMA   46 (231)
T ss_dssp             EEEEETTCEEECBCCTTSSHHHHH-HHHH
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHH-HHHh
Confidence            457889999999999999999997 6665

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=89.20  E-value=0.093  Score=43.41  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.|+|++|+|||||+ ..++++.
T Consensus         2 kivlvG~~~vGKSsLi-~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTIL-YKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHHC
T ss_pred             EEEEECCCCCCHHHHH-HHHhcCC
Confidence            6789999999999998 6676554

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=89.03  E-value=0.1  Score=45.65  Aligned_cols=25  Identities=16%  Similarity=0.385  Sum_probs=19.8

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |.+.+.|+|++|+||||++ ..++..
T Consensus         5 kp~iI~i~G~pGSGKsT~a-~~La~~   29 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQC-ANIVRD   29 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHH-HHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHH-HHHHHH
Confidence            3456889999999999998 666543

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=88.99  E-value=0.096  Score=43.59  Aligned_cols=21  Identities=24%  Similarity=0.376  Sum_probs=16.8

Q ss_pred             eeeeccCCCCchHhHHHHHHHh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.|.|++|+||||+| ..+..+
T Consensus         5 I~i~G~~GsGKTTva-~~L~~~   25 (176)
T d2bdta1           5 YIITGPAGVGKSTTC-KRLAAQ   25 (176)
T ss_dssp             EEEECSTTSSHHHHH-HHHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHHH
Confidence            578999999999998 555533

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=88.68  E-value=0.1  Score=42.70  Aligned_cols=21  Identities=19%  Similarity=0.466  Sum_probs=16.6

Q ss_pred             eeeeccCCCCchHhHHHHHHHh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-++|++|+||||++ ..++.+
T Consensus         5 I~l~G~~GsGKSTva-k~La~~   25 (169)
T d1kaga_           5 IFLVGPMGAGKSTIG-RQLAQQ   25 (169)
T ss_dssp             EEEECCTTSCHHHHH-HHHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHHH
Confidence            567899999999998 455544

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=88.66  E-value=0.11  Score=45.23  Aligned_cols=23  Identities=26%  Similarity=0.523  Sum_probs=19.4

Q ss_pred             ccceeeeeccCCCCchHhHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      +|=|+.|+|++|+||||++ ..++
T Consensus         2 ~~~riil~G~pGSGKsT~a-~~La   24 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQA-PKLA   24 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHH-HHHH
T ss_pred             CccEEEEECCCCCCHHHHH-HHHH
Confidence            5668899999999999998 5555

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=88.56  E-value=0.11  Score=48.95  Aligned_cols=34  Identities=32%  Similarity=0.588  Sum_probs=27.7

Q ss_pred             ceee-eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        194 IKAV-DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       194 IraI-D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+++ |.=+.+.+|+-.+|+|++|+|||||+ .+|.
T Consensus        17 ~~aL~~vs~~v~~Gei~~liG~nGaGKSTLl-~~i~   51 (254)
T d1g6ha_          17 FKALDGVSISVNKGDVTLIIGPNGSGKSTLI-NVIT   51 (254)
T ss_dssp             EEEEEEECCEEETTCEEEEECSTTSSHHHHH-HHHT
T ss_pred             eEEEcceEEEECCCCEEEEECCCCCcHHHHH-HHHH
Confidence            3444 44578999999999999999999998 5555

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=88.40  E-value=0.11  Score=44.86  Aligned_cols=21  Identities=29%  Similarity=0.433  Sum_probs=17.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.|+|++|+||||++ ..++.
T Consensus         2 ~I~i~G~pGsGKsT~a-~~La~   22 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQA-VKLAE   22 (181)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            6789999999999998 55553

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=88.23  E-value=0.11  Score=43.11  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.|+|++++|||||. ..+.++.
T Consensus         7 kI~ivG~~~vGKSSLi-~~~~~~~   29 (169)
T d1upta_           7 RILILGLDGAGKTTIL-YRLQVGE   29 (169)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSS
T ss_pred             EEEEECCCCCCHHHHH-HHHhCCC
Confidence            6789999999999997 6676653

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=88.17  E-value=0.11  Score=46.94  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=19.4

Q ss_pred             eeeeccCCCCchHhHHHHHHHhhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++.|++|||||+|| ..|++...
T Consensus        35 ilL~GpPGtGKT~la-~~la~~~~   57 (273)
T d1gvnb_          35 FLLGGQPGSGKTSLR-SAIFEETQ   57 (273)
T ss_dssp             EEEECCTTSCTHHHH-HHHHHHTT
T ss_pred             EEEECCCCCCHHHHH-HHHHHHhh
Confidence            789999999999999 77776653

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=87.94  E-value=0.11  Score=46.83  Aligned_cols=24  Identities=33%  Similarity=0.451  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      .+++.||+|||||++| ..++++..
T Consensus        37 ~~Ll~GPpG~GKTtla-~~la~~~~   60 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLA-HVIAHELG   60 (239)
T ss_dssp             CEEEECCTTSCHHHHH-HHHHHHHT
T ss_pred             eEEEECCCCCCHHHHH-HHHHHHhC
Confidence            3679999999999998 66766543

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=87.83  E-value=0.89  Score=44.04  Aligned_cols=28  Identities=18%  Similarity=0.181  Sum_probs=23.3

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .|+.-|++|.|++|+|||||. +.++...
T Consensus        51 ~~~~~~IgitG~pGaGKSTLi-~~l~~~~   78 (327)
T d2p67a1          51 CGNTLRLGVTGTPGAGKSTFL-EAFGMLL   78 (327)
T ss_dssp             CSCSEEEEEEECTTSCHHHHH-HHHHHHH
T ss_pred             cCCceEEEeeCCCCCCHHHHH-HHHHHHH
Confidence            478889999999999999997 6666443

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=87.64  E-value=1.4  Score=37.89  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.0

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ++.|+|.+++|||||. +.+.++.
T Consensus         5 ~V~lvG~~n~GKTSLl-n~l~~~~   27 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLL-TLLTTDS   27 (209)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSS
T ss_pred             EEEEECCCCCCHHHHH-HHHhCCC
Confidence            6789999999999997 8888764

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=87.57  E-value=0.12  Score=45.09  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=17.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.|+|++|+||||++ ..+++
T Consensus         5 ~I~i~GppGsGKsT~a-~~La~   25 (189)
T d1zaka1           5 KVMISGAPASGKGTQC-ELIKT   25 (189)
T ss_dssp             CEEEEESTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            6789999999999998 55553

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=87.40  E-value=0.12  Score=43.58  Aligned_cols=23  Identities=30%  Similarity=0.579  Sum_probs=17.7

Q ss_pred             cceeeeeccCCCCchHhHHHHHHH
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=+.|.|++|+||||++ ..+.+
T Consensus         4 g~iI~l~G~~GsGKSTia-~~La~   26 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIA-EALAN   26 (176)
T ss_dssp             TEEEEEEECTTSCHHHHH-HHHHT
T ss_pred             CeEEEEECCCCCCHHHHH-HHHHH
Confidence            344678999999999998 55543

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=87.22  E-value=0.84  Score=42.18  Aligned_cols=24  Identities=25%  Similarity=0.536  Sum_probs=20.9

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      +++++|.+|+|||||. .+|+++..
T Consensus        34 ~I~LvG~tg~GKSSli-N~ilg~~~   57 (257)
T d1h65a_          34 TILVMGKGGVGKSSTV-NSIIGERV   57 (257)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHTSCC
T ss_pred             EEEEECCCCCcHHHHH-HHHhCCCc
Confidence            5889999999999997 89987653

>d1fx0b2 b.49.1.1 (B:19-97) F1 ATP synthase beta subunit, domain 1 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 1
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=87.11  E-value=0.3  Score=38.49  Aligned_cols=31  Identities=16%  Similarity=0.042  Sum_probs=27.3

Q ss_pred             EeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776        110 LPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus       110 l~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      ..|..   +.|.++.+++++||+.|++|..||.|
T Consensus        49 qhlg~---~~VR~IAm~sTdGL~RG~~V~dtG~P   79 (79)
T d1fx0b2          49 QLLGN---NRVRAVAMSATDGLTRGMEVIDTGAP   79 (79)
T ss_dssp             ECCSS---SCEEEEESSCCTTCCTTCEEEECSSS
T ss_pred             EccCC---CEEEEEEecCCcCccCCCEEEeCCCC
Confidence            34455   99999999999999999999999975

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.98  E-value=0.41  Score=41.81  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.|+|++|+|||+|+ ..+.+.
T Consensus         8 KivvvG~~~vGKTsli-~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLL-LRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHC
T ss_pred             EEEEECCCCcCHHHHH-HHHhhC
Confidence            6889999999999998 666654

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.91  E-value=0.23  Score=46.60  Aligned_cols=32  Identities=16%  Similarity=0.297  Sum_probs=25.3

Q ss_pred             eeeeeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        195 KAVDSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       195 raID~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ..+|.=+.++ |...+|+|++|+|||||+ .+|.
T Consensus        14 ~~~~vs~~~~-~e~~~liGpnGaGKSTll-~~i~   45 (240)
T d2onka1          14 FRLNVDFEMG-RDYCVLLGPTGAGKSVFL-ELIA   45 (240)
T ss_dssp             EEEEEEEEEC-SSEEEEECCTTSSHHHHH-HHHH
T ss_pred             EEEEEEEEeC-CEEEEEECCCCChHHHHH-HHHH
Confidence            3457667776 468899999999999998 6665

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=86.74  E-value=0.16  Score=44.05  Aligned_cols=20  Identities=30%  Similarity=0.463  Sum_probs=17.1

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |+.|+|++|+||||++ ..++
T Consensus         2 ~I~i~G~pGSGKsT~a-~~La   21 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQA-DRIV   21 (182)
T ss_dssp             EEEEECSTTSSHHHHH-HHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHH
Confidence            5789999999999998 5555

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.67  E-value=0.092  Score=45.15  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=19.2

Q ss_pred             ccceeeeeccCCCCchHhHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      ||..+.+.|.+|+|||||| ..+.
T Consensus        18 ~g~vI~L~G~pGSGKTTiA-k~La   40 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVS-MALE   40 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHH-HHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHH
Confidence            6778889999999999998 4444

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=86.67  E-value=0.17  Score=47.28  Aligned_cols=30  Identities=27%  Similarity=0.238  Sum_probs=25.1

Q ss_pred             eeeeeccccceeeeeccCCCCchHhHHHHHH
Q psy13776        198 DSLVPIGRGQRELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       198 D~l~pIGrGQR~lI~g~~gtGKTtLa~~~I~  228 (539)
                      |.=+.+-+|+-.+|+|++|+|||||+ ..|.
T Consensus        20 ~vs~~v~~Gei~glvG~nGaGKSTLl-~~l~   49 (238)
T d1vpla_          20 GISFEIEEGEIFGLIGPNGAGKTTTL-RIIS   49 (238)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHH-HHHT
T ss_pred             cceeEEcCCCEEEEECCCCCCHHHHH-HHHh
Confidence            34467889999999999999999997 5554

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=86.60  E-value=0.13  Score=46.23  Aligned_cols=22  Identities=32%  Similarity=0.282  Sum_probs=16.9

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ..+.|++|||||+++ ..++++-
T Consensus        49 l~l~GppGtGKT~l~-~~l~~~l   70 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLA-KFTVKRV   70 (287)
T ss_dssp             EECTTCCSSSHHHHH-HHHHHHH
T ss_pred             EEeECCCCCCHHHHH-HHHHHHH
Confidence            345699999999998 6666553

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.37  E-value=0.15  Score=43.43  Aligned_cols=23  Identities=26%  Similarity=0.515  Sum_probs=19.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++++|||+|+ ..++++.
T Consensus         5 Ki~viG~~~vGKTsli-~~l~~~~   27 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALT-IQLIQNH   27 (166)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHCC
T ss_pred             EEEEECCCCCCHHHHH-HHHHhCC
Confidence            6899999999999997 6676543

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=86.37  E-value=0.18  Score=45.03  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=20.8

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      ...++|.|++|||||+++ ..++++.
T Consensus        43 ~~~lll~GppGtGKT~l~-~~l~~~l   67 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVTL-RKLWELY   67 (276)
T ss_dssp             CCEEEEECCTTSSHHHHH-HHHHHHH
T ss_pred             CCceEEECCCCCCHHHHH-HHHHHHH
Confidence            357899999999999998 6777664

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=86.34  E-value=0.15  Score=44.14  Aligned_cols=23  Identities=39%  Similarity=0.729  Sum_probs=19.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..++++.
T Consensus         4 Kv~vvG~~~vGKSSLi-~~l~~~~   26 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLM-NQYVNKK   26 (184)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            6889999999999997 6777654

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.21  E-value=0.27  Score=46.02  Aligned_cols=22  Identities=41%  Similarity=0.462  Sum_probs=18.5

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++.|++|||||+++ ..+++..
T Consensus        44 iLL~Gp~GtGKT~l~-~ala~~~   65 (265)
T d1r7ra3          44 VLFYGPPGCGKTLLA-KAIANEC   65 (265)
T ss_dssp             EEEBCCTTSSHHHHH-HHHHHHT
T ss_pred             EEEECCCCCcchhHH-HHHHHHh
Confidence            789999999999998 6666554

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.67  E-value=0.17  Score=43.08  Aligned_cols=22  Identities=23%  Similarity=0.413  Sum_probs=18.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..++++
T Consensus         5 KivlvG~~~vGKTsLi-~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLV-LRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHH-HHHHHC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            7889999999999998 566643

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.67  E-value=0.19  Score=43.56  Aligned_cols=21  Identities=29%  Similarity=0.439  Sum_probs=17.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.|+|++|+||||++ ..++.
T Consensus         4 rIvl~G~pGSGKtT~a-~~La~   24 (180)
T d1akya1           4 RMVLIGPPGAGKGTQA-PNLQE   24 (180)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            6789999999999998 55553

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=85.56  E-value=0.19  Score=43.24  Aligned_cols=21  Identities=29%  Similarity=0.495  Sum_probs=17.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.|+|++|+||||++ ..++.
T Consensus         2 ~I~i~G~pGSGKsT~~-~~La~   22 (179)
T d1e4va1           2 RIILLGAPVAGKGTQA-QFIME   22 (179)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            6789999999999998 66653

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.53  E-value=0.19  Score=43.60  Aligned_cols=21  Identities=19%  Similarity=0.400  Sum_probs=17.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ++.|+|++|+||||+| ..|++
T Consensus         3 iI~i~GppGSGKsT~a-~~La~   23 (194)
T d1teva_           3 VVFVLGGPGAGKGTQC-ARIVE   23 (194)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHH
Confidence            4689999999999998 56654

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=85.51  E-value=0.17  Score=46.54  Aligned_cols=20  Identities=25%  Similarity=0.418  Sum_probs=16.7

Q ss_pred             eeeeccCCCCchHhHHHHHH
Q psy13776        209 ELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+|+|++|||||+.++..+.
T Consensus        17 ~lI~g~aGTGKTt~l~~rv~   36 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKIA   36 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHHHH
Confidence            58999999999998876544

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=85.41  E-value=0.23  Score=44.34  Aligned_cols=26  Identities=35%  Similarity=0.525  Sum_probs=20.8

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .++.+.|.|++|+|||+|+ ..++++.
T Consensus        28 ~~~~i~i~G~~G~GKTsLl-~~~~~~~   53 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSII-KIGINEL   53 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHH-HHHHHHH
T ss_pred             cCCEEEEEcCCCCcHHHHH-HHHHHHC
Confidence            4577889999999999998 5566554

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.36  E-value=0.18  Score=42.77  Aligned_cols=23  Identities=22%  Similarity=0.475  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++|+|||+|+ ..++++.
T Consensus         5 Ki~lvG~~~vGKTsLi-~r~~~~~   27 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALT-VQFVTGT   27 (167)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            7889999999999998 5666543

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.31  E-value=0.18  Score=42.79  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.|+|++|+|||+|+ ..++++
T Consensus         6 Kv~liG~~~vGKTsLl-~~~~~~   27 (167)
T d1xtqa1           6 KIAILGYRSVGKSSLT-IQFVEG   27 (167)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            7899999999999997 566554

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.30  E-value=0.19  Score=42.78  Aligned_cols=22  Identities=32%  Similarity=0.564  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+++.
T Consensus         6 KivlvG~~~vGKTsli-~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLL-HQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6889999999999997 566654

>d1skye2 b.49.1.1 (E:1-82) F1 ATP synthase beta subunit, domain 1 {Bacillus sp., strain ps3 [TaxId: 1409]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 1
species: Bacillus sp., strain ps3 [TaxId: 1409]

Probab=85.16  E-value=0.4  Score=38.00  Aligned_cols=31  Identities=13%  Similarity=0.089  Sum_probs=27.3

Q ss_pred             EeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776        110 LPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus       110 l~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      ..|..   +.|.++.+++++||+.|++|..||.|
T Consensus        52 qhlg~---~~VR~IAm~~TdGL~RG~~V~dTG~P   82 (82)
T d1skye2          52 LHLGD---DTVRTIAMASTDGLIRGMEVIDTGAP   82 (82)
T ss_dssp             EEEET---TEEEEEESSCCTTCCTTCEEEEEEEE
T ss_pred             hhcCC---CeEEEEEecCccCccCCCEEEeCCCC
Confidence            34555   89999999999999999999999975

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=85.10  E-value=0.19  Score=42.73  Aligned_cols=23  Identities=17%  Similarity=0.437  Sum_probs=19.0

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++|+|||+|+ ..++++.
T Consensus         6 Ki~lvG~~~vGKTsli-~rl~~~~   28 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIM-WRFVEDS   28 (167)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            6889999999999998 6666543

>d2jdid2 b.49.1.1 (D:10-81) F1 ATP synthase beta subunit, domain 1 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All beta proteins
fold: Domain of alpha and beta subunits of F1 ATP synthase-like
superfamily: N-terminal domain of alpha and beta subunits of F1 ATP synthase
family: N-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 1
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=85.00  E-value=0.39  Score=37.16  Aligned_cols=32  Identities=19%  Similarity=0.119  Sum_probs=27.7

Q ss_pred             EEeccccCCCcEEEEcccCCcCCCCCCEEEEeccc
Q psy13776        109 ALPVIETQAGDVSAYIPTNVISITDGQIFLETELF  143 (539)
Q Consensus       109 vl~l~~~~~d~v~l~~~g~~~gi~~G~~V~~tg~~  143 (539)
                      ...|..   +.|.++.+++++|++.|++|..||.|
T Consensus        41 ~qhlg~---~~VR~IAl~~TdGL~RG~~V~~tG~P   72 (72)
T d2jdid2          41 AQHLGE---STVRTIAMDGTEGLVRGQKVLDSGAP   72 (72)
T ss_dssp             EEEEET---TEEEEEESSCCTTCBTTCEEEECSSS
T ss_pred             eeecCC---CeEEEEEecCccCccCCCEEEeCCCC
Confidence            344555   89999999999999999999999975

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=84.96  E-value=0.23  Score=43.91  Aligned_cols=24  Identities=29%  Similarity=0.436  Sum_probs=19.6

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |.=|+.|+|++|+||||++ ..++.
T Consensus         5 r~mrIiliG~PGSGKtT~a-~~La~   28 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVS-SRITK   28 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHH-HHHHH
T ss_pred             cceeEEEECCCCCCHHHHH-HHHHH
Confidence            4558999999999999998 55553

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=84.87  E-value=0.22  Score=41.51  Aligned_cols=21  Identities=14%  Similarity=0.344  Sum_probs=16.7

Q ss_pred             eeeeccCCCCchHhHHHHHHHh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +.|.|++|+||||++ ..++++
T Consensus         6 I~l~G~~GsGKsTva-~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIV-RCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHH-HHHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHHH
Confidence            467799999999998 566654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=84.84  E-value=0.21  Score=47.74  Aligned_cols=27  Identities=26%  Similarity=0.386  Sum_probs=21.7

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQKS  232 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~~  232 (539)
                      ++.-+++.||+|||||.|| ..++++..
T Consensus        48 ~~~~iLl~GPpG~GKT~lA-kalA~~~~   74 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIA-RRLAKLAN   74 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHH-HHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHH-HHHhhccc
Confidence            3456789999999999999 77877643

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.77  E-value=1.5  Score=43.32  Aligned_cols=112  Identities=10%  Similarity=0.139  Sum_probs=55.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhhhhccccccccccccCCCccccccccCcchhhhhhhhhhHHHHhhhcccCceEEEEE
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQKSIYAAPLQYLAPYSGCAMGEFFRDNGKHALIIYDDLSKQAVAYRQDEKKKLYCIYV  287 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~~~~~~~~~~la~~~g~~~~e~~~d~~~~~~~i~d~~~~~a~~~~~~~~~~~~~Vy~  287 (539)
                      +++|+|.+|+|||||. +.+.+......-..  -...++++.--                    ..|...+.+++.++=-
T Consensus        58 ~Iai~G~~n~GKSSLi-NaL~G~~~~~~~~~--~~g~~~tT~~~--------------------~~~~~~~~~~~~l~Dt  114 (400)
T d1tq4a_          58 NVAVTGETGSGKSSFI-NTLRGIGNEEEGAA--KTGVVEVTMER--------------------HPYKHPNIPNVVFWDL  114 (400)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHTCCTTSTTSC--CCCC----CCC--------------------EEEECSSCTTEEEEEC
T ss_pred             EEEEECCCCCCHHHHH-HHHhCCCcCCCccC--CCCCCCCceee--------------------eeeeccCCCeEEEEeC
Confidence            6899999999999997 77775432100000  00011111100                    0011111222332222


Q ss_pred             -eeccchhHHHHHHHHHhcCCCCceEEEEEecCCCChhhhhhhhHHHHHHHHHHHHCCCcEEEEec
Q psy13776        288 -AIGQKRSTVAQIVKRLTDSGAMGYTIIVSATASDAAPLQYLAPYSGCAMGEFFRDNGKHALIIYD  352 (539)
Q Consensus       288 -~IGer~~ev~e~~~~l~~~~~~~~tvvV~atad~~a~~r~~ap~~a~tiAEyFrd~GkdVLli~D  352 (539)
                       ++|.......++.+...   ...+.+++.-.+.+.. ..      =..+++..++.|++++++.-
T Consensus       115 PG~~~~~~~~~~~~~~~~---~~~~d~~l~~~~~~~~-~~------d~~l~~~l~~~~k~~~~V~n  170 (400)
T d1tq4a_         115 PGIGSTNFPPDTYLEKMK---FYEYDFFIIISATRFK-KN------DIDIAKAISMMKKEFYFVRT  170 (400)
T ss_dssp             CCGGGSSCCHHHHHHHTT---GGGCSEEEEEESSCCC-HH------HHHHHHHHHHTTCEEEEEEC
T ss_pred             CCcccccccHHHHHHHhh---hhcceEEEEecCCCCC-HH------HHHHHHHHHHcCCCEEEEEe
Confidence             66776666666665543   2223343333333221 11      23567788899999999974

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.77  E-value=0.2  Score=42.70  Aligned_cols=23  Identities=17%  Similarity=0.492  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..++++.
T Consensus         8 Ki~vvG~~~vGKTsLi-~~l~~~~   30 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLV-LRFVKGQ   30 (170)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            7889999999999998 5666543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.67  E-value=0.2  Score=43.00  Aligned_cols=22  Identities=27%  Similarity=0.501  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..++++
T Consensus         8 Kv~lvG~~~vGKTsLi-~r~~~~   29 (173)
T d2fn4a1           8 KLVVVGGGGVGKSALT-IQFIQS   29 (173)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6789999999999998 566654

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.60  E-value=0.23  Score=43.39  Aligned_cols=20  Identities=15%  Similarity=0.426  Sum_probs=16.9

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .+.|+|++|+||||+| ..++
T Consensus        10 iI~i~GppGSGKsT~a-~~La   29 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQC-EKLV   29 (196)
T ss_dssp             EEEEECSTTSSHHHHH-HHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHH
Confidence            4789999999999998 5554

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=84.44  E-value=0.16  Score=42.72  Aligned_cols=22  Identities=23%  Similarity=0.403  Sum_probs=18.1

Q ss_pred             ceeeeeccCCCCchHhHHHHHHH
Q psy13776        207 QRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      -|++++|++|+|||||+ ..+..
T Consensus        14 ~kI~lvG~~~vGKTsLl-~~l~~   35 (186)
T d1f6ba_          14 GKLVFLGLDNAGKTTLL-HMLKD   35 (186)
T ss_dssp             EEEEEEEETTSSHHHHH-HHHSC
T ss_pred             CEEEEECCCCCCHHHHH-HHHhC
Confidence            38899999999999997 55543

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.42  E-value=0.22  Score=42.00  Aligned_cols=23  Identities=30%  Similarity=0.543  Sum_probs=18.9

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++++|++|+|||+|+ ..+++..
T Consensus         4 Kv~liG~~~vGKTsLl-~~~~~~~   26 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLT-YRFCAGR   26 (165)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHSS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            6789999999999998 6666543

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=84.41  E-value=0.24  Score=43.33  Aligned_cols=24  Identities=17%  Similarity=0.457  Sum_probs=19.5

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHH
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ++..+.|+|++|+||||++ ..++.
T Consensus         7 ~~~iI~l~G~pGSGKsT~a-~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQC-EKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHH-HHHHH
T ss_pred             CCcEEEEECCCCCCHHHHH-HHHHH
Confidence            4566889999999999998 55654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.38  E-value=0.21  Score=42.63  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..++++
T Consensus         7 Ki~lvG~~~vGKTsLi-~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALT-IQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHhC
Confidence            6899999999999997 555543

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=84.33  E-value=0.23  Score=42.34  Aligned_cols=20  Identities=35%  Similarity=0.361  Sum_probs=16.6

Q ss_pred             eeeeccCCCCchHhHHHHHHH
Q psy13776        209 ELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      ++|-|++|+|||||| ..+..
T Consensus        25 IgI~G~~GSGKSTla-~~L~~   44 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLA-NQLSQ   44 (198)
T ss_dssp             EEEEECTTSSHHHHH-HHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHH
Confidence            579999999999998 55553

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.32  E-value=0.22  Score=42.44  Aligned_cols=23  Identities=39%  Similarity=0.692  Sum_probs=18.8

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++|+|||+|+ ..++++.
T Consensus         4 Ki~~vG~~~vGKSsLi-~~~~~~~   26 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLM-HRYVNDK   26 (175)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHcCC
Confidence            6889999999999998 5666543

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=84.15  E-value=0.24  Score=43.28  Aligned_cols=22  Identities=23%  Similarity=0.255  Sum_probs=18.1

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +.|.||+|+||+|++ ..|++.-
T Consensus         6 I~I~GppGSGKgT~a-k~La~~~   27 (225)
T d1ckea_           6 ITIDGPSGAGKGTLC-KAMAEAL   27 (225)
T ss_dssp             EEEECCTTSSHHHHH-HHHHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHHHh
Confidence            679999999999998 6666544

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.05  E-value=0.23  Score=42.13  Aligned_cols=22  Identities=14%  Similarity=0.447  Sum_probs=18.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+.++
T Consensus         4 Kv~liG~~~vGKSsLi-~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMI-QRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6789999999999998 555543

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=84.05  E-value=0.19  Score=43.49  Aligned_cols=22  Identities=27%  Similarity=0.430  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.|+|++|+|||+|+ ..++++
T Consensus         7 Ki~ivG~~~vGKTsLi-~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFL-YRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHH-HHHHCS
T ss_pred             EEEEECCCCcCHHHHH-HHHhcC
Confidence            6889999999999997 666654

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=83.91  E-value=0.5  Score=42.90  Aligned_cols=20  Identities=30%  Similarity=0.617  Sum_probs=15.9

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      -.+++|++|+|||+|+ .-++
T Consensus        45 n~lLvG~pGVGKTalv-~~LA   64 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIV-EGLA   64 (195)
T ss_dssp             EEEEECCTTSCHHHHH-HHHH
T ss_pred             CeEEEecCCcccHHHH-HHHH
Confidence            4579999999999998 4343

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.86  E-value=0.21  Score=42.50  Aligned_cols=21  Identities=24%  Similarity=0.433  Sum_probs=17.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.++|++|+|||+|+ ..+++
T Consensus         4 Ki~viG~~~vGKTsLi-~r~~~   24 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLV-LRFVK   24 (171)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHT
T ss_pred             EEEEECCCCCCHHHHH-HHHHh
Confidence            7889999999999997 55554

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=83.82  E-value=0.25  Score=42.04  Aligned_cols=22  Identities=14%  Similarity=0.495  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..++++
T Consensus         5 Ki~vvG~~~vGKTsLi-~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIV-LRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            7889999999999997 555544

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.75  E-value=0.24  Score=42.42  Aligned_cols=22  Identities=23%  Similarity=0.604  Sum_probs=18.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++++|||+|+ ..++++
T Consensus         8 KI~vvG~~~vGKSSli-~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLM-NRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHhC
Confidence            6889999999999997 666654

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=83.64  E-value=0.3  Score=40.86  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=17.6

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-+.|.|++|+||||++ ..+...
T Consensus         7 ~iivl~G~~GsGKsT~a-~~La~~   29 (171)
T d1knqa_           7 HIYVLMGVSGSGKSAVA-SEVAHQ   29 (171)
T ss_dssp             EEEEEECSTTSCHHHHH-HHHHHH
T ss_pred             eEEEEECCCCCCHHHHH-HHHHHH
Confidence            34568999999999998 555543

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=83.17  E-value=0.26  Score=42.08  Aligned_cols=22  Identities=27%  Similarity=0.439  Sum_probs=18.2

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |++++|++|+|||+|+ ..++++
T Consensus         4 Ki~lvG~~~vGKTsli-~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALV-VRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHhC
Confidence            6789999999999998 556653

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=83.16  E-value=0.24  Score=41.80  Aligned_cols=25  Identities=20%  Similarity=0.343  Sum_probs=20.0

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      +-=|++++|.+|+|||||+ ..+.+.
T Consensus        14 k~~kI~vvG~~~~GKSsLi-~rl~~~   38 (177)
T d1zj6a1          14 QEHKVIIVGLDNAGKTTIL-YQFSMN   38 (177)
T ss_dssp             SCEEEEEEESTTSSHHHHH-HHHHTT
T ss_pred             CeEEEEEECCCCCCHHHHH-HHHhcC
Confidence            3348899999999999997 666654

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=83.16  E-value=0.26  Score=42.15  Aligned_cols=22  Identities=23%  Similarity=0.480  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++++|||+|+ ..+++.
T Consensus         6 KivlvG~~~vGKTsli-~~~~~~   27 (168)
T d1u8za_           6 KVIMVGSGGVGKSALT-LQFMYD   27 (168)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            7899999999999997 566543

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.87  E-value=0.3  Score=41.85  Aligned_cols=22  Identities=27%  Similarity=0.531  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+.+.
T Consensus         6 Ki~vvG~~~vGKTsLi-~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLL-SRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6899999999999997 666653

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.86  E-value=0.28  Score=41.77  Aligned_cols=22  Identities=32%  Similarity=0.484  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+++.
T Consensus         7 Ki~vvG~~~vGKTsLi-~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFL-FRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHcC
Confidence            6889999999999997 666654

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.78  E-value=0.27  Score=41.88  Aligned_cols=22  Identities=27%  Similarity=0.490  Sum_probs=18.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+++.
T Consensus         7 Ki~lvG~~~vGKTsLi-~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLV-RRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            7889999999999997 566653

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=82.72  E-value=0.27  Score=41.61  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|. ..+++.
T Consensus         4 Ki~vvG~~~vGKTSli-~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLL-VRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6789999999999997 667654

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=82.69  E-value=0.29  Score=45.58  Aligned_cols=21  Identities=29%  Similarity=0.357  Sum_probs=18.0

Q ss_pred             eeeeeccCCCCchHhHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTII  228 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~  228 (539)
                      .++|.|++||||||.++..|+
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~   46 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIA   46 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEecCCccHHHHHHHHHH
Confidence            478999999999999877664

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=82.66  E-value=0.22  Score=42.00  Aligned_cols=21  Identities=29%  Similarity=0.453  Sum_probs=17.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |++|+|++|+|||+|+ ..+.+
T Consensus         4 ki~ivG~~~~GKTsLi-~~l~~   24 (165)
T d1ksha_           4 RLLMLGLDNAGKTTIL-KKFNG   24 (165)
T ss_dssp             EEEEECSTTSSHHHHH-HHHTT
T ss_pred             EEEEECCCCCCHHHHH-HHHcC
Confidence            7889999999999997 55543

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=82.64  E-value=0.28  Score=42.37  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+++.
T Consensus         7 KivviG~~~vGKTsli-~~~~~~   28 (183)
T d1mh1a_           7 KCVVVGDGAVGKTCLL-ISYTTN   28 (183)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHHhC
Confidence            7889999999999997 566643

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=82.41  E-value=0.96  Score=41.12  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=19.9

Q ss_pred             ccceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        205 RGQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       205 rGQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++-++++|+.|+||||.+ ..+++..
T Consensus         5 ~~~vi~lvGptGvGKTTTi-aKLA~~~   30 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTI-AKLGRYY   30 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHH-HHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHH-HHHHHHH
Confidence            5677789999999999987 4455443

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=82.29  E-value=0.28  Score=42.09  Aligned_cols=23  Identities=30%  Similarity=0.616  Sum_probs=19.9

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |++|+|.+++|||||. +.+.+..
T Consensus        10 kV~iiG~~~~GKSTLi-n~l~~~~   32 (186)
T d1mkya2          10 KVAIVGRPNVGKSTLF-NAILNKE   32 (186)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHTST
T ss_pred             EEEEECCCCCCHHHHH-HHHHCCC
Confidence            7899999999999997 7787654

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.93  E-value=0.3  Score=41.83  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=18.2

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+++.
T Consensus         4 KivvvG~~~vGKTsLi-~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLL-IVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6789999999999997 555544

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=81.86  E-value=0.37  Score=42.97  Aligned_cols=23  Identities=26%  Similarity=0.271  Sum_probs=18.9

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .+++.|++|+|||+++ ..+++..
T Consensus        47 ~lll~Gp~G~GKTtla-~~iak~l   69 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAA-LALAREL   69 (231)
T ss_dssp             EEEEESCTTSSHHHHH-HHHHHHH
T ss_pred             eEEEECCCCCcHHHHH-HHHHHHH
Confidence            4789999999999998 5666543

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.85  E-value=0.31  Score=41.34  Aligned_cols=22  Identities=23%  Similarity=0.484  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..+++.
T Consensus         5 KivvvG~~~vGKTsli-~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALT-VQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHC
T ss_pred             EEEEECCCCCCHHHHH-HHHHcC
Confidence            6889999999999998 566544

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.79  E-value=0.31  Score=41.53  Aligned_cols=22  Identities=36%  Similarity=0.637  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++|+|||+|+ ..++++
T Consensus         7 KI~lvG~~~vGKTsll-~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLL-HQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            6889999999999998 566543

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=81.69  E-value=0.29  Score=43.95  Aligned_cols=22  Identities=23%  Similarity=0.375  Sum_probs=18.4

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      .++|.|++|+|||+++ ..++++
T Consensus        35 ~lll~Gp~G~GKTt~~-~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRC-MALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHH-HTHHHH
T ss_pred             eEEEECCCCCCHHHHH-HHHHHh
Confidence            4789999999999998 566654

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=81.64  E-value=0.35  Score=41.34  Aligned_cols=24  Identities=17%  Similarity=0.354  Sum_probs=18.0

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +-+-++|.+|+||||++ ..+++.-
T Consensus         3 ~~Iil~G~~GsGKSTia-~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVG-RELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHH-HHHHHHH
T ss_pred             CCEEEECCCCCCHHHHH-HHHHHHh
Confidence            34668899999999998 5555443

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=81.59  E-value=0.33  Score=41.54  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=19.4

Q ss_pred             ceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        207 QRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       207 QR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      -|+.++|++++|||+|+ ..++++.
T Consensus         5 ~Ki~lvG~~~vGKTsll-~~~~~~~   28 (169)
T d1x1ra1           5 YKLVVVGDGGVGKSALT-IQFFQKI   28 (169)
T ss_dssp             EEEEEECCTTSSHHHHH-HHHHHSS
T ss_pred             EEEEEECCCCcCHHHHH-HHHHhCC
Confidence            37889999999999998 6666543

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.58  E-value=0.34  Score=41.21  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=18.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.++|++++|||+|+ ..++++
T Consensus         8 Ki~vvG~~~vGKTsli-~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLL-VRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCcCHHHHH-HHHHhC
Confidence            7899999999999997 566654

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.33  E-value=0.33  Score=41.64  Aligned_cols=23  Identities=30%  Similarity=0.504  Sum_probs=19.1

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |+.++|++++|||+|. ..+.++.
T Consensus         9 Ki~vvG~~~vGKTsli-~~l~~~~   31 (177)
T d1x3sa1           9 KILIIGESGVGKSSLL-LRFTDDT   31 (177)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHHSC
T ss_pred             EEEEECCCCcCHHHHH-HHHHhCC
Confidence            6889999999999997 6676543

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=81.26  E-value=0.36  Score=41.09  Aligned_cols=21  Identities=14%  Similarity=0.479  Sum_probs=16.6

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |+.++|.+|+||||++ ..+..
T Consensus         3 ~IvliG~~G~GKSTig-~~La~   23 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIG-RRLAK   23 (165)
T ss_dssp             SEEEECSTTSSHHHHH-HHHHH
T ss_pred             cEEEECCCCCCHHHHH-HHHHH
Confidence            5678899999999998 44443

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=81.08  E-value=0.35  Score=40.89  Aligned_cols=21  Identities=24%  Similarity=0.436  Sum_probs=17.7

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |++++|++++|||+|+ ..+.+
T Consensus         4 ki~i~G~~~~GKTsLl-~~l~~   24 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFV-NVIAS   24 (164)
T ss_dssp             EEEEECSTTSSHHHHH-HHHHH
T ss_pred             EEEEECCCCCCHHHHH-HHHHc
Confidence            6789999999999997 55654

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=80.97  E-value=1.5  Score=43.39  Aligned_cols=51  Identities=16%  Similarity=0.089  Sum_probs=17.4

Q ss_pred             eEEEEEecCCCChhhhhhhhHHH--HHHHHHHHHCCCcEEEEecChhHHHHHh
Q psy13776        311 YTIIVSATASDAAPLQYLAPYSG--CAMGEFFRDNGKHALIIYDDLSKQAVAY  361 (539)
Q Consensus       311 ~tvvV~atad~~a~~r~~ap~~a--~tiAEyFrd~GkdVLli~DslTr~A~A~  361 (539)
                      +.++....+.--++.+|+.-|-.  ..+-+.......++++++|++..+..+.
T Consensus        79 ~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g  131 (387)
T d1qvra2          79 KRIVSLQMGSLLAGAKYRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAG  131 (387)
T ss_dssp             CEEEEECC-----------CHHHHHHHHHHHHHTTCSSEEEEECCC-------
T ss_pred             ceEEEeeHhhhhcccCcchhHHHHHHHHHHHhccCCCceEEEeccHHHHhcCC
Confidence            33444444444444444444422  1333334444447889999988776543

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=80.94  E-value=0.37  Score=42.72  Aligned_cols=22  Identities=27%  Similarity=0.294  Sum_probs=18.4

Q ss_pred             eeeeccCCCCchHhHHHHHHHhh
Q psy13776        209 ELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      +++.|++|+|||+++ ..++++.
T Consensus        36 lll~Gp~G~GKTtl~-~~i~~~l   57 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTI-LALTKEL   57 (237)
T ss_dssp             EEEECSTTSSHHHHH-HHHHHHH
T ss_pred             EEEECCCCCChHHHH-HHHHHHH
Confidence            789999999999998 5676653

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=80.93  E-value=0.22  Score=42.33  Aligned_cols=21  Identities=33%  Similarity=0.545  Sum_probs=17.2

Q ss_pred             eeeeeccCCCCchHhHHHHHHH
Q psy13776        208 RELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      |++++|++++|||+|. ..+.+
T Consensus        18 kI~vvG~~~vGKSsLi-~~l~~   38 (176)
T d1fzqa_          18 RILLLGLDNAGKTTLL-KQLAS   38 (176)
T ss_dssp             EEEEEESTTSSHHHHH-HHHCC
T ss_pred             EEEEECCCCCCHHHHH-HHHhc
Confidence            6789999999999997 55543

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=80.91  E-value=0.33  Score=40.48  Aligned_cols=25  Identities=24%  Similarity=0.550  Sum_probs=20.4

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHhh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      |=|++++|.+++|||||. ..+.++.
T Consensus         1 ~~kI~lvG~~nvGKSsLi-n~l~~~~   25 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLL-NALAGRE   25 (161)
T ss_dssp             CEEEEEEESTTSSHHHHH-HHHHTSC
T ss_pred             CCEEEEECCCCCCHHHHH-HHHhCCC
Confidence            447899999999999996 7777543

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=80.68  E-value=0.44  Score=41.19  Aligned_cols=24  Identities=17%  Similarity=0.394  Sum_probs=19.6

Q ss_pred             cceeeeeccCCCCchHhHHHHHHHh
Q psy13776        206 GQRELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       206 GQR~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+=+.|.||+|+|||||+ +.++..
T Consensus         2 G~iivl~GpsG~GK~tl~-~~L~~~   25 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVV-RCLRER   25 (182)
T ss_dssp             CCEEEEECSTTSSHHHHH-HHHHHH
T ss_pred             CeEEEEECCCCCCHHHHH-HHHHhh
Confidence            566789999999999997 666654

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.52  E-value=0.36  Score=41.86  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=18.3

Q ss_pred             eeeeeccCCCCchHhHHHHHHHh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQ  230 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq  230 (539)
                      |+.|+|++|+|||+|+ ..+++.
T Consensus        11 Ki~lvG~~~vGKTsLi-~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLL-MSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHH-HHHHHS
T ss_pred             EEEEECCCCCCHHHHH-HHHhhC
Confidence            7899999999999997 556543

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=80.43  E-value=0.42  Score=38.23  Aligned_cols=27  Identities=19%  Similarity=0.251  Sum_probs=22.0

Q ss_pred             ccccceeeeeccCCCCchHhHHHHHHH
Q psy13776        203 IGRGQRELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       203 IGrGQR~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +-+||+..|.++.|+|||..++..++.
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~~   30 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQILA   30 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHHH
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHHH
Confidence            457999999999999999887655554

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=80.24  E-value=0.4  Score=40.04  Aligned_cols=20  Identities=15%  Similarity=0.277  Sum_probs=16.1

Q ss_pred             eeeeccCCCCchHhHHHHHHH
Q psy13776        209 ELIIGDRQTGKTALAIDTIIN  229 (539)
Q Consensus       209 ~lI~g~~gtGKTtLa~~~I~n  229 (539)
                      +.|.|++|+||||++ ..+..
T Consensus         4 I~i~G~~GsGKsT~~-~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSS-QLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHH-HHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHH
Confidence            478899999999998 55543

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=80.20  E-value=0.32  Score=41.43  Aligned_cols=23  Identities=22%  Similarity=0.382  Sum_probs=19.5

Q ss_pred             eeeeeccCCCCchHhHHHHHHHhh
Q psy13776        208 RELIIGDRQTGKTALAIDTIINQK  231 (539)
Q Consensus       208 R~lI~g~~gtGKTtLa~~~I~nq~  231 (539)
                      .++|+|.+++|||||. ..+.+++
T Consensus         2 ~I~lvG~~nvGKSsLi-n~l~~~~   24 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLI-YRLTGKK   24 (184)
T ss_dssp             EEEEEEBTTSSHHHHH-HHHHSCC
T ss_pred             EEEEECCCCCCHHHHH-HHHhCCC
Confidence            4789999999999997 8887654