Psyllid ID: psy210

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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-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-----
Protein Sequence
MGNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHccccccccccccHHHHHHccccHHHHcccccEEEEEcccccccHHHHcccccccccccEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEEEEEEEccccHHHHHHHHccccccccEEEEEEcccccccccccccEEEEEEccccccccccEEEEccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccEEEEEccccccHHHHHHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHcccccEEEEEEEEccccccccccccccccHHHHHHHccccEEEEEEcccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHccHHHHHHccccEEEccccEEEEEEEEEEccccccccccccEEEEcccEEEEEHHHHcccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccccHHHHEEEEEEEEcccEEEcccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHcccEEEEEEEccccccccccEEEEccccEEEcccccccccEEccccccccccccccccccccccccccccccccccccccccccEEEEEccccccccEEEEEccccccHHHHHHHHHHHHHcccccEEEEEEEccccHHHHHHHHHHHHcccccEEEEEEEcccccccccHHHHccccHHHHHHHccccEEEEEEEccHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHccccccEEEEEEEEEcccccccccccccEEEcccEEEEEHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHcccccccHcccHHHHHHcccHHHHHHHHHHHHEcccccccccHHHHHcccccccccEEEEEccccccccHHcHHHHHHHHHHHHHHccccEEEEEcEEEEEEcccEEEEEccccEEEcccHHHccccEEEEccccEEEEEEEccccccEEEEcccHHHcccccEEEEEEEEcEEEccHHHcccEEcccccEcccccccccccEEEccccccccccEcccccEcccccHHHHHHcccEcccEcEEEEcccccHHHHHHHHHHHcHHHccEEEEEEEcccHHHHHHHHHHHHHHccHHHEEEEEEcccccHHHHHHHHHHHHHHHHHHHHcccEEEEEEEcHHHHHHHHHHHHHHccccccHHHccccHHHHHHHHHccccEEcHHHcccccEEEccccEEEEEEEEEccccccccHHHHHHHccccEEEEEcHHHHHHcccccEcccccEEccHHHHccHHHHHHHccHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcHHHHHHHHHEEEEEEEccEEEEEEcccccccEcccEEEEEEEEcEEEEcHHHcccEEcccccEccccccccccEEEEcccccccHHHccccccEEccccHHHHHHccEEcccEEEEEEcccccHHHHHHHHHHHcccccccEEEEEEEcccHHHHHHHHHHHHHccccccEEEEEEEccccHHHHHHHHHHHHHHHHHHHHccccEEEEEEccHHHHHHHHHHcccccccccHHHccccHHHHHHHHHccccccccccEEEEEEEEcHHHccccHHHHHHHHHccEEEEEcHHHHcccccccEcccccEEccccHHHHcHHHHHHHHHHHHHHHHHHHHHHHHc
Coil and Loop (DISEMBL)
MGNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNktflitgprycpsiedkiykfpntknhqiflepegyysreLYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYnieydyfdprclnqtlnikfanntvlsgqingttGYEEAAAQGFVAVLIDDLKnltqgqkcfctekifeIPVGFELLGRIVnskgefidnKKKFLIKNREtvekiapgimdresvneplltgiksidsmipigkgqreliigdrqtgkttIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADsaaeqyispytgctigEYFRDLGQDCLIIYDDLTKHAWAYRQISLLlrrppgreafpgdvFYLHSRLLERSSKINKYFLEKKKIFnknngtltafpiietlegdvtsfiptnvisitdgqifldtnlfnsnyrpainvglsvsrvggAAQYKIVKKLSGDIRIMLAQYRELEsfskfssdldivtKTQLYNGEKISLLMkqkphenysIVELIIILLIIKNrfffkipikQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAfgntngikrntivvdtgkpiltpvgdctLGRILNvlgdpidnkgeinskkkspihtlppkfsnqifnNNILETGIKVIDLLcpflkggkiglfggagvgktVNMMELIRNIAIEHKGCSVFIGVgersregndfyhemkesnvlDKVSLIYGqmnepsgnrLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSamlgrtpsavgyqpTLAEEMGKLQERIsstkngtitsvqaiyvpaddltdpspsttfthldSTIVLSRQIAElgiypaidplesyskqldpyivgeeHYKVANEVKFYLQKYKELKDTST
Flexible Loop (DISEMBL)
MGNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKkitglnysSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNskgefidnkkkfliknretvekiapgimdresvnePLLTGIKSIDSMIPIGKGQreliigdrqtgkTTIAIdtiinqknkNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKifnknngtlTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGlsvsrvggAAQYKIVKKLSGDIRIMLAQYRELEsfskfssdldiVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIafgntngikrntivvdtgkpiltpvgdcTLGRILNVLgdpidnkgeinskkkspihtlppkfsNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQmnepsgnrLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGiypaidplesySKQLDPYIVGEEHYKVANEVKFYLQkykelkdtst
Low Complexity Region (SEG)
MGNIPLFAASIMMGLASigtgigfgilggkllESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYtvvvaataadsaaEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVEliiilliiKNRFFFKIPIKQIELFEINIIKYFRiinlknnisinkVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLkggkiglfggagvgkTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST
Disordered region (IsUnstruct)
***IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPID*****************PKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY*********************TITSVQAIYVPADDL******TTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKY********
Disordered Region (DISOPRED)
**N*PLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTK*H*IFLE*********************************NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTS*
Disordered Region (DISEMBL)
MGNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST
Disordered Region (DISPRO)
*GNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTS*
Transmembrane Helix (TMHMM)
iiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooHHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST
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	915	2.2.26 [Sep-21-2011]
Q05FY3	481	ATP synthase subunit alph	yes	N/A	0.449	0.854	0.762	1e-178
Q05FY1	447	ATP synthase subunit beta	no	N/A	0.338	0.693	0.891	1e-174
Q1QSD0	458	ATP synthase subunit beta	yes	N/A	0.363	0.727	0.696	1e-149
A9NBD0	461	ATP synthase subunit beta	yes	N/A	0.369	0.733	0.737	1e-149
Q83AF5	461	ATP synthase subunit beta	yes	N/A	0.369	0.733	0.737	1e-149
A9KBF7	461	ATP synthase subunit beta	yes	N/A	0.369	0.733	0.737	1e-149
Q60CR4	460	ATP synthase subunit beta	yes	N/A	0.337	0.671	0.734	1e-148
Q9CKW1	457	ATP synthase subunit beta	yes	N/A	0.387	0.776	0.696	1e-147
Q0A4M8	458	ATP synthase subunit beta	yes	N/A	0.337	0.674	0.725	1e-147
A6W3S8	458	ATP synthase subunit beta	yes	N/A	0.367	0.733	0.679	1e-147

>sp|Q05FY3|ATPA_CARRP ATP synthase subunit alpha OS=Carsonella ruddii (strain PV) GN=atpA PE=3 SV=1

 Score =  625 bits (1612), Expect = e-178,   Method: Compositional matrix adjust.
 Identities = 314/412 (76%), Positives = 358/412 (86%), Gaps = 1/412 (0%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           +++++   LTQG+KC+CT KIFE+PVG +L+GRI+NS+GE +D   +  I     +EKIA
Sbjct: 50  IILNNYNELTQGEKCYCTNKIFEVPVGKQLIGRIINSRGETLDLLPEIKINEFSPIEKIA 109

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG+MDRE+VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI IDTIINQKNKN+IC
Sbjct: 110 PGVMDRETVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTICIDTIINQKNKNIIC 169

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           +YVCIGQKISSLIN+INKLK +NC++YT++VA+TA+DSAAEQYI+PYTG TI EYFRD G
Sbjct: 170 VYVCIGQKISSLINIINKLKKFNCLEYTIIVASTASDSAAEQYIAPYTGSTISEYFRDKG 229

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           QDCLI+YDDLTKHAWAYRQISLLLRRPPGREA+PGDVFYLHSRLLERSSK+NK+F+ KK 
Sbjct: 230 QDCLIVYDDLTKHAWAYRQISLLLRRPPGREAYPGDVFYLHSRLLERSSKVNKFFVNKKS 289

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
              K  G+LTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNS  RP+INVGLSVS
Sbjct: 290 NILK-AGSLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSGIRPSINVGLSVS 348

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQYKI+KKLSGDIRIMLAQYRELE+FSKFSSDLD  TK QL  GEKI++LMKQ  
Sbjct: 349 RVGGAAQYKIIKKLSGDIRIMLAQYRELEAFSKFSSDLDSETKNQLIIGEKITILMKQNI 408

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISIN 580
           H+ Y I ELI+ILLIIK+ FF  IPI Q+E FE  II Y R I  KN I I+
Sbjct: 409 HDVYDIFELILILLIIKHDFFRLIPINQVEYFENKIINYLRKIKFKNQIEID 460

Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.
Carsonella ruddii (strain PV) (taxid: 387662)
EC: 3EC: .EC: 6EC: .EC: 3EC: .EC: 1EC: 4

>sp|Q05FY1|ATPB_CARRP ATP synthase subunit beta OS=Carsonella ruddii (strain PV) GN=atpD PE=3 SV=1

 Score =  613 bits (1580), Expect = e-174,   Method: Compositional matrix adjust.
 Identities = 297/333 (89%), Positives = 316/333 (94%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +VQQQIG NIVRTIA G+T G+KR  +V+DT KPILTPVG+CTLGRILNVLG+PIDN GE
Sbjct: 39  EVQQQIGNNIVRTIALGSTYGLKRYLLVIDTKKPILTPVGNCTLGRILNVLGNPIDNNGE 98

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
           I S KK PIH  PPKFS+Q+F+NNILETGIKVIDLLCPFL+GGKIGLFGGAGVGKT+NMM
Sbjct: 99  IISNKKKPIHCSPPKFSDQVFSNNILETGIKVIDLLCPFLRGGKIGLFGGAGVGKTINMM 158

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELIRNIAIEHKGCSVFIGVGER+REGNDFY+EMKESNVLDKVSLIYGQMNEPSGNRLRVA
Sbjct: 159 ELIRNIAIEHKGCSVFIGVGERTREGNDFYYEMKESNVLDKVSLIYGQMNEPSGNRLRVA 218

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           LTGLSIAEEFR  GKDVLLFIDNIYRFTLAGTE+SA+LGR PSAVGYQPTLAEEMGKLQE
Sbjct: 219 LTGLSIAEEFREMGKDVLLFIDNIYRFTLAGTEISALLGRMPSAVGYQPTLAEEMGKLQE 278

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RISSTKNG+ITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY
Sbjct: 279 RISSTKNGSITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 338

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT 913
           SKQLDPYIVG EHY++AN VKFYLQKYKELKDT
Sbjct: 339 SKQLDPYIVGIEHYEIANSVKFYLQKYKELKDT 371

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Carsonella ruddii (strain PV) (taxid: 387662)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|Q1QSD0|ATPB_CHRSD ATP synthase subunit beta OS=Chromohalobacter salexigens (strain DSM 3043 / ATCC BAA-138 / NCIMB 13768) GN=atpD PE=3 SV=1

 Score =  529 bits (1362), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 248/356 (69%), Positives = 294/356 (82%)

Query: 557 IELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPIL 616
           +E     + K +  + + +  +I +VQQQ+G+ +VR IA G T G+KR   VV++G  I 
Sbjct: 15  VEFPRDAVPKVYDALKVSDTETILEVQQQLGDGVVRAIAMGTTEGLKRGLDVVNSGSAIS 74

Query: 617 TPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLL 676
            PVG  TLGRI+NVLG+PID  GEI   ++ PIH   P ++ Q  +N +LETGIKVIDL+
Sbjct: 75  VPVGKATLGRIMNVLGEPIDEAGEIGEDERMPIHRKAPSYAEQAASNELLETGIKVIDLV 134

Query: 677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES 736
           CPF KGGK+GLFGGAGVGKTVNMMELIRNIA EH G SVF GVGER+REGNDFYHEM+ES
Sbjct: 135 CPFAKGGKVGLFGGAGVGKTVNMMELIRNIATEHSGYSVFAGVGERTREGNDFYHEMQES 194

Query: 737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA 796
           NVLDKVSL+YGQMNEP GNRLRVALTGL+IAE+FR+ G+DVLLF+DNIYR+TLAGTEVSA
Sbjct: 195 NVLDKVSLVYGQMNEPPGNRLRVALTGLTIAEKFRDDGRDVLLFVDNIYRYTLAGTEVSA 254

Query: 797 MLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLD 856
           +LGR PSAVGYQPTLAEEMG LQERI+STK G+ITSVQA+YVPADDLTDPSP+TTF+HLD
Sbjct: 255 LLGRMPSAVGYQPTLAEEMGVLQERITSTKTGSITSVQAVYVPADDLTDPSPATTFSHLD 314

Query: 857 STIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +T+VL+R IAELGIYPAIDPL+S S+QLDP  VGEEHY  A  V+  LQ+YKELKD
Sbjct: 315 ATVVLARSIAELGIYPAIDPLDSTSRQLDPLTVGEEHYNTARGVQGVLQRYKELKD 370

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Chromohalobacter salexigens (strain DSM 3043 / ATCC BAA-138 / NCIMB 13768) (taxid: 290398)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|A9NBD0|ATPB_COXBR ATP synthase subunit beta OS=Coxiella burnetii (strain RSA 331 / Henzerling II) GN=atpD PE=3 SV=1

 Score =  528 bits (1360), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 250/339 (73%), Positives = 292/339 (86%), Gaps = 1/339 (0%)

Query: 574 KNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGD 633
           +NN+++ +VQQQ+G+ +VRTIA G+T G+KR+  V +T KPI  PVG  TLGRI+NVLG+
Sbjct: 37  ENNLTL-EVQQQLGDGVVRTIAMGSTEGLKRDIAVKNTEKPIEVPVGKETLGRIMNVLGE 95

Query: 634 PIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGV 693
           PID  G INSK+K PIH   P F  Q     +LETGIKV+DLLCPF KGGK+GLFGGAGV
Sbjct: 96  PIDELGPINSKEKLPIHRPAPSFIEQSGTTELLETGIKVVDLLCPFAKGGKVGLFGGAGV 155

Query: 694 GKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPS 753
           GKTVNMMELIRNIAIEH G SVF GVGER+REGNDFYHEMKESNVLDKV+L+YGQMNEP 
Sbjct: 156 GKTVNMMELIRNIAIEHSGYSVFAGVGERTREGNDFYHEMKESNVLDKVALVYGQMNEPP 215

Query: 754 GNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE 813
           GNRLRV LTGL++AE FR+ G+DVLLFIDNI+R+TLAG EVSA+LGR PSAVGYQPTLAE
Sbjct: 216 GNRLRVGLTGLTLAEAFRDEGRDVLLFIDNIFRYTLAGVEVSALLGRMPSAVGYQPTLAE 275

Query: 814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPA 873
           EMG LQERI+STK G+ITS+QA+YVPADDLTDPSP+TTF HLD+T+VLSRQIAE GIYPA
Sbjct: 276 EMGALQERITSTKKGSITSIQAVYVPADDLTDPSPATTFAHLDATVVLSRQIAERGIYPA 335

Query: 874 IDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           IDPL+S S+QLDP I+GEEHY+VA  V+  LQ+Y+ELKD
Sbjct: 336 IDPLDSTSRQLDPLIIGEEHYRVARGVQETLQRYEELKD 374

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Coxiella burnetii (strain RSA 331 / Henzerling II) (taxid: 360115)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|Q83AF5|ATPB_COXBU ATP synthase subunit beta OS=Coxiella burnetii (strain RSA 493 / Nine Mile phase I) GN=atpD PE=3 SV=1

 Score =  528 bits (1359), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 250/339 (73%), Positives = 292/339 (86%), Gaps = 1/339 (0%)

Query: 574 KNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGD 633
           +NN+++ +VQQQ+G+ +VRTIA G+T G+KR+  V +T KPI  PVG  TLGRI+NVLG+
Sbjct: 37  ENNLTL-EVQQQLGDGVVRTIAMGSTEGLKRDIAVKNTEKPIEVPVGKETLGRIMNVLGE 95

Query: 634 PIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGV 693
           PID  G INSK+K PIH   P F  Q     +LETGIKV+DLLCPF KGGK+GLFGGAGV
Sbjct: 96  PIDELGPINSKEKLPIHRPAPSFIEQSGATELLETGIKVVDLLCPFAKGGKVGLFGGAGV 155

Query: 694 GKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPS 753
           GKTVNMMELIRNIAIEH G SVF GVGER+REGNDFYHEMKESNVLDKV+L+YGQMNEP 
Sbjct: 156 GKTVNMMELIRNIAIEHSGYSVFAGVGERTREGNDFYHEMKESNVLDKVALVYGQMNEPP 215

Query: 754 GNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE 813
           GNRLRV LTGL++AE FR+ G+DVLLFIDNI+R+TLAG EVSA+LGR PSAVGYQPTLAE
Sbjct: 216 GNRLRVGLTGLTLAEAFRDEGRDVLLFIDNIFRYTLAGVEVSALLGRMPSAVGYQPTLAE 275

Query: 814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPA 873
           EMG LQERI+STK G+ITS+QA+YVPADDLTDPSP+TTF HLD+T+VLSRQIAE GIYPA
Sbjct: 276 EMGALQERITSTKKGSITSIQAVYVPADDLTDPSPATTFAHLDATVVLSRQIAERGIYPA 335

Query: 874 IDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           IDPL+S S+QLDP I+GEEHY+VA  V+  LQ+Y+ELKD
Sbjct: 336 IDPLDSTSRQLDPLIIGEEHYRVARGVQETLQRYEELKD 374

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Coxiella burnetii (strain RSA 493 / Nine Mile phase I) (taxid: 227377)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|A9KBF7|ATPB_COXBN ATP synthase subunit beta OS=Coxiella burnetii (strain Dugway 5J108-111) GN=atpD PE=3 SV=1

 Score =  528 bits (1359), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 250/339 (73%), Positives = 292/339 (86%), Gaps = 1/339 (0%)

Query: 574 KNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGD 633
           +NN+++ +VQQQ+G+ +VRTIA G+T G+KR+  V +T KPI  PVG  TLGRI+NVLG+
Sbjct: 37  ENNLTL-EVQQQLGDGVVRTIAMGSTEGLKRDIAVKNTEKPIEVPVGKETLGRIMNVLGE 95

Query: 634 PIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGV 693
           PID  G INSK+K PIH   P F  Q     +LETGIKV+DLLCPF KGGK+GLFGGAGV
Sbjct: 96  PIDELGPINSKEKLPIHRPAPSFIEQSGATELLETGIKVVDLLCPFAKGGKVGLFGGAGV 155

Query: 694 GKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPS 753
           GKTVNMMELIRNIAIEH G SVF GVGER+REGNDFYHEMKESNVLDKV+L+YGQMNEP 
Sbjct: 156 GKTVNMMELIRNIAIEHSGYSVFAGVGERTREGNDFYHEMKESNVLDKVALVYGQMNEPP 215

Query: 754 GNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE 813
           GNRLRV LTGL++AE FR+ G+DVLLFIDNI+R+TLAG EVSA+LGR PSAVGYQPTLAE
Sbjct: 216 GNRLRVGLTGLTLAEAFRDEGRDVLLFIDNIFRYTLAGVEVSALLGRMPSAVGYQPTLAE 275

Query: 814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPA 873
           EMG LQERI+STK G+ITS+QA+YVPADDLTDPSP+TTF HLD+T+VLSRQIAE GIYPA
Sbjct: 276 EMGALQERITSTKKGSITSIQAVYVPADDLTDPSPATTFAHLDATVVLSRQIAERGIYPA 335

Query: 874 IDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           IDPL+S S+QLDP I+GEEHY+VA  V+  LQ+Y+ELKD
Sbjct: 336 IDPLDSTSRQLDPLIIGEEHYRVARGVQETLQRYEELKD 374

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Coxiella burnetii (strain Dugway 5J108-111) (taxid: 434922)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|Q60CR4|ATPB_METCA ATP synthase subunit beta OS=Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath) GN=atpD PE=3 SV=1

 Score =  526 bits (1354), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 244/332 (73%), Positives = 285/332 (85%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +VQQQ+G+ +VR IA G+T+G++R   V +TG PI  PVG  TLGRI+NVLGDPID KG 
Sbjct: 40  EVQQQLGDGVVRCIAMGSTDGVRRGVTVTNTGAPISVPVGTETLGRIMNVLGDPIDEKGP 99

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
           I  K++  IH   P + +Q   N +LETGIKVIDL+CPF KGGK+GLFGGAGVGKTVNMM
Sbjct: 100 IGEKERWGIHRKAPSYQDQAAANELLETGIKVIDLICPFAKGGKVGLFGGAGVGKTVNMM 159

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELIRNIAIEH G SVF GVGER+REGNDFYHEMKESNVLDKVSL+YGQMNEP GNRLRVA
Sbjct: 160 ELIRNIAIEHSGYSVFAGVGERTREGNDFYHEMKESNVLDKVSLVYGQMNEPPGNRLRVA 219

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           LTGL+IAE+FR+ G+DVLLFIDNIYR+TLAGTEVSA+LGR PSAVGYQP LAEEMG LQE
Sbjct: 220 LTGLTIAEKFRDEGRDVLLFIDNIYRYTLAGTEVSALLGRMPSAVGYQPNLAEEMGILQE 279

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RI+STK G+ITS+QA+YVPADDLTDPSP+TTF HLD+T+VLSRQIAELGIYPA+DPL+S 
Sbjct: 280 RITSTKTGSITSIQAVYVPADDLTDPSPATTFAHLDATVVLSRQIAELGIYPAVDPLDST 339

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           S+QLDP ++G EHY+    V+  LQ+YKEL+D
Sbjct: 340 SRQLDPLVIGHEHYETTRRVQSTLQRYKELRD 371

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath) (taxid: 243233)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|Q9CKW1|ATPB_PASMU ATP synthase subunit beta OS=Pasteurella multocida (strain Pm70) GN=atpD PE=3 SV=1

 Score =  524 bits (1350), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 248/356 (69%), Positives = 297/356 (83%), Gaps = 1/356 (0%)

Query: 557 IELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPIL 616
           +E  +  + K +  +N++  + + +VQQQ+G  +VR IA G+++G+KR   V +T  PI 
Sbjct: 16  VEFPQDAVPKVYDALNVETGLVL-EVQQQLGGGVVRCIAMGSSDGLKRGLSVTNTNNPIS 74

Query: 617 TPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLL 676
            PVG  TLGRI+NVLG+PID +GEI +++   IH  PP +  Q  +  +LETGIKVIDL+
Sbjct: 75  VPVGTKTLGRIMNVLGEPIDEQGEIGAEENWSIHRAPPSYEEQSNSTELLETGIKVIDLV 134

Query: 677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES 736
           CPF KGGK+GLFGGAGVGKTVNMMELIRNIAIEH G SVF GVGER+REGNDFYHEMK+S
Sbjct: 135 CPFAKGGKVGLFGGAGVGKTVNMMELIRNIAIEHSGYSVFAGVGERTREGNDFYHEMKDS 194

Query: 737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA 796
           NVLDKVSL+YGQMNEP GNRLRVALTGL++AE+FR+ G+DVL F+DNIYR+TLAGTEVSA
Sbjct: 195 NVLDKVSLVYGQMNEPPGNRLRVALTGLTMAEKFRDEGRDVLFFVDNIYRYTLAGTEVSA 254

Query: 797 MLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLD 856
           +LGR PSAVGYQPTLAEEMG LQERI+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD
Sbjct: 255 LLGRMPSAVGYQPTLAEEMGVLQERITSTKTGSITSVQAVYVPADDLTDPSPATTFAHLD 314

Query: 857 STIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           ST+VLSRQIA LGIYPA+DPLES S+QLDP +VGEEHY VA  V+  LQ+YKELKD
Sbjct: 315 STVVLSRQIASLGIYPAVDPLESTSRQLDPLVVGEEHYNVARGVQTTLQRYKELKD 370

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Pasteurella multocida (strain Pm70) (taxid: 272843)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|Q0A4M8|ATPB_ALHEH ATP synthase subunit beta OS=Alkalilimnicola ehrlichei (strain MLHE-1) GN=atpD PE=3 SV=1

 Score =  523 bits (1347), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 241/332 (72%), Positives = 288/332 (86%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +VQQQ+G+ +VRTIA G+++G+KR+  V  TGKPI  PVG  TLGRI++VLG+P+D KG 
Sbjct: 40  EVQQQLGDGVVRTIAMGSSDGLKRSEKVSATGKPISVPVGKGTLGRIMDVLGEPVDEKGA 99

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
           + ++++  IH   P F+ Q     +LETGIKVIDLLCPF KGGK+GLFGGAGVGKTVNMM
Sbjct: 100 VETEERWGIHRSAPSFAEQAGGAELLETGIKVIDLLCPFAKGGKVGLFGGAGVGKTVNMM 159

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELIRNIA EH G SVF GVGER+REGNDFYHEMK+SNVLDKV+L+YGQMNEP GNRLRVA
Sbjct: 160 ELIRNIATEHAGYSVFAGVGERTREGNDFYHEMKDSNVLDKVALVYGQMNEPPGNRLRVA 219

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           LTGL++AE FR+ G+D+L+FIDNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEEMGKLQE
Sbjct: 220 LTGLTMAEYFRDEGRDILMFIDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGKLQE 279

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RI+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD+T+VL+R IAELGIYPA+DPL+S 
Sbjct: 280 RITSTKTGSITSVQAVYVPADDLTDPSPATTFAHLDATVVLARGIAELGIYPAVDPLDST 339

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           S+QLDP +VGEEHY VA  V+  LQ+YKEL+D
Sbjct: 340 SRQLDPLVVGEEHYNVARGVQGVLQRYKELRD 371

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Alkalilimnicola ehrlichei (strain MLHE-1) (taxid: 187272)

EC: 3

EC: .

EC: 6

EC: .

EC: 3

EC: .

EC: 1

EC: 4

>sp|A6W3S8|ATPB2_MARMS ATP synthase subunit beta 2 OS=Marinomonas sp. (strain MWYL1) GN=atpD2 PE=3 SV=1

 Score =  523 bits (1347), Expect = e-147,   Method: Compositional matrix adjust.
 Identities = 244/359 (67%), Positives = 299/359 (83%)

Query: 554 IKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGK 613
           +  +E    ++ K +  + ++    + +VQQQ+G+ IVRTIA G+T+GIKR  +V +T K
Sbjct: 13  VMDVEFPRDSVPKVYDALTIEGKQLVLEVQQQLGDGIVRTIAMGSTDGIKRGLVVENTNK 72

Query: 614 PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVI 673
           P+  PVG  TLGRI++VLG+PID KG I  +++  IH   P ++ Q  +N +LETGIKVI
Sbjct: 73  PVSVPVGTKTLGRIMDVLGNPIDEKGPIGEEERWSIHRSAPSYAEQSSSNELLETGIKVI 132

Query: 674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM 733
           DL+CPF KGGK+GLFGGAGVGKTVNMMELIRNIAIEH G SVF GVGER+REGNDFYHEM
Sbjct: 133 DLVCPFAKGGKVGLFGGAGVGKTVNMMELIRNIAIEHSGYSVFAGVGERTREGNDFYHEM 192

Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTE 793
            +SNV+DKVSL+YGQMNEP GNRLRVALTGL++AE+FR+ G+DVL F+DNIYR+TLAGTE
Sbjct: 193 TDSNVIDKVSLVYGQMNEPPGNRLRVALTGLTMAEKFRDEGRDVLFFVDNIYRYTLAGTE 252

Query: 794 VSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFT 853
           VSA+LGR PSAVGYQPTLAEEMG LQERI+STK G+ITSVQA+YVPADDLTDPSP+TTF+
Sbjct: 253 VSALLGRMPSAVGYQPTLAEEMGVLQERITSTKTGSITSVQAVYVPADDLTDPSPATTFS 312

Query: 854 HLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           HLD+T+VLSR IA LGIYPAIDPL+S S+QLDP ++G+EHY VA  V+  LQ+YKELKD
Sbjct: 313 HLDATVVLSRDIASLGIYPAIDPLDSTSRQLDPLVIGQEHYDVARGVQMVLQRYKELKD 371

Produces ATP from ADP in the presence of a proton gradient across the membrane. The catalytic sites are hosted primarily by the beta subunits.

Marinomonas sp. (strain MWYL1) (taxid: 400668)

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	915
400404508	480	F0F1-type ATP synthase subunit alpha [Ca	0.449	0.856	0.810	0.0
400404270	480	F0F1-type ATP synthase subunit alpha [Ca	0.446	0.852	0.812	0.0
400403794	480	F0F1-type ATP synthase subunit alpha [Ca	0.448	0.854	0.796	1e-179
400404272	447	F0F1-type ATP synthase subunit beta [Can	0.392	0.803	0.869	1e-179
400404510	447	F0F1-type ATP synthase subunit beta [Can	0.392	0.803	0.861	1e-177
400404730	481	F0F1-type ATP synthase subunit alpha [Ca	0.455	0.866	0.760	1e-177
116334909	481	F0F1-type ATP synthase alpha subunit [Ca	0.449	0.854	0.762	1e-176
13272348	447	ATP synthase beta subunit [Candidatus Ca	0.338	0.693	0.891	1e-172
116334911	447	F0F1 ATP synthase subunit beta [Candidat	0.338	0.693	0.891	1e-172
400404732	447	F0F1-type ATP synthase subunit beta [Can	0.338	0.693	0.888	1e-172

>gi|400404508|ref|YP_006587483.1| F0F1-type ATP synthase subunit alpha [Candidatus Carsonella ruddii HT isolate Thao2000] gi|400362984|gb|AFP84054.1| F0F1-type ATP synthase alpha subunit [Candidatus Carsonella ruddii HT isolate Thao2000]

 Score =  657 bits (1696), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 334/412 (81%), Positives = 372/412 (90%), Gaps = 1/412 (0%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL+++ +NL QGQKCFCT K+FE+PVG ELLG+I+NSKGE ++ K K   K ++ +EKIA
Sbjct: 50  VLLNNFENLKQGQKCFCTNKVFEVPVGDELLGKILNSKGECLNIKHKLKTKKKDIIEKIA 109

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PGIMDR+SVNEPLLTGIK+ID MIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC
Sbjct: 110 PGIMDRDSVNEPLLTGIKAIDLMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 169

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           IYVCIGQKISSLINV+NKLK YNC++YT++VAATA+DSAAEQYI+PYTGCTIGEYFRDLG
Sbjct: 170 IYVCIGQKISSLINVVNKLKKYNCLEYTIIVAATASDSAAEQYIAPYTGCTIGEYFRDLG 229

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           +DCLIIYDDLTKHAW+YRQISLLL+RPPGREA+PGDVFYLHSRLLERSSK+N +FL+K  
Sbjct: 230 KDCLIIYDDLTKHAWSYRQISLLLKRPPGREAYPGDVFYLHSRLLERSSKVNHFFLKKNN 289

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
           I  K NGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNS  RPAINVGLSVS
Sbjct: 290 IL-KKNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSGIRPAINVGLSVS 348

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQ+KI+KKLSGDIRIMLAQYRELESFSKFSSDLD  TK QL NGEKI+LLMKQ+P
Sbjct: 349 RVGGAAQHKIIKKLSGDIRIMLAQYRELESFSKFSSDLDFETKNQLQNGEKITLLMKQQP 408

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISIN 580
             NYSI+EL+IILLIIKN FF KIP+ QIE FE  II+Y R IN  N + IN
Sbjct: 409 QNNYSIIELLIILLIIKNDFFIKIPVNQIEFFEKKIIQYVRSINFSNIVDIN 460

Source: Candidatus Carsonella ruddii HT isolate Thao2000

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|400404270|ref|YP_006587290.1| F0F1-type ATP synthase subunit alpha [Candidatus Carsonella ruddii HC isolate Thao2000] gi|400362791|gb|AFP83862.1| F0F1-type ATP synthase alpha subunit [Candidatus Carsonella ruddii HC isolate Thao2000]

 Score =  651 bits (1679), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 333/410 (81%), Positives = 377/410 (91%), Gaps = 1/410 (0%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL+++ +NL QGQKCFCT K+FE+PVG EL+G+I+NSKGE ++ K+K  IK ++ +EKIA
Sbjct: 50  VLLNNFENLKQGQKCFCTNKVFEVPVGEELIGKILNSKGECLNIKQKLKIKKKDIIEKIA 109

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG+MDRESVNEPLLTGIK+ID+MIPIGKGQRELIIGDRQTGKTTIA+D IINQKNKNVIC
Sbjct: 110 PGVMDRESVNEPLLTGIKAIDAMIPIGKGQRELIIGDRQTGKTTIALDIIINQKNKNVIC 169

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           IYVCIGQKISSLINV+NKLK +NC++YT++V+ATA+DSAAEQYI+PYTGCTIGEYFRDLG
Sbjct: 170 IYVCIGQKISSLINVVNKLKKHNCLEYTIIVSATASDSAAEQYIAPYTGCTIGEYFRDLG 229

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           +DCLIIYDDLTKHAW+YRQISLLL+RPPGREA+PGDVFYLHSRLLERSSK+N  FL+KK 
Sbjct: 230 KDCLIIYDDLTKHAWSYRQISLLLKRPPGREAYPGDVFYLHSRLLERSSKVNNLFLKKKN 289

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
           +F K NGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDT+LFNSN RPAINVGLSVS
Sbjct: 290 VF-KKNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTSLFNSNIRPAINVGLSVS 348

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQYKI+KKLSGDIRIMLAQYRELESFSKFSSDLD  TK QL NGEKI+LLMKQKP
Sbjct: 349 RVGGAAQYKIIKKLSGDIRIMLAQYRELESFSKFSSDLDSETKNQLQNGEKITLLMKQKP 408

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNIS 578
           H NYSI+EL+IILLIIKN FF KIP+ QIE FE  II+Y R IN+ + IS
Sbjct: 409 HNNYSIIELLIILLIIKNDFFIKIPVNQIEYFEEKIIQYVRNINISDYIS 458

Source: Candidatus Carsonella ruddii HC isolate Thao2000

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|400403794|ref|YP_006586910.1| F0F1-type ATP synthase subunit alpha [Candidatus Carsonella ruddii CE isolate Thao2000] gi|400362409|gb|AFP83482.1| F0F1-type ATP synthase alpha subunit [Candidatus Carsonella ruddii CE isolate Thao2000]

 Score =  635 bits (1639), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 328/412 (79%), Positives = 359/412 (87%), Gaps = 2/412 (0%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL+D+   L QG KC+CT KIFEI + + L+GRI+N+KGEFID KK   IK +  VEKIA
Sbjct: 50  VLLDEYIKLAQGDKCYCTNKIFEISINYNLIGRILNAKGEFIDLKKNIFIKEKYAVEKIA 109

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG+MDRESVNE LLTGIK+IDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC
Sbjct: 110 PGVMDRESVNESLLTGIKAIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 169

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           IYVCIGQKISSLINVI KLK YNC++YT++VAATAADSAAEQYI+PYT CTIGEYFRD G
Sbjct: 170 IYVCIGQKISSLINVIEKLKKYNCLNYTIIVAATAADSAAEQYIAPYTACTIGEYFRDKG 229

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
            D LIIYDDLTKHAWAYRQISLLL+R PGREA+PGDVFYLHSRLLERSSK+N  F++KK 
Sbjct: 230 LDSLIIYDDLTKHAWAYRQISLLLKRSPGREAYPGDVFYLHSRLLERSSKVNNLFIKKK- 288

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
            F    G+LTAFPIIETLEGDVT+FIPTNVISITDGQIFLD NLFNSN RPAINVGLSVS
Sbjct: 289 -FKYETGSLTAFPIIETLEGDVTAFIPTNVISITDGQIFLDNNLFNSNVRPAINVGLSVS 347

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQYKIVKKLSGDIRIMLAQYRELE+FSKFSSDLDI TK QL NGEKI+LLMKQKP
Sbjct: 348 RVGGAAQYKIVKKLSGDIRIMLAQYRELEAFSKFSSDLDIETKNQLNNGEKITLLMKQKP 407

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISIN 580
           ++ YSI+EL  ILLIIKN FF KI    IE FE  II Y R INL+N ++IN
Sbjct: 408 NDVYSIIELTTILLIIKNIFFKKIKTNYIEYFEKIIINYMRKINLENFLNIN 459

Source: Candidatus Carsonella ruddii CE isolate Thao2000

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|400404272|ref|YP_006587292.1| F0F1-type ATP synthase subunit beta [Candidatus Carsonella ruddii HC isolate Thao2000] gi|400362793|gb|AFP83864.1| F0F1-type ATP synthase beta subunit [Candidatus Carsonella ruddii HC isolate Thao2000]

 Score =  635 bits (1637), Expect = e-179,   Method: Compositional matrix adjust.
 Identities = 314/361 (86%), Positives = 338/361 (93%), Gaps = 2/361 (0%)

Query: 554 IKQIELFEINIIKYFRIINLKN-NISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTG 612
           I +IE  + NI K +  + + N NI + +VQQQIG+N+++ IAFG TNGIKRNT+V+DTG
Sbjct: 12  ILEIEFKKNNIPKIYNALYIPNLNIYL-EVQQQIGKNLIKAIAFGTTNGIKRNTLVIDTG 70

Query: 613 KPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKV 672
           KPILTPVGD TLGRILNVLG+PIDNKG +N+ KK PIH++PPKFS Q FNNNILETGIKV
Sbjct: 71  KPILTPVGDITLGRILNVLGEPIDNKGNLNTLKKKPIHSIPPKFSEQKFNNNILETGIKV 130

Query: 673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHE 732
           IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY+E
Sbjct: 131 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYYE 190

Query: 733 MKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
           MKESNVLDKVSLIYGQMNEPSGNRLRVALTGL+IAEEFRNSGKDVLLFIDNIYRFTLAGT
Sbjct: 191 MKESNVLDKVSLIYGQMNEPSGNRLRVALTGLTIAEEFRNSGKDVLLFIDNIYRFTLAGT 250

Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTF 852
           EVSAMLGRTPSAVGYQPTLAEEMGKLQERI+ST NGTITSVQAIYVPADDLTDPSPSTTF
Sbjct: 251 EVSAMLGRTPSAVGYQPTLAEEMGKLQERITSTNNGTITSVQAIYVPADDLTDPSPSTTF 310

Query: 853 THLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +HLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHY +AN+VKFYLQKYKELKD
Sbjct: 311 SHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYYIANKVKFYLQKYKELKD 370

Query: 913 T 913
           T
Sbjct: 371 T 371

Source: Candidatus Carsonella ruddii HC isolate Thao2000

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|400404510|ref|YP_006587485.1| F0F1-type ATP synthase subunit beta [Candidatus Carsonella ruddii HT isolate Thao2000] gi|400362986|gb|AFP84056.1| F0F1-type ATP synthase beta subunit [Candidatus Carsonella ruddii HT isolate Thao2000]

 Score =  629 bits (1622), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 311/361 (86%), Positives = 338/361 (93%), Gaps = 2/361 (0%)

Query: 554 IKQIELFEINIIKYFRIINLKN-NISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTG 612
           I +IE  + NI K +  + + N NI + +VQQQIG N+++ IAFG TNGIKRNT+V+DTG
Sbjct: 12  IIEIEFKKNNIPKIYNALYIPNLNIYL-EVQQQIGNNLIKAIAFGTTNGIKRNTLVIDTG 70

Query: 613 KPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKV 672
           KPIL+PVGD TLGRILNVLG+PIDNKG++N  KK PIH++PP+FS+Q FNNNILETGIKV
Sbjct: 71  KPILSPVGDVTLGRILNVLGEPIDNKGKLNILKKKPIHSMPPRFSDQKFNNNILETGIKV 130

Query: 673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHE 732
           IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY+E
Sbjct: 131 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYYE 190

Query: 733 MKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
           MKESNVL+KVSLIYGQMNEPSGNRLRVALTGL+IAEEFR+SGKDVLLFIDNIYRFTLAGT
Sbjct: 191 MKESNVLNKVSLIYGQMNEPSGNRLRVALTGLTIAEEFRDSGKDVLLFIDNIYRFTLAGT 250

Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTF 852
           EVSAMLGRTPSAVGYQPTLAEEMGKLQERISST NGTITSVQAIYVPADDLTDPSPSTTF
Sbjct: 251 EVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTNNGTITSVQAIYVPADDLTDPSPSTTF 310

Query: 853 THLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +HLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGE+HY VAN+VKFYLQKYKELKD
Sbjct: 311 SHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEDHYYVANKVKFYLQKYKELKD 370

Query: 913 T 913
           T
Sbjct: 371 T 371

Source: Candidatus Carsonella ruddii HT isolate Thao2000

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|400404730|ref|YP_006587662.1| F0F1-type ATP synthase subunit alpha [Candidatus Carsonella ruddii PC isolate NHV] gi|400363165|gb|AFP84234.1| F0F1-type ATP synthase alpha subunit [Candidatus Carsonella ruddii PC isolate NHV]

 Score =  628 bits (1620), Expect = e-177,   Method: Compositional matrix adjust.
 Identities = 318/418 (76%), Positives = 359/418 (85%), Gaps = 1/418 (0%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           +++D+   LTQG+KC+CT KIFE+PVG +L+GRI+NSKGE +D   KF  +N  ++EKIA
Sbjct: 50  IILDNYNKLTQGEKCYCTNKIFEVPVGKQLIGRIINSKGEHLDLLPKFKSENFSSIEKIA 109

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG+MDRE+VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI IDTIINQKNKNVIC
Sbjct: 110 PGVMDRETVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTICIDTIINQKNKNVIC 169

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           +YVCIGQKISSLIN INKLK +NC+DYT+++A+TA+DSAAEQYI+PYTG TI EYFRD G
Sbjct: 170 VYVCIGQKISSLINTINKLKKFNCLDYTIIIASTASDSAAEQYIAPYTGSTISEYFRDKG 229

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           QDCLI+YDDLTKHAWAYRQISLLLRRPPGREA+PGDVFYLHSRLLERSSKINK F+ KK 
Sbjct: 230 QDCLIVYDDLTKHAWAYRQISLLLRRPPGREAYPGDVFYLHSRLLERSSKINKLFVNKKS 289

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
              K  G+LTAFPIIETLEGDVTSFIPTNVISITDGQIFLD+NLFNS  RPAINVGLSVS
Sbjct: 290 NILK-TGSLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDSNLFNSGIRPAINVGLSVS 348

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQYKIVKK+SGDIRIMLAQYRELE+FSKFSSDLD  TK QL  GEKI++LMKQ  
Sbjct: 349 RVGGAAQYKIVKKISGDIRIMLAQYRELEAFSKFSSDLDNETKNQLIIGEKITILMKQNL 408

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQI 586
           H  Y+I ELI+ILLIIK+ FF  IPI QIE FE  II Y R I      +I  +  ++
Sbjct: 409 HNVYNIFELILILLIIKHDFFKLIPINQIEYFENKIINYLRKIKFNEQFNIEDLNLEV 466

Source: Candidatus Carsonella ruddii PC isolate NHV

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|116334909|ref|YP_802404.1| F0F1-type ATP synthase alpha subunit [Candidatus Carsonella ruddii PV] gi|123320793|sp|Q05FY3.1|ATPA_CARRP RecName: Full=ATP synthase subunit alpha; AltName: Full=ATP synthase F1 sector subunit alpha; AltName: Full=F-ATPase subunit alpha gi|13272346|gb|AAK17109.1|AF291051_6 ATP synthase alpha subunit [Candidatus Carsonella ruddii] gi|116235190|dbj|BAF35038.1| F0F1-type ATP synthase alpha subunit [Candidatus Carsonella ruddii PV]

 Score =  625 bits (1612), Expect = e-176,   Method: Compositional matrix adjust.
 Identities = 314/412 (76%), Positives = 358/412 (86%), Gaps = 1/412 (0%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           +++++   LTQG+KC+CT KIFE+PVG +L+GRI+NS+GE +D   +  I     +EKIA
Sbjct: 50  IILNNYNELTQGEKCYCTNKIFEVPVGKQLIGRIINSRGETLDLLPEIKINEFSPIEKIA 109

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG+MDRE+VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI IDTIINQKNKN+IC
Sbjct: 110 PGVMDRETVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTICIDTIINQKNKNIIC 169

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           +YVCIGQKISSLIN+INKLK +NC++YT++VA+TA+DSAAEQYI+PYTG TI EYFRD G
Sbjct: 170 VYVCIGQKISSLINIINKLKKFNCLEYTIIVASTASDSAAEQYIAPYTGSTISEYFRDKG 229

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           QDCLI+YDDLTKHAWAYRQISLLLRRPPGREA+PGDVFYLHSRLLERSSK+NK+F+ KK 
Sbjct: 230 QDCLIVYDDLTKHAWAYRQISLLLRRPPGREAYPGDVFYLHSRLLERSSKVNKFFVNKKS 289

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
              K  G+LTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNS  RP+INVGLSVS
Sbjct: 290 NILK-AGSLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSGIRPSINVGLSVS 348

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQYKI+KKLSGDIRIMLAQYRELE+FSKFSSDLD  TK QL  GEKI++LMKQ  
Sbjct: 349 RVGGAAQYKIIKKLSGDIRIMLAQYRELEAFSKFSSDLDSETKNQLIIGEKITILMKQNI 408

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISIN 580
           H+ Y I ELI+ILLIIK+ FF  IPI Q+E FE  II Y R I  KN I I+
Sbjct: 409 HDVYDIFELILILLIIKHDFFRLIPINQVEYFENKIINYLRKIKFKNQIEID 460

Source: Candidatus Carsonella ruddii PV

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|13272348|gb|AAK17111.1|AF291051_8 ATP synthase beta subunit [Candidatus Carsonella ruddii]

 Score =  613 bits (1580), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 297/333 (89%), Positives = 316/333 (94%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +VQQQIG NIVRTIA G+T G+KR  +V+DT KPILTPVG+CTLGRILNVLG+PIDN GE
Sbjct: 39  EVQQQIGNNIVRTIALGSTYGLKRYLLVIDTKKPILTPVGNCTLGRILNVLGNPIDNNGE 98

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
           I S KK PIH  PPKFS+Q+F+NNILETGIKVIDLLCPFL+GGKIGLFGGAGVGKT+NMM
Sbjct: 99  IISNKKKPIHCSPPKFSDQVFSNNILETGIKVIDLLCPFLRGGKIGLFGGAGVGKTINMM 158

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELIRNIAIEHKGCSVFIGVGER+REGNDFY+EMKESNVLDKVSLIYGQMNEPSGNRLRVA
Sbjct: 159 ELIRNIAIEHKGCSVFIGVGERTREGNDFYYEMKESNVLDKVSLIYGQMNEPSGNRLRVA 218

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           LTGLSIAEEFR  GKDVLLFIDNIYRFTLAGTE+SA+LGR PSAVGYQPTLAEEMGKLQE
Sbjct: 219 LTGLSIAEEFREMGKDVLLFIDNIYRFTLAGTEISALLGRMPSAVGYQPTLAEEMGKLQE 278

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RISSTKNG+ITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY
Sbjct: 279 RISSTKNGSITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 338

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT 913
           SKQLDPYIVG EHY++AN VKFYLQKYKELKDT
Sbjct: 339 SKQLDPYIVGIEHYEIANSVKFYLQKYKELKDT 371

Source: Candidatus Carsonella ruddii

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|116334911|ref|YP_802406.1| F0F1 ATP synthase subunit beta [Candidatus Carsonella ruddii PV] gi|123126215|sp|Q05FY1.1|ATPB_CARRP RecName: Full=ATP synthase subunit beta; AltName: Full=ATP synthase F1 sector subunit beta; AltName: Full=F-ATPase subunit beta gi|116235192|dbj|BAF35040.1| F0F1-type ATP synthase beta subunit [Candidatus Carsonella ruddii PV]

 Score =  613 bits (1580), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 297/333 (89%), Positives = 316/333 (94%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +VQQQIG NIVRTIA G+T G+KR  +V+DT KPILTPVG+CTLGRILNVLG+PIDN GE
Sbjct: 39  EVQQQIGNNIVRTIALGSTYGLKRYLLVIDTKKPILTPVGNCTLGRILNVLGNPIDNNGE 98

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
           I S KK PIH  PPKFS+Q+F+NNILETGIKVIDLLCPFL+GGKIGLFGGAGVGKT+NMM
Sbjct: 99  IISNKKKPIHCSPPKFSDQVFSNNILETGIKVIDLLCPFLRGGKIGLFGGAGVGKTINMM 158

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELIRNIAIEHKGCSVFIGVGER+REGNDFY+EMKESNVLDKVSLIYGQMNEPSGNRLRVA
Sbjct: 159 ELIRNIAIEHKGCSVFIGVGERTREGNDFYYEMKESNVLDKVSLIYGQMNEPSGNRLRVA 218

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           LTGLSIAEEFR  GKDVLLFIDNIYRFTLAGTE+SA+LGR PSAVGYQPTLAEEMGKLQE
Sbjct: 219 LTGLSIAEEFREMGKDVLLFIDNIYRFTLAGTEISALLGRMPSAVGYQPTLAEEMGKLQE 278

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RISSTKNG+ITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY
Sbjct: 279 RISSTKNGSITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 338

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT 913
           SKQLDPYIVG EHY++AN VKFYLQKYKELKDT
Sbjct: 339 SKQLDPYIVGIEHYEIANSVKFYLQKYKELKDT 371

Source: Candidatus Carsonella ruddii PV

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

>gi|400404732|ref|YP_006587664.1| F0F1-type ATP synthase subunit beta [Candidatus Carsonella ruddii PC isolate NHV] gi|400363167|gb|AFP84236.1| F0F1-type ATP synthase beta subunit [Candidatus Carsonella ruddii PC isolate NHV]

 Score =  612 bits (1577), Expect = e-172,   Method: Compositional matrix adjust.
 Identities = 296/333 (88%), Positives = 315/333 (94%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +VQQQIG NIVRTIA GNT G+KR  +V+DT KPILTPVG+CTLGRILNVLGDPIDN G+
Sbjct: 39  EVQQQIGNNIVRTIALGNTYGLKRYLLVIDTKKPILTPVGNCTLGRILNVLGDPIDNNGK 98

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
           I   KK PIH  PPKFS+QIF+NNILETGIK+IDLLCPFLKGGKIGLFGGAGVGKT+NMM
Sbjct: 99  ILFNKKKPIHCSPPKFSDQIFSNNILETGIKIIDLLCPFLKGGKIGLFGGAGVGKTINMM 158

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELIRNIAIEHKGCSVFIGVGER+REGNDFY+EMKESNVLDKVSLIYGQMNEPSGNRLRVA
Sbjct: 159 ELIRNIAIEHKGCSVFIGVGERTREGNDFYYEMKESNVLDKVSLIYGQMNEPSGNRLRVA 218

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           LTGL+IAEEFR  GKDVLLFIDNIYRFTLAGTE+SA+LGR PSAVGYQPTLAEEMGKLQE
Sbjct: 219 LTGLTIAEEFREMGKDVLLFIDNIYRFTLAGTEISALLGRMPSAVGYQPTLAEEMGKLQE 278

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RISSTKNG+ITSVQAIYVPADDLTDPSPSTTF+HLDSTIVLSRQIAELGIYPAIDPLESY
Sbjct: 279 RISSTKNGSITSVQAIYVPADDLTDPSPSTTFSHLDSTIVLSRQIAELGIYPAIDPLESY 338

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT 913
           SKQLDPYIVG EHY++AN VKFYLQKYKELKDT
Sbjct: 339 SKQLDPYIVGLEHYEIANSVKFYLQKYKELKDT 371

Source: Candidatus Carsonella ruddii PC isolate NHV

Species: Candidatus Carsonella ruddii

Genus: Candidatus Carsonella

Class: Gammaproteobacteria

Phylum: Proteobacteria

Superkingdom: Bacteria

---

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	915
TIGR_CMR|CBU_1945	461	CBU_1945 "ATP synthase F1, bet	0.361	0.718	0.706	4e-122
UNIPROTKB|P0ABB4	460	atpD [Escherichia coli K-12 (t	0.361	0.719	0.676	4.2e-118
TIGR_CMR|SO_4747	463	SO_4747 "ATP synthase F1, beta	0.361	0.714	0.673	5.4e-118
TIGR_CMR|CPS_0062	461	CPS_0062 "ATP synthase F1, bet	0.361	0.718	0.673	6.2e-117
TIGR_CMR|CBU_1943	515	CBU_1943 "ATP synthase F1, alp	0.438	0.778	0.553	3.4e-116
UNIPROTKB|Q9KNH3	513	atpA "ATP synthase subunit alp	0.439	0.783	0.551	1.5e-113
TIGR_CMR|VC_2766	513	VC_2766 "ATP synthase F1, alph	0.439	0.783	0.551	1.5e-113
UNIPROTKB|P0ABB0	513	atpA [Escherichia coli K-12 (t	0.436	0.777	0.545	1.4e-112
UNIPROTKB|Q9KNH5	467	atpD "ATP synthase subunit bet	0.361	0.708	0.633	3.6e-112
TIGR_CMR|VC_2764	467	VC_2764 "ATP synthase F1, beta	0.361	0.708	0.633	3.6e-112

TIGR_CMR|CBU_1945 CBU_1945 "ATP synthase F1, beta subunit" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 1201 (427.8 bits), Expect = 4.0e-122, P = 4.0e-122
 Identities = 234/331 (70%), Positives = 270/331 (81%)

Query:   582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
             VQQQ+G+ +VRTIA G+T G+KR+  V +T KPI  PVG  TLGRI+NVLG+PID  G I
Sbjct:    44 VQQQLGDGVVRTIAMGSTEGLKRDIAVKNTEKPIEVPVGKETLGRIMNVLGEPIDELGPI 103

Query:   642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
             NSK+K PIH   P F  Q     +LETGIKV+DLLCPF                TVNMME
Sbjct:   104 NSKEKLPIHRPAPSFIEQSGATELLETGIKVVDLLCPFAKGGKVGLFGGAGVGKTVNMME 163

Query:   702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
             LIRNIAIEH G SVF GVGER+REGNDFYHEMKESNVLDKV+L+YGQMNEP GNRLRV L
Sbjct:   164 LIRNIAIEHSGYSVFAGVGERTREGNDFYHEMKESNVLDKVALVYGQMNEPPGNRLRVGL 223

Query:   762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
             TGL++AE FR+ G+DVLLFIDNI+R+TLAG EVSA+LGR PSAVGYQPTLAEEMG LQER
Sbjct:   224 TGLTLAEAFRDEGRDVLLFIDNIFRYTLAGVEVSALLGRMPSAVGYQPTLAEEMGALQER 283

Query:   822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS 881
             I+STK G+ITS+QA+YVPADDLTDPSP+TTF HLD+T+VLSRQIAE GIYPAIDPL+S S
Sbjct:   284 ITSTKKGSITSIQAVYVPADDLTDPSPATTFAHLDATVVLSRQIAERGIYPAIDPLDSTS 343

Query:   882 KQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             +QLDP I+GEEHY+VA  V+  LQ+Y+ELKD
Sbjct:   344 RQLDPLIIGEEHYRVARGVQETLQRYEELKD 374

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

UNIPROTKB|P0ABB4 atpD [Escherichia coli K-12 (taxid:83333)]

 Score = 1163 (414.5 bits), Expect = 4.2e-118, P = 4.2e-118
 Identities = 224/331 (67%), Positives = 266/331 (80%)

Query:   582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
             VQQQ+G  IVRTIA G+++G++R   V D   PI  PVG  TLGRI+NVLG+P+D KGEI
Sbjct:    43 VQQQLGGGIVRTIAMGSSDGLRRGLDVKDLEHPIEVPVGKATLGRIMNVLGEPVDMKGEI 102

Query:   642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
               +++  IH   P +     +  +LETGIKVIDL+CPF                TVNMME
Sbjct:   103 GEEERWAIHRAAPSYEELSNSQELLETGIKVIDLMCPFAKGGKVGLFGGAGVGKTVNMME 162

Query:   702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
             LIRNIAIEH G SVF GVGER+REGNDFYHEM +SNV+DKVSL+YGQMNEP GNRLRVAL
Sbjct:   163 LIRNIAIEHSGYSVFAGVGERTREGNDFYHEMTDSNVIDKVSLVYGQMNEPPGNRLRVAL 222

Query:   762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
             TGL++AE+FR+ G+DVLLF+DNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEEMG LQER
Sbjct:   223 TGLTMAEKFRDEGRDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQER 282

Query:   822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS 881
             I+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD+T+VLSRQIA LGIYPA+DPL+S S
Sbjct:   283 ITSTKTGSITSVQAVYVPADDLTDPSPATTFAHLDATVVLSRQIASLGIYPAVDPLDSTS 342

Query:   882 KQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             +QLDP +VG+EHY  A  V+  LQ+Y+ELKD
Sbjct:   343 RQLDPLVVGQEHYDTARGVQSILQRYQELKD 373

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

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

GO:0046034 "ATP metabolic process" evidence=IEA

GO:0015992 "proton transport" evidence=IEA

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

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

GO:0008553 "hydrogen-exporting ATPase activity, phosphorylative mechanism" evidence=IEA

GO:0006811 "ion transport" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0006754 "ATP biosynthetic process" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0000166 "nucleotide binding" evidence=IEA

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

TIGR_CMR|SO_4747 SO_4747 "ATP synthase F1, beta subunit" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 1162 (414.1 bits), Expect = 5.4e-118, P = 5.4e-118
 Identities = 223/331 (67%), Positives = 265/331 (80%)

Query:   582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
             VQQQ+G  +VRTIA G ++G++R   VV++G PI  PVG  TLGRI+NVLGDPID  G I
Sbjct:    45 VQQQLGGGVVRTIAMGTSDGLRRGLEVVNSGSPISVPVGTATLGRIMNVLGDPIDEAGAI 104

Query:   642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
               +++  IH   P +  Q     +LETGIKVIDL+CPF                TVNMME
Sbjct:   105 GEEERYVIHRAAPSYEEQSNTTELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMME 164

Query:   702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
             LI NIA  H G SVF GVGER+REGNDFY+EMK+S VLDKV+++YGQMNEP GNRLRVAL
Sbjct:   165 LINNIAKAHSGLSVFAGVGERTREGNDFYYEMKDSGVLDKVAMVYGQMNEPPGNRLRVAL 224

Query:   762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
             TGL++AE+FR+ G+DVLLF+DNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEEMG LQER
Sbjct:   225 TGLTMAEKFRDEGRDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQER 284

Query:   822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS 881
             I+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD+T+VLSRQIA LGIYPA+DPL+S S
Sbjct:   285 ITSTKTGSITSVQAVYVPADDLTDPSPATTFAHLDATVVLSRQIASLGIYPAVDPLDSTS 344

Query:   882 KQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             +QLDP +VG+EHY VAN V+  LQ+YKELKD
Sbjct:   345 RQLDPLVVGQEHYDVANGVQTVLQRYKELKD 375

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

TIGR_CMR|CPS_0062 CPS_0062 "ATP synthase F1, beta subunit" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 1152 (410.6 bits), Expect = 6.2e-117, P = 6.2e-117
 Identities = 223/331 (67%), Positives = 263/331 (79%)

Query:   582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
             VQQQ+G  +VRTIA G ++G++R   VV+TG+ I  PVG  TLGRI+NVLG+PID  G I
Sbjct:    44 VQQQLGGGVVRTIAMGTSDGLRRGLNVVNTGQGIQVPVGVETLGRIMNVLGEPIDEAGPI 103

Query:   642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
               K +  IH   P ++ Q  +N +LETGIKVIDL+CPF                TVNMME
Sbjct:   104 GEKDRWSIHREAPAYAEQSMSNELLETGIKVIDLVCPFAKGGKVGLFGGAGVGKTVNMME 163

Query:   702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
             LIRNIAIEH G SVF GVGER+REGNDFYHEM +SNVLDKVSL+YGQMNEP GNRLRVA 
Sbjct:   164 LIRNIAIEHSGYSVFAGVGERTREGNDFYHEMNDSNVLDKVSLVYGQMNEPPGNRLRVAF 223

Query:   762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
             TGL++AE+FR+ G+DVL F+DNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEEMG LQER
Sbjct:   224 TGLTMAEKFRDEGRDVLFFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQER 283

Query:   822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS 881
             I+ST  G+ITS+QA+YVPADDLTDPSP+TTF HLD+T+VLSR IA  GIYPAIDPL+S S
Sbjct:   284 ITSTNKGSITSIQAVYVPADDLTDPSPATTFAHLDATVVLSRDIASQGIYPAIDPLDSSS 343

Query:   882 KQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             +QLDP +VG EHY+ A  V+  LQ+YKELKD
Sbjct:   344 RQLDPLVVGTEHYETARGVQTVLQRYKELKD 374

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

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

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

TIGR_CMR|CBU_1943 CBU_1943 "ATP synthase F1, alpha subunit" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 1145 (408.1 bits), Expect = 3.4e-116, P = 3.4e-116
 Identities = 224/405 (55%), Positives = 295/405 (72%)

Query:   168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
             AV++   ++L +G    CT +I E+PVG  LLGR+V+  G+ ID K          +EK+
Sbjct:    75 AVVMGPYEHLEEGMTARCTGRILEVPVGEALLGRVVDGLGKPIDGKGPIDTSETSPIEKV 134

Query:   228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
             APG++ R+SV+  L TG+KSID+M+PIG+GQRELIIGDRQTGKT IAIDTIINQK+  V 
Sbjct:   135 APGVITRKSVDTSLPTGLKSIDAMVPIGRGQRELIIGDRQTGKTAIAIDTIINQKHTGVK 194

Query:   288 CIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDL 347
             CIYV IGQK SS+  V+ KL+ +  M++              QY++PY GCT+GEYFRD 
Sbjct:   195 CIYVAIGQKQSSVAAVVRKLEEHGAMEHTIVVNASASEAAALQYLAPYAGCTMGEYFRDR 254

Query:   348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLE-- 405
             GQD LI+YDDLTK AWAYRQISLLLRRPPGREA+PGD+FYLHSRLLER++ +N+ +++  
Sbjct:   255 GQDALIVYDDLTKQAWAYRQISLLLRRPPGREAYPGDIFYLHSRLLERAAHVNEAYVKEF 314

Query:   406 -KKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVG 464
              K K+  K  G+LTA PIIET  GDV++FIPTNVISITDGQI+LD NLFN+  RPAIN G
Sbjct:   315 TKGKVTGKT-GSLTALPIIETQAGDVSAFIPTNVISITDGQIYLDVNLFNAGIRPAINAG 373

Query:   465 LSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLM 524
             LSVSRVGGAAQ KI+KKL G +RI LAQYRELE+FS+F+SDLD  T+ QL +G+++  ++
Sbjct:   374 LSVSRVGGAAQTKIIKKLIGGLRIALAQYRELEAFSQFASDLDEATRKQLEHGQRVMEIL 433

Query:   525 KQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
             KQ  ++  S+ E         N +  ++ +K++  FE +++ + R
Sbjct:   434 KQPQYQPLSVGEMAIIWYVVNNNYLDQVELKKVVDFERSLLSFLR 478

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

UNIPROTKB|Q9KNH3 atpA "ATP synthase subunit alpha" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 1120 (399.3 bits), Expect = 1.5e-113, P = 1.5e-113
 Identities = 223/404 (55%), Positives = 288/404 (71%)

Query:   168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
             AV++    +L +G K   T +I E+PVG ELLGR+VN+ GE ID K     K    VE I
Sbjct:    73 AVVMGPYADLREGMKVTGTGRILEVPVGPELLGRVVNTLGEPIDGKGPIGAKQTSPVEVI 132

Query:   228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
             APG++DR+SV++P+ TG KS+DSMIPIG+GQRELIIGDRQTGKT +AID IINQKN  + 
Sbjct:   133 APGVIDRKSVDQPVQTGYKSVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQKNSGIY 192

Query:   288 CIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDL 347
              IYV IGQK S++ NV+ KL+ +  +                QY++PY+GC +GEYFRD 
Sbjct:   193 SIYVAIGQKASTIANVVRKLEEHGALKNTIVVVASASESAALQYLAPYSGCAMGEYFRDR 252

Query:   348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEK- 406
             G+D LI+YDDL+K A AYRQISLLLRRPPGREAFPGDVFYLHSRLLER++++N+ ++E+ 
Sbjct:   253 GEDALIVYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNEEYVERF 312

Query:   407 -KKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL 465
              K       G+LTA PIIET  GDV++F+PTNVISITDGQIFL T LFN+  RPA++ G+
Sbjct:   313 TKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLQTELFNAGVRPAVDPGI 372

Query:   466 SVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMK 525
             SVSRVGGAAQ KIVKKLSG IR  LA YREL +F++FSSDLD  TK QL +G+K++ LMK
Sbjct:   373 SVSRVGGAAQTKIVKKLSGGIRTALAAYRELAAFAQFSSDLDEATKRQLTHGQKVTELMK 432

Query:   526 QKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
             QK +   S+ +        +  +   + + ++  FE  ++ Y R
Sbjct:   433 QKQYAPMSVFDQALVIFAAERGYLTDVELNKVLDFEAALLSYAR 476

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

TIGR_CMR|VC_2766 VC_2766 "ATP synthase F1, alpha subunit" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 1120 (399.3 bits), Expect = 1.5e-113, P = 1.5e-113
 Identities = 223/404 (55%), Positives = 288/404 (71%)

Query:   168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
             AV++    +L +G K   T +I E+PVG ELLGR+VN+ GE ID K     K    VE I
Sbjct:    73 AVVMGPYADLREGMKVTGTGRILEVPVGPELLGRVVNTLGEPIDGKGPIGAKQTSPVEVI 132

Query:   228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
             APG++DR+SV++P+ TG KS+DSMIPIG+GQRELIIGDRQTGKT +AID IINQKN  + 
Sbjct:   133 APGVIDRKSVDQPVQTGYKSVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQKNSGIY 192

Query:   288 CIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDL 347
              IYV IGQK S++ NV+ KL+ +  +                QY++PY+GC +GEYFRD 
Sbjct:   193 SIYVAIGQKASTIANVVRKLEEHGALKNTIVVVASASESAALQYLAPYSGCAMGEYFRDR 252

Query:   348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEK- 406
             G+D LI+YDDL+K A AYRQISLLLRRPPGREAFPGDVFYLHSRLLER++++N+ ++E+ 
Sbjct:   253 GEDALIVYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNEEYVERF 312

Query:   407 -KKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL 465
              K       G+LTA PIIET  GDV++F+PTNVISITDGQIFL T LFN+  RPA++ G+
Sbjct:   313 TKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLQTELFNAGVRPAVDPGI 372

Query:   466 SVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMK 525
             SVSRVGGAAQ KIVKKLSG IR  LA YREL +F++FSSDLD  TK QL +G+K++ LMK
Sbjct:   373 SVSRVGGAAQTKIVKKLSGGIRTALAAYRELAAFAQFSSDLDEATKRQLTHGQKVTELMK 432

Query:   526 QKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
             QK +   S+ +        +  +   + + ++  FE  ++ Y R
Sbjct:   433 QKQYAPMSVFDQALVIFAAERGYLTDVELNKVLDFEAALLSYAR 476

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

UNIPROTKB|P0ABB0 atpA [Escherichia coli K-12 (taxid:83333)]

 Score = 1111 (396.2 bits), Expect = 1.4e-112, P = 1.4e-112
 Identities = 220/403 (54%), Positives = 289/403 (71%)

Query:   168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
             AV++    +L +G K  CT +I E+PVG  LLGR+VN+ G  ID K          VE I
Sbjct:    73 AVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFSAVEAI 132

Query:   228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
             APG+++R+SV++P+ TG K++DSMIPIG+GQRELIIGDRQTGKT +AID IINQ++  + 
Sbjct:   133 APGVIERQSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQRDSGIK 192

Query:   288 CIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDL 347
             CIYV IGQK S++ NV+ KL+ +  +                QY++PY GC +GEYFRD 
Sbjct:   193 CIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDR 252

Query:   348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLE-- 405
             G+D LIIYDDL+K A AYRQISLLLRRPPGREAFPGDVFYLHSRLLER++++N  ++E  
Sbjct:   253 GEDALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAF 312

Query:   406 -KKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVG 464
              K ++  K  G+LTA PIIET  GDV++F+PTNVISITDGQIFL+TNLFN+  RPA+N G
Sbjct:   313 TKGEVKGKT-GSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPG 371

Query:   465 LSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLM 524
             +SVSRVGGAAQ KI+KKLSG IR  LAQYREL +FS+F+SDLD  T+ QL +G+K++ L+
Sbjct:   372 ISVSRVGGAAQTKIMKKLSGGIRTALAQYRELAAFSQFASDLDDATRKQLDHGQKVTELL 431

Query:   525 KQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKY 567
             KQK +   S+ +        +  +   + + +I  FE  ++ Y
Sbjct:   432 KQKQYAPMSVAQQSLVLFAAERGYLADVELSKIGSFEAALLAY 474

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

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

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

GO:0016820 "hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances" evidence=IEA

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

GO:0016020 "membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0000166 "nucleotide binding" evidence=IEA

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

UNIPROTKB|Q9KNH5 atpD "ATP synthase subunit beta" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 1107 (394.7 bits), Expect = 3.6e-112, P = 3.6e-112
 Identities = 214/338 (63%), Positives = 263/338 (77%)

Query:   582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
             VQQQ+G  ++R I  G+++G++R   V +TG PI  PVG  TLGRI+NVLGD ID +G+I
Sbjct:    43 VQQQLGGGVIRAIVMGSSDGLRRGMTVQNTGAPISVPVGTKTLGRIMNVLGDAIDERGDI 102

Query:   642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
              +++   IH   P +  Q     +LETG+KVIDL+CPF                TVNMME
Sbjct:   103 GAEEVYSIHRPAPSYEEQSSATELLETGVKVIDLICPFAKGGKIGLFGGAGVGKTVNMME 162

Query:   702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-------LDKVSLIYGQMNEPSG 754
             LI NIA++H G SVF GVGER+REGNDFYHEM+E+ V       L KV+++YGQMNEP G
Sbjct:   163 LINNIALQHSGLSVFAGVGERTREGNDFYHEMQEAGVVNVEQPELSKVAMVYGQMNEPPG 222

Query:   755 NRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
             NRLRVALTGL++AE+FR+ G+DVLLFIDNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEE
Sbjct:   223 NRLRVALTGLTMAEKFRDEGRDVLLFIDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEE 282

Query:   815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
             MG LQERI+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD+T+VL+R IA +G+YPAI
Sbjct:   283 MGVLQERITSTKKGSITSVQAVYVPADDLTDPSPATTFAHLDATVVLNRNIAAMGLYPAI 342

Query:   875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             DPL+S S+QLDP +VG+EHY VA  V+  LQ+YKELKD
Sbjct:   343 DPLDSTSRQLDPLVVGQEHYDVARGVQATLQRYKELKD 380

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

TIGR_CMR|VC_2764 VC_2764 "ATP synthase F1, beta subunit" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 1107 (394.7 bits), Expect = 3.6e-112, P = 3.6e-112
 Identities = 214/338 (63%), Positives = 263/338 (77%)

Query:   582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
             VQQQ+G  ++R I  G+++G++R   V +TG PI  PVG  TLGRI+NVLGD ID +G+I
Sbjct:    43 VQQQLGGGVIRAIVMGSSDGLRRGMTVQNTGAPISVPVGTKTLGRIMNVLGDAIDERGDI 102

Query:   642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
              +++   IH   P +  Q     +LETG+KVIDL+CPF                TVNMME
Sbjct:   103 GAEEVYSIHRPAPSYEEQSSATELLETGVKVIDLICPFAKGGKIGLFGGAGVGKTVNMME 162

Query:   702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-------LDKVSLIYGQMNEPSG 754
             LI NIA++H G SVF GVGER+REGNDFYHEM+E+ V       L KV+++YGQMNEP G
Sbjct:   163 LINNIALQHSGLSVFAGVGERTREGNDFYHEMQEAGVVNVEQPELSKVAMVYGQMNEPPG 222

Query:   755 NRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
             NRLRVALTGL++AE+FR+ G+DVLLFIDNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEE
Sbjct:   223 NRLRVALTGLTMAEKFRDEGRDVLLFIDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEE 282

Query:   815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
             MG LQERI+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD+T+VL+R IA +G+YPAI
Sbjct:   283 MGVLQERITSTKKGSITSVQAVYVPADDLTDPSPATTFAHLDATVVLNRNIAAMGLYPAI 342

Query:   875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             DPL+S S+QLDP +VG+EHY VA  V+  LQ+YKELKD
Sbjct:   343 DPLDSTSRQLDPLVVGQEHYDVARGVQATLQRYKELKD 380

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

GO:0045262 "plasma membrane proton-transporting ATP synthase complex, catalytic core F(1)" evidence=ISS

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

---

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)
B0UWG5	ATPB_HAES2	3, ., 6, ., 3, ., 1, 4	0.6882	0.3879	0.7768	yes	N/A
A5UGY9	ATPB_HAEIG	3, ., 6, ., 3, ., 1, 4	0.6825	0.3879	0.7768	yes	N/A
B1JFU1	ATPB_PSEPW	3, ., 6, ., 3, ., 1, 4	0.7198	0.3377	0.6746	yes	N/A
Q5WSG8	ATPB_LEGPL	3, ., 6, ., 3, ., 1, 4	0.6882	0.3639	0.7270	yes	N/A
A6W3S8	ATPB2_MARMS	3, ., 6, ., 3, ., 1, 4	0.6796	0.3672	0.7336	yes	N/A
A9NBD0	ATPB_COXBR	3, ., 6, ., 3, ., 1, 4	0.7374	0.3693	0.7331	yes	N/A
Q4K3A9	ATPB_PSEF5	3, ., 6, ., 3, ., 1, 4	0.7198	0.3377	0.6746	yes	N/A
A4Y187	ATPB_PSEMY	3, ., 6, ., 3, ., 1, 4	0.7198	0.3377	0.6746	yes	N/A
Q65Q07	ATPB_MANSM	3, ., 6, ., 3, ., 1, 4	0.6853	0.3639	0.7270	yes	N/A
Q05FY3	ATPA_CARRP	3, ., 6, ., 3, ., 1, 4	0.7621	0.4491	0.8544	yes	N/A
Q83AF5	ATPB_COXBU	3, ., 6, ., 3, ., 1, 4	0.7374	0.3693	0.7331	yes	N/A
A5UA11	ATPB_HAEIE	3, ., 6, ., 3, ., 1, 4	0.6825	0.3879	0.7768	yes	N/A
A6VL57	ATPB_ACTSZ	3, ., 6, ., 3, ., 1, 4	0.7319	0.3311	0.6615	yes	N/A
Q1QSD0	ATPB_CHRSD	3, ., 6, ., 3, ., 1, 4	0.6966	0.3639	0.7270	yes	N/A
Q0A4M8	ATPB_ALHEH	3, ., 6, ., 3, ., 1, 4	0.7259	0.3377	0.6746	yes	N/A
A5CVI6	ATPB_VESOH	3, ., 6, ., 3, ., 1, 4	0.7349	0.3377	0.6732	yes	N/A
A1WZT1	ATPB_HALHL	3, ., 6, ., 3, ., 1, 4	0.7228	0.3377	0.6746	yes	N/A
A1AXU2	ATPB_RUTMC	3, ., 6, ., 3, ., 1, 4	0.7379	0.3377	0.6732	yes	N/A
Q87TT4	ATPB_PSESM	3, ., 6, ., 3, ., 1, 4	0.7228	0.3300	0.6579	yes	N/A
B8GRB8	ATPB_THISH	3, ., 6, ., 3, ., 1, 4	0.7198	0.3377	0.6732	yes	N/A
Q0VKX4	ATPB_ALCBS	3, ., 6, ., 3, ., 1, 4	0.6797	0.3639	0.7239	yes	N/A
C5BF40	ATPB_EDWI9	3, ., 6, ., 3, ., 1, 4	0.6703	0.3923	0.7804	yes	N/A
A3N2U4	ATPB_ACTP2	3, ., 6, ., 3, ., 1, 4	0.6853	0.3879	0.7768	yes	N/A
Q4ZL24	ATPB_PSEU2	3, ., 6, ., 3, ., 1, 4	0.7228	0.3300	0.6579	yes	N/A
A5III3	ATPB_LEGPC	3, ., 6, ., 3, ., 1, 4	0.6882	0.3639	0.7270	yes	N/A
C1D5G2	ATPB_LARHH	3, ., 6, ., 3, ., 1, 4	0.6769	0.3639	0.7270	yes	N/A
Q60CR4	ATPB_METCA	3, ., 6, ., 3, ., 1, 4	0.7349	0.3377	0.6717	yes	N/A
A4VS62	ATPB_PSEU5	3, ., 6, ., 3, ., 1, 4	0.7289	0.3377	0.6746	yes	N/A
Q1I2I7	ATPB_PSEE4	3, ., 6, ., 3, ., 1, 4	0.7228	0.3377	0.6746	yes	N/A
A5EXL4	ATPB_DICNV	3, ., 6, ., 3, ., 1, 4	0.6938	0.3737	0.7386	yes	N/A
P57124	ATPB_BUCAI	3, ., 6, ., 3, ., 1, 4	0.6942	0.3890	0.7655	yes	N/A
B8D6S7	ATPB_BUCAT	3, ., 6, ., 3, ., 1, 4	0.6942	0.3890	0.7655	yes	N/A
B0BRX2	ATPB_ACTPJ	3, ., 6, ., 3, ., 1, 4	0.6853	0.3879	0.7768	yes	N/A
B8D8H3	ATPB_BUCA5	3, ., 6, ., 3, ., 1, 4	0.6942	0.3890	0.7655	yes	N/A
Q0I5X3	ATPB_HAES1	3, ., 6, ., 3, ., 1, 4	0.6882	0.3879	0.7768	yes	N/A
B0KRA8	ATPB_PSEPG	3, ., 6, ., 3, ., 1, 4	0.7259	0.3377	0.6746	yes	N/A
Q4QN64	ATPB_HAEI8	3, ., 6, ., 3, ., 1, 4	0.6825	0.3879	0.7768	yes	N/A
Q88BX4	ATPB_PSEPK	3, ., 6, ., 3, ., 1, 4	0.7259	0.3377	0.6746	yes	N/A
Q5ZRA1	ATPB_LEGPH	3, ., 6, ., 3, ., 1, 4	0.6882	0.3639	0.7270	yes	N/A
Q48BG5	ATPB_PSE14	3, ., 6, ., 3, ., 1, 4	0.7228	0.3300	0.6579	yes	N/A
C3K1E6	ATPB_PSEFS	3, ., 6, ., 3, ., 1, 4	0.7259	0.3377	0.6746	yes	N/A
B2VCA4	ATPB_ERWT9	3, ., 6, ., 3, ., 1, 4	0.6759	0.3890	0.7739	yes	N/A
A9KBF7	ATPB_COXBN	3, ., 6, ., 3, ., 1, 4	0.7374	0.3693	0.7331	yes	N/A
P43715	ATPB_HAEIN	3, ., 6, ., 3, ., 1, 4	0.6825	0.3879	0.7768	yes	N/A
A5WBA3	ATPB_PSEP1	3, ., 6, ., 3, ., 1, 4	0.7259	0.3377	0.6746	yes	N/A
A0KQX8	ATPB_AERHH	3, ., 6, ., 3, ., 1, 4	0.7289	0.3377	0.6688	yes	N/A
Q5X0P3	ATPB_LEGPA	3, ., 6, ., 3, ., 1, 4	0.6882	0.3639	0.7270	yes	N/A
B3H2P3	ATPB_ACTP7	3, ., 6, ., 3, ., 1, 4	0.6853	0.3879	0.7768	yes	N/A
Q9CKW1	ATPB_PASMU	3, ., 6, ., 3, ., 1, 4	0.6966	0.3879	0.7768	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	915
PRK09280	463	PRK09280, PRK09280, F0F1 ATP synthase subunit beta	0.0
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	0.0
COG0055	468	COG0055, AtpD, F0F1-type ATP synthase, beta subuni	0.0
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	0.0
TIGR01039	461	TIGR01039, atpD, ATP synthase, F1 beta subunit	0.0
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	0.0
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	0.0
PRK12597	461	PRK12597, PRK12597, F0F1 ATP synthase subunit beta	0.0
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	0.0
CHL00060	494	CHL00060, atpB, ATP synthase CF1 beta subunit	0.0
cd01133	274	cd01133, F1-ATPase_beta, F1 ATP synthase beta subu	0.0
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	1e-169
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	1e-147
TIGR03305	449	TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase,	1e-134
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	1e-112
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	1e-100
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	3e-99
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	3e-80
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	2e-69
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	3e-62
TIGR03497	413	TIGR03497, FliI_clade2, flagellar protein export A	2e-60
cd01136	326	cd01136, ATPase_flagellum-secretory_path_III, Flag	1e-59
TIGR02546	422	TIGR02546, III_secr_ATP, type III secretion appara	2e-58
TIGR03498	418	TIGR03498, FliI_clade3, flagellar protein export A	3e-57
TIGR03496	411	TIGR03496, FliI_clade1, flagellar protein export A	2e-56
PRK05192	618	PRK05192, PRK05192, tRNA uridine 5-carboxymethylam	6e-56
PRK06936	439	PRK06936, PRK06936, type III secretion system ATPa	3e-51
COG1157	441	COG1157, FliI, Flagellar biosynthesis/type III sec	2e-50
PRK08149	428	PRK08149, PRK08149, ATP synthase SpaL; Validated	2e-50
COG0445	621	COG0445, GidA, Flavin-dependent tRNA uridine 5-car	9e-50
TIGR02546	422	TIGR02546, III_secr_ATP, type III secretion appara	3e-49
PRK06315	442	PRK06315, PRK06315, type III secretion system ATPa	7e-48
PRK09099	441	PRK09099, PRK09099, type III secretion system ATPa	8e-48
PRK08472	434	PRK08472, fliI, flagellum-specific ATP synthase; V	4e-46
PRK06820	440	PRK06820, PRK06820, type III secretion system ATPa	6e-45
pfam01134	391	pfam01134, GIDA, Glucose inhibited division protei	8e-45
PRK07721	438	PRK07721, fliI, flagellum-specific ATP synthase; V	1e-44
TIGR01026	440	TIGR01026, fliI_yscN, ATPase FliI/YscN family	3e-44
cd01136	326	cd01136, ATPase_flagellum-secretory_path_III, Flag	3e-44
TIGR00136	617	TIGR00136, gidA, glucose-inhibited division protei	9e-44
PRK06002	450	PRK06002, fliI, flagellum-specific ATP synthase; V	1e-43
PRK08927	442	PRK08927, fliI, flagellum-specific ATP synthase; V	5e-43
TIGR03497	413	TIGR03497, FliI_clade2, flagellar protein export A	2e-42
PRK08972	444	PRK08972, fliI, flagellum-specific ATP synthase; V	3e-42
PRK05688	451	PRK05688, fliI, flagellum-specific ATP synthase; V	6e-42
PRK07196	434	PRK07196, fliI, flagellum-specific ATP synthase; V	2e-41
PRK06793	432	PRK06793, fliI, flagellum-specific ATP synthase; V	5e-41
PRK06936	439	PRK06936, PRK06936, type III secretion system ATPa	2e-39
PRK07594	433	PRK07594, PRK07594, type III secretion system ATPa	3e-39
TIGR03498	418	TIGR03498, FliI_clade3, flagellar protein export A	4e-39
TIGR03496	411	TIGR03496, FliI_clade1, flagellar protein export A	1e-38
PRK06820	440	PRK06820, PRK06820, type III secretion system ATPa	3e-37
PRK09099	441	PRK09099, PRK09099, type III secretion system ATPa	4e-36
PRK07721	438	PRK07721, fliI, flagellum-specific ATP synthase; V	4e-35
PRK06315	442	PRK06315, PRK06315, type III secretion system ATPa	2e-34
PRK07960	455	PRK07960, fliI, flagellum-specific ATP synthase; V	2e-34
PRK08149	428	PRK08149, PRK08149, ATP synthase SpaL; Validated	7e-34
PRK08472	434	PRK08472, fliI, flagellum-specific ATP synthase; V	5e-33
PRK07594	433	PRK07594, PRK07594, type III secretion system ATPa	1e-30
cd01135	276	cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-	2e-29
COG1156	463	COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase su	2e-29
PRK08972	444	PRK08972, fliI, flagellum-specific ATP synthase; V	3e-29
TIGR01041	458	TIGR01041, ATP_syn_B_arch, ATP synthase archaeal,	1e-28
cd01135	276	cd01135, V_A-ATPase_B, V/A-type ATP synthase (non-	1e-27
PRK05922	434	PRK05922, PRK05922, type III secretion system ATPa	1e-27
PRK05688	451	PRK05688, fliI, flagellum-specific ATP synthase; V	3e-27
TIGR00962	501	TIGR00962, atpA, proton translocating ATP synthase	1e-26
PRK04196	460	PRK04196, PRK04196, V-type ATP synthase subunit B;	1e-26
TIGR03324	497	TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase,	3e-26
COG0056	504	COG0056, AtpA, F0F1-type ATP synthase, alpha subun	2e-25
PRK06002	450	PRK06002, fliI, flagellum-specific ATP synthase; V	2e-25
TIGR01040	466	TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B	2e-25
PRK06793	432	PRK06793, fliI, flagellum-specific ATP synthase; V	3e-25
PRK05922	434	PRK05922, PRK05922, type III secretion system ATPa	7e-25
PRK07196	434	PRK07196, fliI, flagellum-specific ATP synthase; V	2e-24
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	6e-23
COG1156	463	COG1156, NtpB, Archaeal/vacuolar-type H+-ATPase su	1e-22
PRK13343	502	PRK13343, PRK13343, F0F1 ATP synthase subunit alph	7e-22
TIGR01040	466	TIGR01040, V-ATPase_V1_B, V-type (H+)-ATPase V1, B	2e-21
cd01132	274	cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, c	3e-21
TIGR01041	458	TIGR01041, ATP_syn_B_arch, ATP synthase archaeal,	3e-21
TIGR01043	578	TIGR01043, ATP_syn_A_arch, ATP synthase archaeal,	1e-20
COG1155	588	COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase su	2e-20
PRK04196	460	PRK04196, PRK04196, V-type ATP synthase subunit B;	3e-20
TIGR01039	461	TIGR01039, atpD, ATP synthase, F1 beta subunit	7e-20
PRK12597	461	PRK12597, PRK12597, F0F1 ATP synthase subunit beta	2e-19
cd01134	369	cd01134, V_A-ATPase_A, V/A-type ATP synthase catal	2e-19
PRK07960	455	PRK07960, fliI, flagellum-specific ATP synthase; V	3e-19
TIGR01043	578	TIGR01043, ATP_syn_A_arch, ATP synthase archaeal,	4e-19
cd01134	369	cd01134, V_A-ATPase_A, V/A-type ATP synthase catal	4e-19
COG0055	468	COG0055, AtpD, F0F1-type ATP synthase, beta subuni	6e-19
COG1155	588	COG1155, NtpA, Archaeal/vacuolar-type H+-ATPase su	7e-19
TIGR01042	591	TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A	3e-18
PRK02118	436	PRK02118, PRK02118, V-type ATP synthase subunit B;	7e-18
cd01133	274	cd01133, F1-ATPase_beta, F1 ATP synthase beta subu	9e-18
TIGR03305	449	TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase,	5e-16
cd01120	165	cd01120, RecA-like_NTPases, RecA-like NTPases	1e-15
PRK14698	1017	PRK14698, PRK14698, V-type ATP synthase subunit A;	1e-15
PRK04192	586	PRK04192, PRK04192, V-type ATP synthase subunit A;	4e-15
PRK06876	78	PRK06876, PRK06876, F0F1 ATP synthase subunit C; V	4e-15
TIGR01042	591	TIGR01042, V-ATPase_V1_A, V-type (H+)-ATPase V1, A	1e-14
PRK08927	442	PRK08927, fliI, flagellum-specific ATP synthase; V	2e-14
PRK04192	586	PRK04192, PRK04192, V-type ATP synthase subunit A;	4e-14
PRK09281	502	PRK09281, PRK09281, F0F1 ATP synthase subunit alph	1e-13
PRK14698	1017	PRK14698, PRK14698, V-type ATP synthase subunit A;	4e-13
CHL00059	485	CHL00059, atpA, ATP synthase CF1 alpha subunit	1e-12
PTZ00185	574	PTZ00185, PTZ00185, ATPase alpha subunit; Provisio	1e-12
COG0636	79	COG0636, AtpE, F0F1-type ATP synthase, subunit c/A	3e-10
PRK09280	463	PRK09280, PRK09280, F0F1 ATP synthase subunit beta	1e-09
TIGR01260	58	TIGR01260, ATP_synt_c, ATP synthase, F0 subunit c	1e-09
PRK13464	101	PRK13464, PRK13464, F0F1 ATP synthase subunit C; P	3e-09
PRK12608	380	PRK12608, PRK12608, transcription termination fact	5e-09
pfam00306	110	pfam00306, ATP-synt_ab_C, ATP synthase alpha/beta	2e-08
pfam00137	66	pfam00137, ATP-synt_C, ATP synthase subunit C	2e-08
CHL00061	81	CHL00061, atpH, ATP synthase CF0 C subunit	5e-08
PRK07874	80	PRK07874, PRK07874, F0F1 ATP synthase subunit C; V	3e-07
pfam02874	69	pfam02874, ATP-synt_ab_N, ATP synthase alpha/beta	5e-07
PRK05880	81	PRK05880, PRK05880, F0F1 ATP synthase subunit C; V	6e-07
PRK02118	436	PRK02118, PRK02118, V-type ATP synthase subunit B;	7e-07
COG1206	439	COG1206, Gid, NAD(FAD)-utilizing enzyme possibly i	1e-05
cd01128	249	cd01128, rho_factor, Transcription termination fac	2e-05
PRK07354	81	PRK07354, PRK07354, F0F1 ATP synthase subunit C; V	3e-05
COG1158	422	COG1158, Rho, Transcription termination factor [Tr	3e-05
PRK13471	85	PRK13471, PRK13471, F0F1 ATP synthase subunit C; P	4e-05
PRK13466	66	PRK13466, PRK13466, F0F1 ATP synthase subunit C; P	5e-05
PRK07165	507	PRK07165, PRK07165, F0F1 ATP synthase subunit alph	7e-05
TIGR00137	433	TIGR00137, gid_trmFO, tRNA:m(5)U-54 methyltransfer	8e-05
TIGR00767	415	TIGR00767, rho, transcription termination factor R	1e-04
CHL00060	494	CHL00060, atpB, ATP synthase CF1 beta subunit	2e-04
PRK05335	436	PRK05335, PRK05335, tRNA (uracil-5-)-methyltransfe	4e-04
PRK13469	79	PRK13469, PRK13469, F0F1 ATP synthase subunit C; P	5e-04
smart00382	148	smart00382, AAA, ATPases associated with a variety	0.001
TIGR00767	415	TIGR00767, rho, transcription termination factor R	0.002
PRK12678	672	PRK12678, PRK12678, transcription termination fact	0.002
cd01128	249	cd01128, rho_factor, Transcription termination fac	0.003
COG1158	422	COG1158, Rho, Transcription termination factor [Tr	0.003

>gnl|CDD|236447 PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated

 Score =  686 bits (1773), Expect = 0.0
 Identities = 234/332 (70%), Positives = 272/332 (81%), Gaps = 1/332 (0%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +G+ +VRTIA G+T+G+ R   V+DTG PI  PVG  TLGRI NVLG+PID KG I
Sbjct: 44  VAQHLGDGVVRTIAMGSTDGLVRGMEVIDTGAPISVPVGKATLGRIFNVLGEPIDEKGPI 103

Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME 701
            ++++ PIH   P F        ILETGIKVIDLL P+ KGGKIGLFGGAGVGKTV + E
Sbjct: 104 GAEERWPIHRKAPSFEELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQE 163

Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
           LI NIA EH G SVF GVGER+REGND YHEMKES VLDK +L++GQMNEP G RLRVAL
Sbjct: 164 LINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVAL 223

Query: 762 TGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           TGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA EMG+LQE
Sbjct: 224 TGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQE 283

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RI+STK G+ITSVQA+YVPADDLTDP+P+TTF HLD+T VLSRQIAELGIYPA+DPL+S 
Sbjct: 284 RITSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAELGIYPAVDPLDST 343

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           S+ LDP IVGEEHY VA EV+  LQ+YKEL+D
Sbjct: 344 SRILDPLIVGEEHYDVAREVQQILQRYKELQD 375

Length = 463

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

 Score =  670 bits (1732), Expect = 0.0
 Identities = 229/402 (56%), Positives = 302/402 (75%), Gaps = 9/402 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AV++ D +++ +G     T +I E+PVG  LLGR+VN  G+ ID K          VE+ 
Sbjct: 73  AVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLGQPIDGKGPIEATETRPVERK 132

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG++DR+SV+EPL TGIK+ID+MIPIG+GQRELIIGDRQTGKT IAIDTIINQK K+VI
Sbjct: 133 APGVIDRKSVHEPLQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGKDVI 192

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++  V+ KL+ +  M+YT+VVAATA+D A  QY++PY GC +GEYF D 
Sbjct: 193 CIYVAIGQKASTVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDN 252

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+D LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++    E  
Sbjct: 253 GKDALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSD---ELG 309

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
                  G+LTA PIIET  GDV+++IPTNVISITDGQIFL+++LFN+  RPAINVG+SV
Sbjct: 310 ------GGSLTALPIIETQAGDVSAYIPTNVISITDGQIFLESDLFNAGIRPAINVGISV 363

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVGGAAQ K +KK++G +R+ LAQYRELE+F++F SDLD  T+ QL  G+++  L+KQ 
Sbjct: 364 SRVGGAAQIKAMKKVAGTLRLDLAQYRELEAFAQFGSDLDEATRAQLERGQRLVELLKQP 423

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            +    + E ++IL    N +   +P++++  FE  ++ Y R
Sbjct: 424 QYSPLPVEEQVVILYAGTNGYLDDVPVEKVRRFEAELLAYLR 465

Length = 502

>gnl|CDD|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy production and conversion]

 Score =  628 bits (1621), Expect = 0.0
 Identities = 235/334 (70%), Positives = 274/334 (82%), Gaps = 3/334 (0%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +G+N+VRTIA G+T+G+ R   V+DTGKPI  PVG  TLGRI NVLG+PID KG I
Sbjct: 45  VAQHLGDNVVRTIAMGSTDGLVRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPI 104

Query: 642 NSK--KKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNM 699
            ++  +K PIH   P F        ILETGIKVIDLL P+ KGGKIGLFGGAGVGKTV +
Sbjct: 105 KAEDFEKWPIHRKAPSFEELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLI 164

Query: 700 MELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRV 759
            ELI NIA EH G SVF GVGER+REGND YHEMKES VLDK +L++GQMNEP G R+RV
Sbjct: 165 QELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRV 224

Query: 760 ALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL 818
           ALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA EMG+L
Sbjct: 225 ALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQL 284

Query: 819 QERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLE 878
           QERI+STK G+ITSVQA+YVPADDLTDP+P+TTF HLD+T VLSRQIA LGIYPA+DPL+
Sbjct: 285 QERITSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAALGIYPAVDPLD 344

Query: 879 SYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           S S+ LDP IVGEEHY+VA EV+  LQ+YKEL+D
Sbjct: 345 STSRALDPKIVGEEHYEVAREVQSILQRYKELQD 378

Length = 468

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

 Score =  614 bits (1586), Expect = 0.0
 Identities = 234/413 (56%), Positives = 305/413 (73%), Gaps = 11/413 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AV++ D  ++ +G +   T +I E+PVG ELLGR+V++ G  ID K          VEK 
Sbjct: 73  AVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGNPIDGKGPIDATKTRPVEKK 132

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG+MDR+SVNEPL TGIK+ID++IPIG+GQRELIIGDRQTGKT IAIDTIINQK   V 
Sbjct: 133 APGVMDRKSVNEPLQTGIKAIDALIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGSGVK 192

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++ NV+  L+ +  MDYT+VVAA+A+DSA  QY++PY GC + EYFRD 
Sbjct: 193 CIYVAIGQKRSTVANVVRTLEEHGAMDYTIVVAASASDSAPLQYLAPYAGCAMAEYFRDN 252

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+D LI+YDDL+KHA AYR+ISLLLRRPPGREA+PGDVFYLHSRLLER++K++       
Sbjct: 253 GKDVLIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFYLHSRLLERAAKLSD------ 306

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
                  G++TA PIIET  GDV+++IPTNVISITDGQIFL+T+LFN+  RPAINVGLSV
Sbjct: 307 ---ELGGGSITALPIIETQAGDVSAYIPTNVISITDGQIFLETDLFNAGIRPAINVGLSV 363

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVG AAQ K +KK++G +R++LAQYRELE+FS+F SDLD  T+ QL  G++++ L+KQ 
Sbjct: 364 SRVGSAAQIKAMKKVAGSLRLILAQYRELEAFSQFGSDLDKATRKQLERGKRLTELLKQP 423

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRI--INLKNNIS 578
            +   S+ E ++IL    N +   +P++++  FE  ++ Y R     L   I 
Sbjct: 424 QYSPLSVEEQVLILYAGTNGYLDDVPVEKVADFEKELLAYLRSDHKELLEEIR 476

Length = 504

>gnl|CDD|211621 TIGR01039, atpD, ATP synthase, F1 beta subunit

 Score =  591 bits (1526), Expect = 0.0
 Identities = 232/332 (69%), Positives = 272/332 (81%), Gaps = 1/332 (0%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +G++ VRTIA G+T+G+ R   V+DTG PI  PVG  TLGRI NVLG+PID KG I
Sbjct: 43  VAQHLGDDTVRTIAMGSTDGLVRGLEVIDTGAPISVPVGKETLGRIFNVLGEPIDEKGPI 102

Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME 701
            +K++ PIH   P F  Q     ILETGIKVIDLL P+ KGGKIGLFGGAGVGKTV + E
Sbjct: 103 PAKERWPIHRKAPSFEEQSTKVEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQE 162

Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
           LI NIA EH G SVF GVGER+REGND YHEMKES V+DK +L+YGQMNEP G R+RVAL
Sbjct: 163 LINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVAL 222

Query: 762 TGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           TGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA EMG+LQE
Sbjct: 223 TGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGELQE 282

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RI+STK G+ITSVQA+YVPADDLTDP+P+TTF HLD+T VLSR+IAELGIYPA+DPL+S 
Sbjct: 283 RITSTKTGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRKIAELGIYPAVDPLDST 342

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           S+ LDP +VGEEHY VA  V+  LQ+YKEL+D
Sbjct: 343 SRLLDPSVVGEEHYDVARGVQQILQRYKELQD 374

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 [Energy metabolism, ATP-proton motive force interconversion]. Length = 461

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

 Score =  574 bits (1482), Expect = 0.0
 Identities = 201/402 (50%), Positives = 280/402 (69%), Gaps = 9/402 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AVL+DD  ++  G +   T ++ E+PVG  LLGR+++  G  +D         R  +E+ 
Sbjct: 73  AVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVIDPLGRPLDGGGPLQATARRPLERP 132

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           AP I++R+ V EPL TGIK +D++IPIG+GQRELIIGDRQTGKT IAID IINQK+ +VI
Sbjct: 133 APAIIERDFVTEPLQTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAIINQKDSDVI 192

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           C+YV IGQK S++  VI  L+ +  ++YT VV A A+D    QY++P+ GC I EYFRD 
Sbjct: 193 CVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQ 252

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           GQD LI+YDDL+KHA AYR++SLLLRRPPGREA+PGD+FYLHSRLLER++K++       
Sbjct: 253 GQDALIVYDDLSKHAAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSP------ 306

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
                  G+LTA PIIETL G+++++IPTN+ISITDGQI+LD++LF +  RPA++VGLSV
Sbjct: 307 ---ELGGGSLTALPIIETLAGELSAYIPTNLISITDGQIYLDSDLFAAGQRPAVDVGLSV 363

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVGG AQ+  ++K SG +R+  AQ+ ELE+F++F   LD  T+ Q+  G ++  L+KQ 
Sbjct: 364 SRVGGKAQHPAIRKESGRLRLDYAQFLELEAFTRFGGLLDAGTQKQITRGRRLRELLKQP 423

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
                S+ E I +L  +       +P+  I+ FE  +++   
Sbjct: 424 RFSPLSVEEQIALLYALNEGLLDAVPLANIQAFEERLLEKLD 465

Length = 502

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

 Score =  572 bits (1477), Expect = 0.0
 Identities = 239/402 (59%), Positives = 305/402 (75%), Gaps = 9/402 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AV++ D  ++ +G     T +I E+PVG  LLGR+VN+ GE ID K          VEKI
Sbjct: 72  AVIMGDYSDIREGSTVKRTGRILEVPVGDGLLGRVVNALGEPIDGKGPIDSDEFSPVEKI 131

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG+++R+SV+EPL TGIK+ID+MIPIG+GQRELIIGDRQTGKT +AIDTIINQK+ +V 
Sbjct: 132 APGVIERKSVHEPLQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAVAIDTIINQKDSDVY 191

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++  V+ KL+ +  M YT+VVAATA+DSA+ QY++PYTGCT+GEYFRD 
Sbjct: 192 CIYVAIGQKASTVAQVVRKLEEHGAMAYTIVVAATASDSASLQYLAPYTGCTMGEYFRDN 251

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+  LIIYDDL+K A AYRQISLLLRRPPGREAFPGDVFYLHSRLLER++K+N       
Sbjct: 252 GKHALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAAKLND------ 305

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
               K  G+LTA PIIET  GDV+++IPTNVISITDGQIFL+++LFNS  RPAINVGLSV
Sbjct: 306 ---EKGGGSLTALPIIETQAGDVSAYIPTNVISITDGQIFLESDLFNSGIRPAINVGLSV 362

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVGGAAQ K +K+++G +R+ LAQYRELE+FS+F+SDLD  TK QL  G+++  L+KQ 
Sbjct: 363 SRVGGAAQIKAMKQVAGSLRLELAQYRELEAFSQFASDLDEATKKQLERGQRVVELLKQP 422

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            ++  S+ E ++IL      +   IP+ +I  FE  ++ Y  
Sbjct: 423 QYKPLSVEEQVVILFAGTKGYLDDIPVDKIRKFEQALLAYLD 464

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|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional

 Score =  557 bits (1438), Expect = 0.0
 Identities = 210/332 (63%), Positives = 254/332 (76%), Gaps = 1/332 (0%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V+Q + E  VR IA G+T+G+ R   V +TG PI  PVG+  LGR+L+VLG+P+D    +
Sbjct: 43  VKQHLDETTVRAIALGSTSGLARGDEVRNTGGPIEVPVGEAVLGRLLDVLGEPLDGGPPL 102

Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME 701
            ++++ PIH+  P  + Q  +  ILETGIKVIDLLCP  KGGK GLFGGAGVGKTV MME
Sbjct: 103 PAEERRPIHSTIPPLAEQDTSTEILETGIKVIDLLCPIAKGGKTGLFGGAGVGKTVLMME 162

Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
           LI NI+ +H G SVF GVGERSREG++ YHEMKES VLDK  ++YGQMNEP G R+RV L
Sbjct: 163 LIFNISKQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVL 222

Query: 762 TGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE 820
           TGL+IAE  R+   +DVLLFIDNI+RF  AG+EVS +LGR PS VGYQPTLA E+ +LQE
Sbjct: 223 TGLTIAEYLRDEEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSRVGYQPTLASEVAELQE 282

Query: 821 RISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY 880
           RI+STKNG+ITS+QA+YVPADDLTDP+    F+HLDST+VLSR  A  GIYPAIDPL S 
Sbjct: 283 RIASTKNGSITSIQAVYVPADDLTDPAAVAIFSHLDSTVVLSRAQAAKGIYPAIDPLASS 342

Query: 881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           S  LDP +VGE HY  A EVK  LQ+YKEL+D
Sbjct: 343 SNLLDPLVVGERHYDAAIEVKRILQRYKELED 374

Length = 461

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

 Score =  538 bits (1387), Expect = 0.0
 Identities = 214/429 (49%), Positives = 284/429 (66%), Gaps = 20/429 (4%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
            VL+ D   + +G     T KI +IPV    LGR+VN+  + ID K +        +E  
Sbjct: 52  VVLMGDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALAKPIDGKGEISASESRLIESP 111

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APGI+ R SV EPL TG+ +IDSMIPIG+GQRELIIGDRQTGKT +A DTI+NQK +NVI
Sbjct: 112 APGIISRRSVYEPLQTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVATDTILNQKGQNVI 171

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           C+YV IGQK SS+  V+  L+    M+YT+VVA TA   A  QY++PYTG  + EYF   
Sbjct: 172 CVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYR 231

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++    E  
Sbjct: 232 GRHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSQLGE-- 289

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
                  G++TA PI+ET  GDV+++IPTNVISITDGQIFL  +LFN+  RPAINVG+SV
Sbjct: 290 -------GSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISV 342

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVG AAQ K +K+++G +++ LAQ+ ELE+F++F+SDLD  T+ QL  G+++  L+KQ 
Sbjct: 343 SRVGSAAQIKAMKQVAGKLKLELAQFAELEAFAQFASDLDKATQNQLARGQRLRELLKQS 402

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIG 587
                ++ E +  +    N +   + I Q+  F         ++ L+  +  NK   Q  
Sbjct: 403 QSAPLTVEEQVATIYTGTNGYLDSLEIGQVRKF---------LVELRTYLKTNK--PQFQ 451

Query: 588 ENIVRTIAF 596
           E I  T  F
Sbjct: 452 EIISSTKTF 460

Length = 485

>gnl|CDD|214349 CHL00060, atpB, ATP synthase CF1 beta subunit

 Score =  536 bits (1382), Expect = 0.0
 Identities = 215/339 (63%), Positives = 258/339 (76%), Gaps = 8/339 (2%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           VQQ +G N VR +A   T+G+ R   V+DTG P+  PVG  TLGRI NVLG+P+DN G +
Sbjct: 61  VQQLLGNNRVRAVAMSATDGLMRGMEVIDTGAPLSVPVGGATLGRIFNVLGEPVDNLGPV 120

Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME 701
           +++  SPIH   P F       +I ETGIKV+DLL P+ +GGKIGLFGGAGVGKTV +ME
Sbjct: 121 DTRTTSPIHRSAPAFIQLDTKLSIFETGIKVVDLLAPYRRGGKIGLFGGAGVGKTVLIME 180

Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-------KVSLIYGQMNEPSG 754
           LI NIA  H G SVF GVGER+REGND Y EMKES V++       KV+L+YGQMNEP G
Sbjct: 181 LINNIAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPG 240

Query: 755 NRLRVALTGLSIAEEFRNSGK-DVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE 813
            R+RV LT L++AE FR+  K DVLLFIDNI+RF  AG+EVSA+LGR PSAVGYQPTL+ 
Sbjct: 241 ARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLST 300

Query: 814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPA 873
           EMG LQERI+STK G+ITS+QA+YVPADDLTDP+P+TTF HLD+T VLSR +A  GIYPA
Sbjct: 301 EMGSLQERITSTKEGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPA 360

Query: 874 IDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +DPL+S S  L P IVGEEHY+ A  VK  LQ+YKEL+D
Sbjct: 361 VDPLDSTSTMLQPRIVGEEHYETAQRVKQTLQRYKELQD 399

Length = 494

>gnl|CDD|238553 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit, nucleotide-binding domain

 Score =  522 bits (1346), Expect = 0.0
 Identities = 200/274 (72%), Positives = 225/274 (82%), Gaps = 1/274 (0%)

Query: 614 PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVI 673
           PI  PVG  TLGRI NVLG+PID +G I +KK  PIH   P+F  Q     ILETGIKVI
Sbjct: 1   PISVPVGPETLGRIFNVLGEPIDERGPIKTKKTWPIHREAPEFVEQSTKTEILETGIKVI 60

Query: 674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM 733
           DLL P+ KGGKIGLFGGAGVGKTV +MELI NIA  H G SVF GVGER+REGND YHEM
Sbjct: 61  DLLAPYAKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEM 120

Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGT 792
           KES VL K +L+YGQMNEP G R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+
Sbjct: 121 KESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGS 180

Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTF 852
           EVSA+LGR PSAVGYQPTLA EMG LQERI+STK G+ITSVQA+YVPADDLTDP+P+TTF
Sbjct: 181 EVSALLGRMPSAVGYQPTLATEMGALQERITSTKKGSITSVQAVYVPADDLTDPAPATTF 240

Query: 853 THLDSTIVLSRQIAELGIYPAIDPLESYSKQLDP 886
            HLD+T VLSR IAELGIYPA+DPL+S S+ LDP
Sbjct: 241 AHLDATTVLSRAIAELGIYPAVDPLDSTSRILDP 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 beta subunit of ATP synthase is catalytic. Length = 274

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

 Score =  492 bits (1269), Expect = e-169
 Identities = 186/283 (65%), Positives = 221/283 (78%), Gaps = 9/283 (3%)

Query: 189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSI 248
           I ++PVG  LLGR+V++ G  ID K     K R  +E  APGI+ R+SVNEPL TGIK+I
Sbjct: 1   IADVPVGEALLGRVVDALGNPIDGKGPIETKERRPIESKAPGIIPRKSVNEPLQTGIKAI 60

Query: 249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLK 308
           D+MIPIG+GQRELIIGDRQTGKT IAIDTIINQK K V CIYV IGQK S++  V+  L+
Sbjct: 61  DAMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGKKVYCIYVAIGQKASTVAQVVKTLE 120

Query: 309 YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI 368
            +  M+YT+VVAATA+D A  QY++PYTGC +GEYF D G+  LIIYDDL+K A AYRQ+
Sbjct: 121 EHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQM 180

Query: 369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEG 428
           SLLLRRPPGREA+PGDVFYLHSRLLER++K+N              G+LTA PIIET  G
Sbjct: 181 SLLLRRPPGREAYPGDVFYLHSRLLERAAKLND---------ELGGGSLTALPIIETQAG 231

Query: 429 DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG 471
           DV+++IPTNVISITDGQIFL+T+LFN   RPAINVGLSVSRVG
Sbjct: 232 DVSAYIPTNVISITDGQIFLETDLFNKGIRPAINVGLSVSRVG 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|132367 TIGR03324, alt_F1F0_F1_al, alternate F1F0 ATPase, F1 subunit alpha

 Score =  444 bits (1145), Expect = e-147
 Identities = 185/389 (47%), Positives = 260/389 (66%), Gaps = 9/389 (2%)

Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL+ +  +L  G +   T ++ ++PVG  LLGR+V+  G  +D         R  +E+ A
Sbjct: 74  VLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLGRPLDGGGPLASSPRLPIERPA 133

Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           P IMDR  V  PL TG+K ID++IPIG+GQRELI+GDRQTGKT IAIDTI+NQK +NV+C
Sbjct: 134 PPIMDRAPVTVPLQTGLKVIDALIPIGRGQRELILGDRQTGKTAIAIDTILNQKGRNVLC 193

Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG 348
           IY  IGQ+ S++  V+  L+ +  MDYT+VV     D    QYI+PY   +IGE+F + G
Sbjct: 194 IYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQG 253

Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           +D LI+YDDLT+HA AYR++SLLLRRPPGREAFPGD+FY+HSRLLERS+ +N+       
Sbjct: 254 RDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIFYVHSRLLERSTHLNE------- 306

Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
                 G+LTA PIIET   +++++IPTN+ISITDGQI+L   LF     PA++VG SVS
Sbjct: 307 --ELGGGSLTALPIIETEAQNISAYIPTNLISITDGQIYLSPTLFELGVLPAVDVGKSVS 364

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGG AQ    + ++GD+++  AQ+ ELE+F++F + LD  T+  + +G +I   +KQ  
Sbjct: 365 RVGGKAQLAAYRAVAGDLKLAYAQFEELETFARFGARLDENTRKTIEHGRRIRACLKQTQ 424

Query: 529 HENYSIVELIIILLIIKNRFFFKIPIKQI 557
               ++ + I ILL + N  F  + +  +
Sbjct: 425 SSPLTVPQQIAILLALTNGLFDGVDLDAM 453

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|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta

 Score =  409 bits (1054), Expect = e-134
 Identities = 170/333 (51%), Positives = 229/333 (68%), Gaps = 1/333 (0%)

Query: 581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE 640
           +V  Q+  + VR IA   T G+ R   V D+G P+  PVG  TL R+ +V G+ ID +  
Sbjct: 37  EVLSQLDAHHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDRREP 96

Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
               +   +H  PP  + +   + + ETGIK ID+L P  +GGK GLFGGAGVGKTV + 
Sbjct: 97  PKDVEWRSVHQAPPTLTRRSSKSEVFETGIKAIDVLVPLERGGKAGLFGGAGVGKTVLLT 156

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           E+I N+  +H+G S+F G+GER REG + Y EMKE+ VLD   +++GQMNEP G R RV 
Sbjct: 157 EMIHNMVGQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG 216

Query: 761 LTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ 819
            T L++AE FR +  +DVLL IDNI+RF  AG+EVS +LG+ PS +GYQPTL  E+ +L+
Sbjct: 217 HTALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELE 276

Query: 820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
           ERI++T +G ITS+QA+YVPADD TDP+   TF+HL +++VLSR+ A  G+YPAIDPL+S
Sbjct: 277 ERIATTSDGAITSIQAVYVPADDFTDPAAVHTFSHLSASLVLSRKRASEGLYPAIDPLQS 336

Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
            SK   P IVGE HY +A EV+  L +Y+ELKD
Sbjct: 337 TSKMATPGIVGERHYDLAREVRQTLAQYEELKD 369

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

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

 Score =  355 bits (912), Expect = e-112
 Identities = 199/448 (44%), Positives = 280/448 (62%), Gaps = 44/448 (9%)

Query: 139 NIKFANNTVLSGQINGTTGYEEAAAQGFV----------AVLIDDLKNLTQGQKCFCTEK 188
           N   A NT++  Q++ TT      A G V           +L+D++  +  GQK   T K
Sbjct: 59  NPGVAYNTIIMIQVSPTT-----FAAGLVFNLEKDGRIGIILMDNITEVQSGQKVMATGK 113

Query: 189 IFEIPVGFELLGRIVNSKGEFID----NKKKFLIKNRETVEKI---APGIMDRESVNEPL 241
           +  IPVG  +LG++VN  G  +      + + L+++ +T+ K+   AP I+ R  VN  L
Sbjct: 114 LLYIPVGAGVLGKVVNPLGHEVPVGLLTRSRALLESEQTLGKVDAGAPNIVSRSPVNYNL 173

Query: 242 LTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKN--------VICIYVCI 293
           LTG K++D+MIPIG+GQRELI+GDRQTGKT+IA+ TIINQ   N        VI IYV I
Sbjct: 174 LTGFKAVDTMIPIGRGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSI 233

Query: 294 GQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLI 353
           GQ+ S++  +   L+ Y  + YT V+AATAA+ A  QY++PY+G T+GEYF + G+ CL 
Sbjct: 234 GQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTMGEYFMNRGRHCLC 293

Query: 354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKN 413
           +YDDL+K A AYRQISLLLRRPPGREA+PGDVFYLHSRLLER++ ++           K 
Sbjct: 294 VYDDLSKQAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAMLSP---------GKG 344

Query: 414 NGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGA 473
            G++TA PI+ETL  DVT++I TNVISITDGQI+LDT LF    RPA+N+GLSVSRVG +
Sbjct: 345 GGSVTALPIVETLSNDVTAYIVTNVISITDGQIYLDTKLFTGGQRPAVNIGLSVSRVGSS 404

Query: 474 AQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYS 533
           AQ   +K ++G ++ +LA+YR+L + S   S +  V    +  G +   L  QK    + 
Sbjct: 405 AQNVAMKAVAGKLKGILAEYRKLAADSVGGSQVQTVP---MIRGARFVALFNQKNPSFF- 460

Query: 534 IVELIIILLIIKNRFFFKIPIKQIELFE 561
            +  ++ L    N +   + +   +L+E
Sbjct: 461 -MNALVSLYACLNGYLDDVKVNYAKLYE 487

Length = 574

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

 Score =  321 bits (826), Expect = e-100
 Identities = 158/398 (39%), Positives = 229/398 (57%), Gaps = 31/398 (7%)

Query: 197 ELLGRIVNSKGEFIDNKKKFLIK-----NRETVEKIAPGIMDRESVNEPLLTGIKSIDSM 251
           E  G+I++  G  I  + +  +      N  ++  +A G+M  +++NE L TGI +ID +
Sbjct: 78  EYFGKIIDIDGNIIYPEAQNPLSKKFLPNTSSIFNLAHGLMTVKTLNEQLYTGIIAIDLL 137

Query: 252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYN 311
           IPIGKGQRELIIGDRQTGKT IA++TIINQKN NV CIYV IGQK  +L  +   LK ++
Sbjct: 138 IPIGKGQRELIIGDRQTGKTHIALNTIINQKNTNVKCIYVAIGQKRENLSRIYETLKEHD 197

Query: 312 CMDYTVVVAATAADSAAEQYISPYTGCTIGE---YFRDLGQDCLIIYDDLTKHAWAYRQI 368
            +  T+++ A  + S  EQY++PY      E   Y      D LI++DDLTKHA  YR+I
Sbjct: 198 ALKNTIIIDA-PSTSPYEQYLAPYVAMAHAENISYN----DDVLIVFDDLTKHANIYREI 252

Query: 369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEG 428
           +LL  +P G+EAFPGD+F+ HS+LLER+ K             KN  T+TA PI++T++ 
Sbjct: 253 ALLTNKPVGKEAFPGDMFFAHSKLLERAGKF------------KNRKTITALPILQTVDN 300

Query: 429 DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRI 488
           D+TS I +N+ISITDGQI   ++LF S   PAI++ LSVSR G + Q K + K++G+I  
Sbjct: 301 DITSLISSNIISITDGQIVTSSDLFASGKLPAIDIDLSVSRTGSSVQSKTITKVAGEISK 360

Query: 489 MLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRF 548
           +   Y+     S    DL+  T   L+ G+ I  +  QK    YS   +++I  +I    
Sbjct: 361 IYRAYKRQLKLSMLDYDLNKETSDLLFKGKMIEKMFNQKGFSLYSYRFVLLISKLISWGL 420

Query: 549 FFKIPIKQ------IELFEINIIKYFRIINLKNNISIN 580
              +  +Q        L E +         +KNN  ++
Sbjct: 421 LKDVKDEQKALDFIDYLIENDPDAKKIFNKIKNNEDVD 458

Length = 507

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

 Score =  308 bits (792), Expect = 3e-99
 Identities = 102/226 (45%), Positives = 137/226 (60%), Gaps = 13/226 (5%)

Query: 243 TGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLIN 302
           TGI++ID ++PIGKGQR  I G   TGKT +      N K  +V+ +YV IG++   +  
Sbjct: 1   TGIRAIDLLLPIGKGQRIGIFGGSGTGKTVLLGMIARNAK-ADVVEVYVLIGERGREVAE 59

Query: 303 VINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA 362
            I +L     +  TVVVAAT+ +  AE+Y++PYT  TI EYFRD G+D L++ D LT+ A
Sbjct: 60  FIEELLGEGALKRTVVVAATSDEPPAERYLAPYTALTIAEYFRDQGKDVLLLLDSLTRFA 119

Query: 363 WAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPI 422
            A R+ISLLL  PPGRE +PG +F   +RLLER+ K+            +  G++TA P 
Sbjct: 120 RALREISLLLGEPPGREGYPGSLFSDLARLLERAGKV------------EGGGSITALPT 167

Query: 423 IETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
           +    GD+T  IP N ISITDGQI L   L      PAI++ LSVS
Sbjct: 168 VLVPGGDITDPIPDNTISITDGQIVLSRELAERGIYPAIDILLSVS 213

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

 Score =  258 bits (661), Expect = 3e-80
 Identities = 91/215 (42%), Positives = 127/215 (59%), Gaps = 3/215 (1%)

Query: 668 TGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGN 727
           TGI+ IDLL P  KG +IG+FGG+G GKTV +  + RN   +     V++ +GER RE  
Sbjct: 1   TGIRAIDLLLPIGKGQRIGIFGGSGTGKTVLLGMIARNA--KADVVEVYVLIGERGREVA 58

Query: 728 DFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRF 787
           +F  E+     L +  ++    +EP   R     T L+IAE FR+ GKDVLL +D++ RF
Sbjct: 59  EFIEELLGEGALKRTVVVAATSDEPPAERYLAPYTALTIAEYFRDQGKDVLLLLDSLTRF 118

Query: 788 TLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN-GTITSVQAIYVPADDLTDP 846
             A  E+S +LG  P   GY  +L  ++ +L ER    +  G+IT++  + VP  D+TDP
Sbjct: 119 ARALREISLLLGEPPGREGYPGSLFSDLARLLERAGKVEGGGSITALPTVLVPGGDITDP 178

Query: 847 SPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS 881
            P  T +  D  IVLSR++AE GIYPAID L S S
Sbjct: 179 IPDNTISITDGQIVLSRELAERGIYPAIDILLSVS 213

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

 Score =  237 bits (606), Expect = 2e-69
 Identities = 118/329 (35%), Positives = 175/329 (53%), Gaps = 8/329 (2%)

Query: 586 IGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKK 645
             E  V  + F    G+     VV TG+P+  PVGD  LGR+L+ LG P+D  G  +  +
Sbjct: 67  FNEERVLLMPFEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLDGGGLPDGTE 126

Query: 646 KSPIHTLPPK-FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIR 704
           + P+   PP     +      L+TG++ ID L    KG +IG+F G+GVGK+  +  + R
Sbjct: 127 RRPLDAPPPNPLKRRPIEE-PLDTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTLLGMIAR 185

Query: 705 NIAIEHKGCSVFIG-VGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
           N   +       I  +GER RE  +F  +      L +  ++    +E +  RL+ A T 
Sbjct: 186 NTEAD----VNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTA 241

Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            +IAE FR+ GK VLL +D++ RF +A  E+    G  P+  GY P++  E+ +L ER  
Sbjct: 242 TTIAEYFRDQGKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLERAG 301

Query: 824 STKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ 883
           +   G+IT+   + V  DD+ DP      + LD  IVLSR +AE G YPAID L S S+ 
Sbjct: 302 NGDKGSITAFYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAEAGHYPAIDVLASISR- 360

Query: 884 LDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           + P IV EEH K A  ++  L +Y+E +D
Sbjct: 361 VMPQIVSEEHRKAARRLRQLLSRYEENED 389

Length = 441

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

 Score =  217 bits (555), Expect = 3e-62
 Identities = 112/320 (35%), Positives = 175/320 (54%), Gaps = 7/320 (2%)

Query: 595 AFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE-INSKKKSPIHTLP 653
            +    G++  + V+ TG+ +   VGD  LGR+L+ LG PID KG+ +++ +   + T P
Sbjct: 75  PYEEVEGVRPGSKVLATGEGLSIKVGDGLLGRVLDGLGKPIDGKGKFLDNVETEGLITAP 134

Query: 654 PKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC 713
                +     IL TG++ ID L    KG +IG+F G+GVGK+  +  + RN        
Sbjct: 135 INPLKRAPIREILSTGVRSIDGLLTVGKGQRIGIFAGSGVGKSTLLGMIARN---TEADV 191

Query: 714 SVFIGVGERSREGNDFY-HEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN 772
           +V   +GER RE  +F  H++ E   L +  ++    ++    RL+ A    +IAE FR+
Sbjct: 192 NVIALIGERGREVREFIEHDLGEEG-LKRSVVVVATSDQSPLLRLKGAYVATAIAEYFRD 250

Query: 773 SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITS 832
            GKDVLL +D++ RF +A  E+    G  P+  GY P++   + +L ER  ++  G+IT+
Sbjct: 251 QGKDVLLLMDSVTRFAMAQREIGLAAGEPPATKGYTPSVFSTLPRLLERAGASGKGSITA 310

Query: 833 VQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEE 892
              + V  DD+ +P   +    LD  IVLSR +A+ G YPAID L S S+ L   IV EE
Sbjct: 311 FYTVLVEGDDMNEPIADSVRGILDGHIVLSRALAQRGHYPAIDVLASISR-LMTAIVSEE 369

Query: 893 HYKVANEVKFYLQKYKELKD 912
           H + A + +  L KYK+ +D
Sbjct: 370 HRRAARKFRELLSKYKDNED 389

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|211826 TIGR03497, FliI_clade2, flagellar protein export ATPase FliI

 Score =  211 bits (539), Expect = 2e-60
 Identities = 118/324 (36%), Positives = 177/324 (54%), Gaps = 18/324 (5%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPK 655
            G   GI   ++V+ TG+P+   VG   LGR+L+ LG P+D +G I  ++  P+   PP 
Sbjct: 51  LGEVEGIGPGSLVIATGRPLAIKVGKGLLGRVLDGLGRPLDGEGPIIGEEPYPLDNPPPN 110

Query: 656 -FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCS 714
                   +  LETGIK ID L    KG ++G+F G+GVGK+  +  + RN   +    +
Sbjct: 111 PLKRPRIRD-PLETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTLLGMIARNAKAD---IN 166

Query: 715 VFIGVGERSREGNDFYHE------MKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAE 768
           V   +GER RE  DF  +      +K S V+   S      ++P+  RL+ A T  +IAE
Sbjct: 167 VIALIGERGREVRDFIEKDLGEEGLKRSVVVVATS------DQPALMRLKAAFTATAIAE 220

Query: 769 EFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNG 828
            FR+ GKDVLL +D++ RF +A  E+   +G  P+  GY P++   + KL ER  +++ G
Sbjct: 221 YFRDQGKDVLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGNSQKG 280

Query: 829 TITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI 888
           +IT    + V  DD+ +P        LD  IVLSR++A    YPAID L S S+ +   I
Sbjct: 281 SITGFYTVLVDGDDMNEPIADAVRGILDGHIVLSRELAAKNHYPAIDVLASVSR-VMNEI 339

Query: 889 VGEEHYKVANEVKFYLQKYKELKD 912
           V EEH ++A +++  L  YKE +D
Sbjct: 340 VSEEHKELAGKLRELLAVYKEAED 363

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

 Score =  206 bits (526), Expect = 1e-59
 Identities = 103/299 (34%), Positives = 165/299 (55%), Gaps = 4/299 (1%)

Query: 614 PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVI 673
           P+  PVGD  LGR+L+  G+P+D KG +  + + P+   PP    +   + +L TG++ I
Sbjct: 1   PLSVPVGDALLGRVLDAFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLPTGVRAI 60

Query: 674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM 733
           D L    KG ++G+F G+GVGK+  +  + R    +    +V   +GER RE  +F  + 
Sbjct: 61  DGLLTVGKGQRLGIFAGSGVGKSTLLGMIARGTTAD---VNVIALIGERGREVREFIEKD 117

Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTE 793
                L +  ++    +E    R++ A T  +IAE FR+ GKDVLL +D++ RF +A  E
Sbjct: 118 LGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFAMAQRE 177

Query: 794 VSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFT 853
           +    G  P+  GY P++   + +L ER  ++  G+IT+   + V  DDL +P      +
Sbjct: 178 IGLAAGEPPTTKGYPPSVFALLPRLLERAGNSDKGSITAFYTVLVEGDDLNEPIADAVRS 237

Query: 854 HLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
            LD  IVLSR +A  G YPAID L+S S+ L   +V  EH + A +++  L  Y+E++D
Sbjct: 238 ILDGHIVLSRALAAAGHYPAIDVLKSISR-LMNAVVTPEHKEAARKLRELLSAYQEVED 295

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

 Score =  206 bits (525), Expect = 2e-58
 Identities = 112/322 (34%), Positives = 172/322 (53%), Gaps = 10/322 (3%)

Query: 595 AFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI---NSKKKSPIHT 651
             G  +GI   + V+ TG+P+   VG+  LGR+L+  G P+D KGE+     + +     
Sbjct: 56  PLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLDGKGELPAGEIETRPLDAD 115

Query: 652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHK 711
            PP  S Q  +   L TG++ ID L    +G +IG+F GAGVGK+  +  + R  + +  
Sbjct: 116 PPPPMSRQPIDQ-PLPTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTLLGMIARGASAD-- 172

Query: 712 GCSVFIGVGERSREGNDFY-HEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEF 770
             +V   +GER RE  +F  H + E     +  L+    + PS  RL+ A T  +IAE F
Sbjct: 173 -VNVIALIGERGREVREFIEHHLGEEG-RKRSVLVVSTSDRPSLERLKAAYTATAIAEYF 230

Query: 771 RNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTI 830
           R+ GK VLL +D++ RF  A  E+    G  P+  GY P++   + +L ER  + + G+I
Sbjct: 231 RDQGKRVLLMMDSLTRFARALREIGLAAGEPPARGGYPPSVFSSLPRLLERAGNGEKGSI 290

Query: 831 TSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVG 890
           T++  + V  DD+ DP      + LD  IVLSR +AE   YPAID L S S+ +   +V 
Sbjct: 291 TALYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAERNHYPAIDVLASLSRVM-SQVVS 349

Query: 891 EEHYKVANEVKFYLQKYKELKD 912
            EH + A +++  L  YKE++ 
Sbjct: 350 TEHRRAAGKLRRLLATYKEVEL 371

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

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

 Score =  202 bits (516), Expect = 3e-57
 Identities = 110/333 (33%), Positives = 166/333 (49%), Gaps = 13/333 (3%)

Query: 586 IGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI-NSK 644
              + V  + F    G+     V     P+        LGR++N LG+PID KG +   +
Sbjct: 43  FNGDRVLLMPFEPLEGVGLGCAVFAREGPLAVRPHPSWLGRVINALGEPIDGKGPLPQGE 102

Query: 645 KKSPIHTLPPK-FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELI 703
           ++ P+   PP   S       +  TG++VID   P  +G ++G+F G+GVGK+  +  L 
Sbjct: 103 RRYPLRASPPPAMSRARVGEPLD-TGVRVIDTFLPLCRGQRLGIFAGSGVGKSTLLSMLA 161

Query: 704 RNIAIEHKGCSVFIG-VGERSREGNDFY-HEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
           RN   +     V I  VGER RE  +F   ++ E   L +  ++    +E    R + A 
Sbjct: 162 RNTDAD----VVVIALVGERGREVREFLEDDLGEEG-LKRSVVVVATSDESPLMRRQAAY 216

Query: 762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
           T  +IAE FR+ GKDVLL +D++ RF +A  E+    G  P A GY P++  E+ +L ER
Sbjct: 217 TATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLER 276

Query: 822 --ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
               +   G+IT +  + V  DD  +P        LD  IVL R IAE G YPAI+ L S
Sbjct: 277 AGPGAEGKGSITGIFTVLVDGDDHNEPVADAVRGILDGHIVLDRAIAERGRYPAINVLAS 336

Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
            S+ L P +   E  K+   ++  L +Y+E +D
Sbjct: 337 VSR-LAPRVWSPEERKLVRRLRALLARYEETED 368

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|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI

 Score =  200 bits (510), Expect = 2e-56
 Identities = 108/330 (32%), Positives = 171/330 (51%), Gaps = 28/330 (8%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPK 655
             +  G++    V     P+  PVGD  LGR+++ LG P+D KG +++ ++ P++  P  
Sbjct: 51  LEDVEGLRPGARVFPLEGPLRLPVGDSLLGRVIDGLGRPLDGKGPLDAGERVPLYAPPI- 109

Query: 656 FSNQIFN-------NNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI 708
                 N       +  L+ G++ I+ L    +G ++G+F G+GVGK+  +  + R    
Sbjct: 110 ------NPLKRAPIDEPLDVGVRAINGLLTVGRGQRMGIFAGSGVGKSTLLGMMARYTEA 163

Query: 709 EHKGCSVFIG-VGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
           +     V +G +GER RE  +F  ++     L +  ++    +E    RLR A    +IA
Sbjct: 164 D----VVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAFYATAIA 219

Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER--ISST 825
           E FR+ GKDVLL +D++ RF +A  E++  +G  P+  GY P++  ++ +L ER      
Sbjct: 220 EYFRDQGKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFAKLPQLVERAGNGEE 279

Query: 826 KNGTITSVQAIY---VPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK 882
             G+IT   A Y   V  DD  DP        LD  IVLSR++AE G YPAID L S S+
Sbjct: 280 GKGSIT---AFYTVLVEGDDQQDPIADAARAILDGHIVLSRELAEQGHYPAIDILASISR 336

Query: 883 QLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
            + P +V  EH + A   K  L +Y+E +D
Sbjct: 337 -VMPDVVSPEHRQAARRFKQLLSRYQENRD 365

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|235362 PRK05192, PRK05192, tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated

 Score =  204 bits (521), Expect = 6e-56
 Identities = 72/145 (49%), Positives = 86/145 (59%), Gaps = 23/145 (15%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDKI +F +   HQIFLEPEG  + E+Y NG+STSL  + Q ++++ I GL
Sbjct: 269 VGPRYCPSIEDKIVRFADKDRHQIFLEPEGLDTNEVYPNGISTSLPEDVQLEMLRSIPGL 328

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA---- 168
             + I+R  Y IEYDY DPR L  TL  K       +GQINGTTGYEEAAAQG +A    
Sbjct: 329 ENAEILRPGYAIEYDYVDPRQLKPTLETKKIKGLFFAGQINGTTGYEEAAAQGLIAGINA 388

Query: 169 -------------------VLIDDL 174
                              VLIDDL
Sbjct: 389 ALKVQGEPFILKRSEAYIGVLIDDL 413

Length = 618

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

 Score =  186 bits (473), Expect = 3e-51
 Identities = 107/316 (33%), Positives = 163/316 (51%), Gaps = 6/316 (1%)

Query: 597 GNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKF 656
           G   GI  NT V  TG      VG+  LGR+L+ LG P D           P++   P  
Sbjct: 77  GEMYGISSNTEVSPTGTMHQVGVGEHLLGRVLDGLGQPFDGGHPPEPAAWYPVYADAPAP 136

Query: 657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVF 716
            ++      L  G++VID L    +G ++G+F  AG GK+  +  LIR+  ++    +V 
Sbjct: 137 MSRRLIETPLSLGVRVIDGLLTCGEGQRMGIFAAAGGGKSTLLASLIRSAEVD---VTVL 193

Query: 717 IGVGERSREGNDFY-HEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGK 775
             +GER RE  +F   ++ E   L K  L+    + PS  R +      SIAE FR+ GK
Sbjct: 194 ALIGERGREVREFIESDLGEEG-LRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQGK 252

Query: 776 DVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQA 835
            VLL +D++ RF  A  E+    G  P+  GY P++   + +L ER   +  G+IT++  
Sbjct: 253 RVLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRLMERAGQSDKGSITALYT 312

Query: 836 IYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK 895
           + V  DD+T+P    T + LD  I+LSR++A    YPAID L S S+ ++  IV +EH  
Sbjct: 313 VLVEGDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMNQ-IVSKEHKT 371

Query: 896 VANEVKFYLQKYKELK 911
            A  ++  L KY+E++
Sbjct: 372 WAGRLRELLAKYEEVE 387

Length = 439

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

 Score =  184 bits (469), Expect = 2e-50
 Identities = 108/336 (32%), Positives = 166/336 (49%), Gaps = 33/336 (9%)

Query: 171 IDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPG 230
            + ++ ++ G +   T +   +PVG  LLGR+++  G  +D         R  ++   P 
Sbjct: 77  FEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLDGGGLPDGTERRPLDAPPPN 136

Query: 231 IMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTT----IAIDTIINQKNKNV 286
            + R  + EPL TG+++ID ++  GKGQR  I      GK+T    IA +T   + + NV
Sbjct: 137 PLKRRPIEEPLDTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTLLGMIARNT---EADVNV 193

Query: 287 ICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD 346
           I +   IG++   +   I K      +  +VVV AT+ +SA  +  + +T  TI EYFRD
Sbjct: 194 IAL---IGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTATTIAEYFRD 250

Query: 347 LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEK 406
            G+  L+I D LT+ A A R+I L    PP  + +P  VF    RLLER+          
Sbjct: 251 QGKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRLLERAG--------- 301

Query: 407 KKIFNKNNGTLTAFPIIETLEGD-VTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL 465
               N + G++TAF  +  +EGD +   I   V SI DG I L   L  + + PAI+V  
Sbjct: 302 ----NGDKGSITAFYTV-LVEGDDMNDPIADEVRSILDGHIVLSRALAEAGHYPAIDVLA 356

Query: 466 SVSRVGGAA----QYKIVKKLSGDIRIMLAQYRELE 497
           S+SRV          K  ++L    R +L++Y E E
Sbjct: 357 SISRVMPQIVSEEHRKAARRL----RQLLSRYEENE 388

Length = 441

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

 Score =  183 bits (467), Expect = 2e-50
 Identities = 108/336 (32%), Positives = 173/336 (51%), Gaps = 14/336 (4%)

Query: 584 QQIGENIVRTI--AFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLG---DPIDNK 638
           Q +G    RTI    GN  G+ R  ++  TGKP+   VG+  LG +L+  G   +  D  
Sbjct: 47  QVVGFQRERTILSLIGNAQGLSRQVVLKPTGKPLSVWVGEALLGAVLDPTGKIVERFDAP 106

Query: 639 GEINSKKKS-PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTV 697
             +    +   I   PP ++ +      L TG++ ID L     G ++G+F  AG GKT 
Sbjct: 107 PTVGPISEERVIDVAPPSYAERRPIREPLITGVRAIDGLLTCGVGQRMGIFASAGCGKTS 166

Query: 698 NMMELIRNIAIEHKGCSVF-IG-VGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGN 755
            M     N+ IEH    VF IG +GER RE  +F   ++ S+  +K  L+Y   +  S +
Sbjct: 167 LM-----NMLIEHSEADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVD 221

Query: 756 RLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
           R   AL   ++AE FR+ GK V+LFID++ R+  A  +V+   G  P+  GY  ++ + +
Sbjct: 222 RCNAALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALAAGELPARRGYPASVFDSL 281

Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
            +L ER  +T  G+IT+   + + +++  DP      + LD  I LSR++A  G YPAID
Sbjct: 282 PRLLERPGATLAGSITAFYTVLLESEEEPDPIGDEIRSILDGHIYLSRKLAAKGHYPAID 341

Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELK 911
            L+S S+     +   +H ++A   +  L + +EL+
Sbjct: 342 VLKSVSRVFGQ-VTDPKHRQLAAAFRKLLTRLEELQ 376

Length = 428

>gnl|CDD|223522 COG0445, GidA, Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]

 Score =  186 bits (474), Expect = 9e-50
 Identities = 76/152 (50%), Positives = 92/152 (60%), Gaps = 26/152 (17%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDKI +F + + HQIFLEPEG  + E+Y NGLSTSL  + Q+++I+ I GL
Sbjct: 269 VGPRYCPSIEDKIVRFADKERHQIFLEPEGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGL 328

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA---- 168
             + I+R  Y IEYDY DPR L  TL  K       +GQINGTTGYEEAAAQG +A    
Sbjct: 329 ENAEILRPGYAIEYDYVDPRQLKPTLETKKIKGLFFAGQINGTTGYEEAAAQGLIAGINA 388

Query: 169 --------------------VLIDDLKNLTQG 180
                               VLIDDL  +T+G
Sbjct: 389 ALKVQGKEPFILRRDEAYIGVLIDDL--VTKG 418

Length = 621

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

 Score =  179 bits (457), Expect = 3e-49
 Identities = 103/338 (30%), Positives = 164/338 (48%), Gaps = 19/338 (5%)

Query: 164 QGFVAVL--IDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNR 221
            G  A+L  + +L  ++ G +   T +   I VG  LLGR+++  G  +D K +      
Sbjct: 48  TGDEALLSPLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLDGKGELPAGEI 107

Query: 222 ET--VEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTII 279
           ET  ++   P  M R+ +++PL TG+++ID ++  G+GQR  I      GK+T+ +  I 
Sbjct: 108 ETRPLDADPPPPMSRQPIDQPLPTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTL-LGMIA 166

Query: 280 NQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCT 339
              + +V  +   IG++   +   I           +V+V +T+   + E+  + YT   
Sbjct: 167 RGASADV-NVIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAAYTATA 225

Query: 340 IGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKI 399
           I EYFRD G+  L++ D LT+ A A R+I L    PP R  +P  VF    RLLER+   
Sbjct: 226 IAEYFRDQGKRVLLMMDSLTRFARALREIGLAAGEPPARGGYPPSVFSSLPRLLERAG-- 283

Query: 400 NKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRP 459
                      N   G++TA   +     D+   I   V SI DG I L   L   N+ P
Sbjct: 284 -----------NGEKGSITALYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAERNHYP 332

Query: 460 AINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELE 497
           AI+V  S+SRV         ++ +G +R +LA Y+E+E
Sbjct: 333 AIDVLASLSRVMSQVVSTEHRRAAGKLRRLLATYKEVE 370

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

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

 Score =  176 bits (448), Expect = 7e-48
 Identities = 111/316 (35%), Positives = 164/316 (51%), Gaps = 6/316 (1%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDN--KGE-INSKKKSPIHTL 652
            G   G+  ++ V+ TG P+    G+  LGR+LN LG+PID   KG   N  +  PI   
Sbjct: 75  LGELTGVSPSSEVIPTGLPLHIRAGNGLLGRVLNGLGEPIDTETKGPLENVDETYPIFRA 134

Query: 653 PPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG 712
           PP   ++     IL TG++ ID +    +G +IG+F GAGVGK+  +  + RN   E   
Sbjct: 135 PPDPLHRAKLRTILSTGVRCIDGMLTVARGQRIGIFAGAGVGKSSLLGMIARNA--EEAD 192

Query: 713 CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN 772
            +V   +GER RE  +F         + +  ++    ++ S  RL  A  G +IAE FR+
Sbjct: 193 VNVIALIGERGREVREFIEGDLGEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRD 252

Query: 773 SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITS 832
            GK V+L +D++ RF  A  EV    G  P+  GY P++   + KL ER  ++  GTIT+
Sbjct: 253 QGKTVVLMMDSVTRFARALREVGLAAGEPPARAGYTPSVFSTLPKLLERSGASDKGTITA 312

Query: 833 VQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEE 892
              + V  DD+ +P      + LD  IVLS  +A+   YPAID L S S+ L   IV EE
Sbjct: 313 FYTVLVAGDDMNEPVADEVKSILDGHIVLSNALAQAYHYPAIDVLASISRLLTA-IVPEE 371

Query: 893 HYKVANEVKFYLQKYK 908
             ++  + +  L KYK
Sbjct: 372 QRRIIGKAREVLAKYK 387

Length = 442

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

 Score =  176 bits (448), Expect = 8e-48
 Identities = 103/319 (32%), Positives = 168/319 (52%), Gaps = 10/319 (3%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPK 655
           FG   G+ R T V+  G+P+  PVG   LGR+++ LG+PID  G ++  +  P+   PP 
Sbjct: 77  FGELGGLSRGTRVIGLGRPLSVPVGPALLGRVIDGLGEPIDGGGPLDCDELVPVIAAPPD 136

Query: 656 FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSV 715
             ++      L TG++++D L    +G ++G+F  AGVGK+  M    R    +    +V
Sbjct: 137 PMSRRMVEAPLPTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGTQCD---VNV 193

Query: 716 FIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGK 775
              +GER RE  +F   +   + + +  ++    +  S  R + A    +IAE FR+ G 
Sbjct: 194 IALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGL 253

Query: 776 DVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQA 835
            VLL +D++ RF  A  E+    G  P+  G+ P++  E+ +L ER    + G+IT   A
Sbjct: 254 RVLLMMDSLTRFARAQREIGLAAGEPPARRGFPPSVFAELPRLLERAGMGETGSIT---A 310

Query: 836 IY-VPADDLT--DPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEE 892
           +Y V A+D +  DP        LD  ++LSR+IA    YPAID L S S+ + P +V  E
Sbjct: 311 LYTVLAEDESGSDPIAEEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVM-PQVVPRE 369

Query: 893 HYKVANEVKFYLQKYKELK 911
           H + A  ++  L K++E++
Sbjct: 370 HVQAAGRLRQLLAKHREVE 388

Length = 441

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

 Score =  171 bits (435), Expect = 4e-46
 Identities = 108/346 (31%), Positives = 171/346 (49%), Gaps = 14/346 (4%)

Query: 569 RIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRIL 628
           +I +  N      +   I +       F    G K    V  + + +  PVG   LGR++
Sbjct: 44  KIESSDNGKECLGMVVVIEKEQFGISPFSFIEGFKIGDKVFISKEGLNIPVGRNLLGRVV 103

Query: 629 NVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLF 688
           + LG PID KG I+ ++ +PI   P     +   + +   G+K ID L    KG K+G+F
Sbjct: 104 DPLGRPIDGKGAIDYERYAPIMKAPIAAMKRGLIDEVFSVGVKSIDGLLTCGKGQKLGIF 163

Query: 689 GGAGVGKTVNMMELIRNIAIEHKGCSVFIGV----GERSREGNDFYHEMKESNVLDKVSL 744
            G+GVGK+  +M +I       KGC   I V    GER RE  +F  +    + L+   +
Sbjct: 164 AGSGVGKS-TLMGMIV------KGCLAPIKVVALIGERGREIPEFIEKNLGGD-LENTVI 215

Query: 745 IYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSA 804
           +    ++    R   A   +S+AE F+N G DVL  +D++ RF +A  E+   LG  P++
Sbjct: 216 VVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIGLALGEPPTS 275

Query: 805 VGYQPTLAEEMGKLQERISSTKN-GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSR 863
            GY P++   + +L ER    +  G+IT+   + V  DD++DP    + + LD  IVLSR
Sbjct: 276 KGYPPSVLSLLPQLMERAGKEEGKGSITAFFTVLVEGDDMSDPIADQSRSILDGHIVLSR 335

Query: 864 QIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKE 909
           ++ + GIYP I+ L S S+ ++  I+  EH   A + K      KE
Sbjct: 336 ELTDFGIYPPINILNSASRVMND-IISPEHKLAARKFKRLYSLLKE 380

Length = 434

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

 Score =  168 bits (426), Expect = 6e-45
 Identities = 95/320 (29%), Positives = 156/320 (48%), Gaps = 13/320 (4%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPK 655
           F +++G++    V   G      VG    GRIL+ LG PID    +  + +      P  
Sbjct: 78  FASSDGLRCGQWVTPLGHMHQVQVGADLAGRILDGLGAPIDGGPPLTGQWRELDCPPPSP 137

Query: 656 FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCS- 714
            + Q     +L TGI+ ID +    +G +IG+F  AGVGK+     L+  +       + 
Sbjct: 138 LTRQPIEQ-MLTTGIRAIDGILSCGEGQRIGIFAAAGVGKST----LLGMLC---ADSAA 189

Query: 715 ---VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR 771
              V   +GER RE  +F  ++       +  ++    + P+  RL+   T  +IAE FR
Sbjct: 190 DVMVLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGLSTATTIAEYFR 249

Query: 772 NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTIT 831
           + GK VLL  D++ R+  A  E+    G  P+A  + P++   + +L ER  ++  G+IT
Sbjct: 250 DRGKKVLLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLLERTGNSDRGSIT 309

Query: 832 SVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGE 891
           +   + V  DD+ +P      + LD  IVLSR++A  G YPAID   S S+ + P IV  
Sbjct: 310 AFYTVLVEGDDMNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIM-PQIVSA 368

Query: 892 EHYKVANEVKFYLQKYKELK 911
               +A +++  L  Y+E++
Sbjct: 369 GQLAMAQKLRRMLACYQEIE 388

Length = 440

>gnl|CDD|216319 pfam01134, GIDA, Glucose inhibited division protein A

 Score =  166 bits (422), Expect = 8e-45
 Identities = 63/116 (54%), Positives = 76/116 (65%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDK  +F +   HQ+FLEPEG  + E YL G STSL  + QK++++ I GL
Sbjct: 264 IGPRYCPSIEDKPVRFADKPYHQVFLEPEGLDTDEYYLVGFSTSLPEDVQKRVLRTIPGL 323

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA 168
             + I+R  Y IEYDY DP  L  TL  K       +GQINGT GYEEAAAQG +A
Sbjct: 324 ENAEIVRPGYAIEYDYIDPPQLLPTLETKKIPGLFFAGQINGTEGYEEAAAQGLLA 379

Length = 391

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

 Score =  166 bits (423), Expect = 1e-44
 Identities = 101/308 (32%), Positives = 165/308 (53%), Gaps = 8/308 (2%)

Query: 607 IVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHT--LPPKFSNQIFNNN 664
           +V  TGKP+   VG   +G++L+ LG+P+D  G    K  +P+ T   PP    +     
Sbjct: 83  LVEATGKPLEVKVGSGLIGQVLDALGEPLD--GSALPKGLAPVSTDQDPPNPLKRPPIRE 140

Query: 665 ILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR 724
            +E G++ ID L    KG ++G+F G+GVGK+  M  + RN + +    +V   +GER R
Sbjct: 141 PMEVGVRAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIARNTSAD---LNVIALIGERGR 197

Query: 725 EGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNI 784
           E  +F         L +  ++    ++P+  R++ A T  +IAE FR+ G +V+L +D++
Sbjct: 198 EVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSV 257

Query: 785 YRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLT 844
            R  +A  E+   +G  P+  GY P++   + KL ER  +  +G+IT+   + V  DD+ 
Sbjct: 258 TRVAMAQREIGLAVGEPPTTKGYTPSVFAILPKLLERTGTNASGSITAFYTVLVDGDDMN 317

Query: 845 DPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYL 904
           +P   T    LD   VL RQ+A  G YPAI+ L+S S+ +  +IV  EH + AN  +  L
Sbjct: 318 EPIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVM-NHIVSPEHKEAANRFRELL 376

Query: 905 QKYKELKD 912
             Y+  +D
Sbjct: 377 STYQNSED 384

Length = 438

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

 Score =  166 bits (421), Expect = 3e-44
 Identities = 106/361 (29%), Positives = 162/361 (44%), Gaps = 31/361 (8%)

Query: 180 GQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNR-ETVEKIAPGIMDRESVN 238
           G K   T +   I VG  LLGR+++  G+ ID K KFL     E +       + R  + 
Sbjct: 85  GSKVLATGEGLSIKVGDGLLGRVLDGLGKPIDGKGKFLDNVETEGLITAPINPLKRAPIR 144

Query: 239 EPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKIS 298
           E L TG++SID ++ +GKGQR  I      GK+T+ +  I      +V  I + IG++  
Sbjct: 145 EILSTGVRSIDGLLTVGKGQRIGIFAGSGVGKSTL-LGMIARNTEADVNVIAL-IGERGR 202

Query: 299 SLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDL 358
            +   I        +  +VVV AT+  S   +    Y    I EYFRD G+D L++ D +
Sbjct: 203 EVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGAYVATAIAEYFRDQGKDVLLLMDSV 262

Query: 359 TKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLT 418
           T+ A A R+I L    PP  + +   VF    RLLER+    K             G++T
Sbjct: 263 TRFAMAQREIGLAAGEPPATKGYTPSVFSTLPRLLERAGASGK-------------GSIT 309

Query: 419 AFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG----GAA 474
           AF  +     D+   I  +V  I DG I L   L    + PAI+V  S+SR+        
Sbjct: 310 AFYTVLVEGDDMNEPIADSVRGILDGHIVLSRALAQRGHYPAIDVLASISRLMTAIVSEE 369

Query: 475 QYKIVKKLSGDIRIMLAQYRELESF-----SKFSSDLDIVTKTQLYNGEKISLLMKQKPH 529
             +  +K     R +L++Y++ E        +  SD ++      Y   K+   +KQ  +
Sbjct: 370 HRRAARK----FRELLSKYKDNEDLIRIGAYQRGSDRELDFAIAKY--PKLERFLKQGIN 423

Query: 530 E 530
           E
Sbjct: 424 E 424

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

 Score =  162 bits (413), Expect = 3e-44
 Identities = 104/311 (33%), Positives = 159/311 (51%), Gaps = 23/311 (7%)

Query: 191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDS 250
            +PVG  LLGR++++ GE +D K     + R  + +  P  + R  ++E L TG+++ID 
Sbjct: 3   SVPVGDALLGRVLDAFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLPTGVRAIDG 62

Query: 251 MIPIGKGQRELIIGDRQTGKTT----IAIDTIINQKNKNVICIYVCIGQKISSLINVINK 306
           ++ +GKGQR  I      GK+T    IA  T     + NVI +   IG++   +   I K
Sbjct: 63  LLTVGKGQRLGIFAGSGVGKSTLLGMIARGT---TADVNVIAL---IGERGREVREFIEK 116

Query: 307 LKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYR 366
                 +  +VVV AT+ +S   +  + YT   I EYFRD G+D L++ D LT+ A A R
Sbjct: 117 DLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRFAMAQR 176

Query: 367 QISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL 426
           +I L    PP  + +P  VF L  RLLER+              N + G++TAF  +   
Sbjct: 177 EIGLAAGEPPTTKGYPPSVFALLPRLLERAG-------------NSDKGSITAFYTVLVE 223

Query: 427 EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDI 486
             D+   I   V SI DG I L   L  + + PAI+V  S+SR+  A      K+ +  +
Sbjct: 224 GDDLNEPIADAVRSILDGHIVLSRALAAAGHYPAIDVLKSISRLMNAVVTPEHKEAARKL 283

Query: 487 RIMLAQYRELE 497
           R +L+ Y+E+E
Sbjct: 284 RELLSAYQEVE 294

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|129242 TIGR00136, gidA, glucose-inhibited division protein A

 Score =  168 bits (427), Expect = 9e-44
 Identities = 73/150 (48%), Positives = 88/150 (58%), Gaps = 24/150 (16%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDK+ +F + + HQIFLEPEG  S E+Y NGLSTSL  + Q ++++ I GL
Sbjct: 267 NGPRYCPSIEDKVVRFADKERHQIFLEPEGLNSDEIYPNGLSTSLPEDVQLQIVRSIPGL 326

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA---- 168
             + I+R  Y IEYD+FDPR L  TL  K       +GQINGTTGYEEAAAQG +A    
Sbjct: 327 ENAEILRPGYAIEYDFFDPRQLKPTLETKLIQGLFFAGQINGTTGYEEAAAQGLMAGINA 386

Query: 169 --------------------VLIDDLKNLT 178
                               VLIDDL    
Sbjct: 387 ALKLQNKEPFILKRSEAYIGVLIDDLVTKG 416

GidA, the longer of two forms of GidA-related proteins, appears to be present in all complete eubacterial genomes so far, as well as Saccharomyces cerevisiae. A subset of these organisms have a closely related protein. GidA is absent in the Archaea. It appears to act with MnmE, in an alpha2/beta2 heterotetramer, in the 5-carboxymethylaminomethyl modification of uridine 34 in certain tRNAs. The shorter, related protein, previously called gid or gidA(S), is now called TrmFO (see model TIGR00137) [Protein synthesis, tRNA and rRNA base modification]. Length = 617

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

 Score =  164 bits (417), Expect = 1e-43
 Identities = 97/262 (37%), Positives = 137/262 (52%), Gaps = 9/262 (3%)

Query: 625 GRILNVLGDPIDNKGEINSKKKS-PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGG 683
           GR++N LG+PID  G +    +   I    P    +      L TG++VID+  P   G 
Sbjct: 107 GRVINALGEPIDGLGPLAPGTRPMSIDATAPPAMTRARVETGLRTGVRVIDIFTPLCAGQ 166

Query: 684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDFYHEMKESNVLDKV 742
           +IG+F G+GVGK+  +  L R  A +    +V I  VGER RE  +F  +    N L K 
Sbjct: 167 RIGIFAGSGVGKSTLLAMLARADAFD----TVVIALVGERGREVREFLEDTLADN-LKKA 221

Query: 743 SLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTP 802
             +    +E    R    LT  +IAE FR+ G++VLL +D++ RF  A  EV+   G  P
Sbjct: 222 VAVVATSDESPMMRRLAPLTATAIAEYFRDRGENVLLIVDSVTRFAHAAREVALAAGEPP 281

Query: 803 SAVGYQPTLAEEMGKLQERI--SSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIV 860
            A GY P++  E+ +L ER    +   G+IT + ++ V  DD  DP   +    LD  IV
Sbjct: 282 VARGYPPSVFSELPRLLERAGPGAEGGGSITGIFSVLVDGDDHNDPVADSIRGTLDGHIV 341

Query: 861 LSRQIAELGIYPAIDPLESYSK 882
           L R IAE G YPA+DPL S S+
Sbjct: 342 LDRAIAEQGRYPAVDPLASISR 363

Length = 450

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

 Score =  162 bits (412), Expect = 5e-43
 Identities = 100/300 (33%), Positives = 149/300 (49%), Gaps = 24/300 (8%)

Query: 595 AFGNTNGIKRNT-IVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI-NSKKKSPIHTL 652
            FG   G++R    V+      + P     LGR++N LG+PID KG +       P+   
Sbjct: 70  PFGPLEGVRRGCRAVIANAAAAVRP-SRAWLGRVVNALGEPIDGKGPLPQGPVPYPLRAP 128

Query: 653 PPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG 712
           PP   ++      L+ G++ ++      +G ++G+F G+GVGK+V +  L RN       
Sbjct: 129 PPPAHSRARVGEPLDLGVRALNTFLTCCRGQRMGIFAGSGVGKSVLLSMLARNAD----- 183

Query: 713 CSV-FIG-VGERSREGNDFYHE------MKESNVLDKVSLIYGQMNEPSGNRLRVALTGL 764
             V  IG +GER RE  +F  +      +  S V+   S      +EP+  R + A   L
Sbjct: 184 ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATS------DEPALMRRQAAYLTL 237

Query: 765 SIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERI-- 822
           +IAE FR+ GKDVL  +D++ RF +A  E+    G  P+  GY PT+  E+ +L ER   
Sbjct: 238 AIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGEPPTTKGYTPTVFAELPRLLERAGP 297

Query: 823 SSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK 882
                GTIT +  + V  DD  +P        LD  IV+ R IAE G YPAI+ L+S S+
Sbjct: 298 GPIGEGTITGLFTVLVDGDDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKSVSR 357

Length = 442

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

 Score =  159 bits (405), Expect = 2e-42
 Identities = 116/371 (31%), Positives = 176/371 (47%), Gaps = 30/371 (8%)

Query: 180 GQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNE 239
           G     T +   I VG  LLGR+++  G  +D +   + +    ++   P  + R  + +
Sbjct: 60  GSLVIATGRPLAIKVGKGLLGRVLDGLGRPLDGEGPIIGEEPYPLDNPPPNPLKRPRIRD 119

Query: 240 PLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTT----IAIDTIINQKNKNVICIYVCIGQ 295
           PL TGIK+ID ++ IGKGQR  I      GK+T    IA +    + + NVI +   IG+
Sbjct: 120 PLETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTLLGMIARNA---KADINVIAL---IGE 173

Query: 296 KISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIY 355
           +   + + I K      +  +VVV AT+   A  +  + +T   I EYFRD G+D L++ 
Sbjct: 174 RGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAAFTATAIAEYFRDQGKDVLLMM 233

Query: 356 DDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNG 415
           D +T+ A A R+I L +  PP    +   VF L  +LLERS              N   G
Sbjct: 234 DSVTRFAMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSG-------------NSQKG 280

Query: 416 TLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ 475
           ++T F  +     D+   I   V  I DG I L   L   N+ PAI+V  SVSRV     
Sbjct: 281 SITGFYTVLVDGDDMNEPIADAVRGILDGHIVLSRELAAKNHYPAIDVLASVSRVMNEIV 340

Query: 476 YKIVKKLSGDIRIMLAQYRELESF-----SKFSSDLDIVTKTQLYNGEKISLLMKQKPHE 530
            +  K+L+G +R +LA Y+E E        K  S+  I    +    EKI+  +KQ   E
Sbjct: 341 SEEHKELAGKLRELLAVYKEAEDLINIGAYKRGSNPKIDEAIRYI--EKINSFLKQGIDE 398

Query: 531 NYSIVELIIIL 541
            ++  E + +L
Sbjct: 399 KFTFEETVQLL 409

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

 Score =  160 bits (407), Expect = 3e-42
 Identities = 101/315 (32%), Positives = 160/315 (50%), Gaps = 42/315 (13%)

Query: 618 PVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLP--PKFSNQIFNNNILETGIKVIDL 675
           PVG   LGR+++ +G+P+D  G I + +++  H+ P  P     I     L+ G++ I+ 
Sbjct: 98  PVGMSLLGRVIDGVGNPLDGLGPIYTDQRASRHSPPINPLSRRPI--TEPLDVGVRAINA 155

Query: 676 LCPFLKGGKIGLFGGAGVGKTV--NMMELIRNIAIEHKGCS---VFIG-VGERSREGNDF 729
           +    KG ++GLF G+GVGK+V   MM          +G +   + +G VGER RE  +F
Sbjct: 156 MLTVGKGQRMGLFAGSGVGKSVLLGMMT---------RGTTADVIVVGLVGERGREVKEF 206

Query: 730 YHEM------KESNVL----DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLL 779
             E+        S V+    D   L+          RL+   T  +IAE FR+ G +VLL
Sbjct: 207 IEEILGEEGRARSVVVAAPADTSPLM----------RLKGCETATTIAEYFRDQGLNVLL 256

Query: 780 FIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERI--SSTKNGTITSVQAIY 837
            +D++ R+  A  E++  +G  P+  GY P++  ++  L ER        G+IT+   + 
Sbjct: 257 LMDSLTRYAQAQREIALAVGEPPATKGYPPSVFAKLPALVERAGNGGPGQGSITAFYTVL 316

Query: 838 VPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVA 897
              DDL DP    +   LD  IVLSR++A+ G YPAID   S S+ + P ++ EEH +  
Sbjct: 317 TEGDDLQDPIADASRAILDGHIVLSRELADSGHYPAIDIEASISRVM-PMVISEEHLEAM 375

Query: 898 NEVKFYLQKYKELKD 912
             VK     Y++ +D
Sbjct: 376 RRVKQVYSLYQQNRD 390

Length = 444

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

 Score =  159 bits (404), Expect = 6e-42
 Identities = 102/313 (32%), Positives = 161/313 (51%), Gaps = 21/313 (6%)

Query: 608 VVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNI-- 665
           + DTG+    P+G   LGR+L+  G  +D KG + ++   P   +     N +  + I  
Sbjct: 97  LADTGR---LPMGMSMLGRVLDGAGRALDGKGPMKAEDWVP---MDGPTINPLNRHPISE 150

Query: 666 -LETGIKVIDLLCPFLKGGKIGLFGGAGVGKTV--NMMELIRNIAIEHKGCSVFIG-VGE 721
            L+ GI+ I+ L    +G ++GLF G GVGK+V   MM       I      + +G +GE
Sbjct: 151 PLDVGIRSINGLLTVGRGQRLGLFAGTGVGKSVLLGMMTRFTEADI------IVVGLIGE 204

Query: 722 RSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFI 781
           R RE  +F   +     L +  ++    ++    RLR A+    IAE FR+ GK+VLL +
Sbjct: 205 RGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAMYCTRIAEYFRDKGKNVLLLM 264

Query: 782 DNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTK--NGTITSVQAIYVP 839
           D++ RF  A  E++  +G  P+  GY P++  ++ KL ER  + +   G+IT+   +   
Sbjct: 265 DSLTRFAQAQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNAEPGGGSITAFYTVLSE 324

Query: 840 ADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANE 899
            DD  DP   +    LD  IVLSR++AE G YPAID   S S+ + P +V  EH + A  
Sbjct: 325 GDDQQDPIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVM-PQVVDPEHLRRAQR 383

Query: 900 VKFYLQKYKELKD 912
            K    +Y++ +D
Sbjct: 384 FKQLWSRYQQSRD 396

Length = 451

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

 Score =  157 bits (399), Expect = 2e-41
 Identities = 92/298 (30%), Positives = 156/298 (52%), Gaps = 11/298 (3%)

Query: 619 VGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS--NQIFNNNILETGIKVIDLL 676
           +GD  LGR++N LG+P+D KG++     +P+    P+     +   +  L+ G+  I+ L
Sbjct: 92  IGDSWLGRVINGLGEPLDGKGQLGGS--TPLQQQLPQIHPLQRRAVDTPLDVGVNAINGL 149

Query: 677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDFYHEMKE 735
               KG ++GL  G+GVGK+V +  + R    +     V +G +GER RE  +F     +
Sbjct: 150 LTIGKGQRVGLMAGSGVGKSVLLGMITRYTQAD----VVVVGLIGERGREVKEFIEHSLQ 205

Query: 736 SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVS 795
           +  + K  ++    +E    R++      +IA  +R+ G DVLL +D++ R+ +A  E++
Sbjct: 206 AAGMAKSVVVAAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIA 265

Query: 796 AMLGRTPSAVGYQPTLAEEMGKLQERI-SSTKNGTITSVQAIYVPADDLTDPSPSTTFTH 854
             LG  P+  GY P+    + +L E   +S+ NGT+T++  +    DD  DP        
Sbjct: 266 LSLGEPPATKGYPPSAFSIIPRLAESAGNSSGNGTMTAIYTVLAEGDDQQDPIVDCARAV 325

Query: 855 LDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           LD  IVLSR++AE G YPAID  +S S+ +   ++G +  K A+ +K     Y  +K 
Sbjct: 326 LDGHIVLSRKLAEAGHYPAIDISQSISRCMSQ-VIGSQQAKAASLLKQCYADYMAIKP 382

Length = 434

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

 Score =  156 bits (395), Expect = 5e-41
 Identities = 103/317 (32%), Positives = 159/317 (50%), Gaps = 7/317 (2%)

Query: 594 IAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLP 653
           + F  T  +     V    + ++ P G+  LG++L+  G+ ++ + E    +K  +   P
Sbjct: 68  LPFEQTEKVCYGDSVTLIAEDVVIPRGNHLLGKVLSANGEVLNEEAENIPLQKIKLDAPP 127

Query: 654 PKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC 713
                +    ++ ETGIK ID +     G KIG+F G+GVGK+  +  + +N   +    
Sbjct: 128 IHAFEREEITDVFETGIKSIDSMLTIGIGQKIGIFAGSGVGKSTLLGMIAKNAKAD---I 184

Query: 714 SVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS 773
           +V   VGER RE  DF  +      + K  ++    +E    +LR A    SIAE FR+ 
Sbjct: 185 NVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAKLATSIAEYFRDQ 244

Query: 774 GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE-MGKLQERISSTKNGTITS 832
           G +VLL +D++ RF  A   V   +   P  +G +  L E  M KL ER   T+ G+IT 
Sbjct: 245 GNNVLLMMDSVTRFADARRSVDIAVKELP--IGGKTLLMESYMKKLLERSGKTQKGSITG 302

Query: 833 VQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEE 892
           +  + V  DDL  P P      LD  IVL R++A L  YPAI  L+S S+ ++  IV   
Sbjct: 303 IYTVLVDGDDLNGPVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIMEE-IVSPN 361

Query: 893 HYKVANEVKFYLQKYKE 909
           H+++ANE++  L  YKE
Sbjct: 362 HWQLANEMRKILSIYKE 378

Length = 432

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

 Score =  151 bits (384), Expect = 2e-39
 Identities = 100/350 (28%), Positives = 163/350 (46%), Gaps = 22/350 (6%)

Query: 186 TEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGI 245
           T  + ++ VG  LLGR+++  G+  D            V   AP  M R  +  PL  G+
Sbjct: 91  TGTMHQVGVGEHLLGRVLDGLGQPFDGGHPPEPAAWYPVYADAPAPMSRRLIETPLSLGV 150

Query: 246 KSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNV-ICIYVCIGQKISSLINVI 304
           + ID ++  G+GQR  I      GK+T+ + ++I  ++  V + +   IG++   +   I
Sbjct: 151 RVIDGLLTCGEGQRMGIFAAAGGGKSTL-LASLI--RSAEVDVTVLALIGERGREVREFI 207

Query: 305 NKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA 364
                   +   V+V AT+   + E+  + +   +I EYFRD G+  L++ D +T+ A A
Sbjct: 208 ESDLGEEGLRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMDSVTRFARA 267

Query: 365 YRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIE 424
            R+I L    PP R  +P  VF    RL+ER+ + +K             G++TA   + 
Sbjct: 268 QREIGLAAGEPPTRRGYPPSVFAALPRLMERAGQSDK-------------GSITALYTV- 313

Query: 425 TLEG-DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLS 483
            +EG D+T  +     SI DG I L   L  +N+ PAI+V  S SRV      K  K  +
Sbjct: 314 LVEGDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMNQIVSKEHKTWA 373

Query: 484 GDIRIMLAQYRELESFSK---FSSDLDIVTKTQLYNGEKISLLMKQKPHE 530
           G +R +LA+Y E+E   +   +    D      +     I   ++Q  HE
Sbjct: 374 GRLRELLAKYEEVELLLQIGEYQKGQDKEADQAIERIGAIRGFLRQGTHE 423

Length = 439

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

 Score =  151 bits (382), Expect = 3e-39
 Identities = 91/318 (28%), Positives = 157/318 (49%), Gaps = 9/318 (2%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPK 655
           F +T G+     V+   +    PVG+  LGR+++  G P+D +   +   K      PP 
Sbjct: 70  FTSTIGLHCGQQVMALRRRHQVPVGEALLGRVIDGFGRPLDGRELPDVCWKDYDAMPPPA 129

Query: 656 FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-- 713
              Q     ++ TGI+ ID +    +G ++G+F   GVGK+  ++ ++ N          
Sbjct: 130 MVRQPITQPLM-TGIRAIDSVATCGEGQRVGIFSAPGVGKS-TLLAMLCNAP----DADS 183

Query: 714 SVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS 773
           +V + +GER RE  +F           +  ++    + P+  R+R      +IAE FR++
Sbjct: 184 NVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALFVATTIAEFFRDN 243

Query: 774 GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSV 833
           GK V+L  D++ R+  A  E++   G T  +  Y P +   + +L ER    + G+IT+ 
Sbjct: 244 GKRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTGMGEKGSITAF 303

Query: 834 QAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEH 893
             + V  DD+ +P      + LD  IVLSR++AE G YPAID L + S+   P +   EH
Sbjct: 304 YTVLVEGDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVF-PVVTSHEH 362

Query: 894 YKVANEVKFYLQKYKELK 911
            ++A  ++  L  Y+E++
Sbjct: 363 RQLAAILRRCLALYQEVE 380

Length = 433

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

 Score =  150 bits (381), Expect = 4e-39
 Identities = 98/324 (30%), Positives = 151/324 (46%), Gaps = 24/324 (7%)

Query: 180 GQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLI-KNRETVEKIAPGIMDRESVN 238
           G   F  E    +      LGR++N+ GE ID K      + R  +    P  M R  V 
Sbjct: 62  GCAVFAREGPLAVRPHPSWLGRVINALGEPIDGKGPLPQGERRYPLRASPPPAMSRARVG 121

Query: 239 EPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKIS 298
           EPL TG++ ID+ +P+ +GQR  I      GK+T+ +  +    + +V+ I + +G++  
Sbjct: 122 EPLDTGVRVIDTFLPLCRGQRLGIFAGSGVGKSTL-LSMLARNTDADVVVIAL-VGERGR 179

Query: 299 SLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDL 358
            +   +        +  +VVV AT+ +S   +  + YT   I EYFRD G+D L++ D +
Sbjct: 180 EVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYTATAIAEYFRDQGKDVLLLMDSV 239

Query: 359 TKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLT 418
           T+ A A R+I L    PP    +   VF    RLLER+               +  G++T
Sbjct: 240 TRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGP-----------GAEGKGSIT 288

Query: 419 AFPIIETLEGD-VTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR----VGGA 473
               +  ++GD     +   V  I DG I LD  +      PAINV  SVSR    V   
Sbjct: 289 GIFTV-LVDGDDHNEPVADAVRGILDGHIVLDRAIAERGRYPAINVLASVSRLAPRVWSP 347

Query: 474 AQYKIVKKLSGDIRIMLAQYRELE 497
            + K+V++L    R +LA+Y E E
Sbjct: 348 EERKLVRRL----RALLARYEETE 367

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|213817 TIGR03496, FliI_clade1, flagellar protein export ATPase FliI

 Score =  149 bits (378), Expect = 1e-38
 Identities = 104/386 (26%), Positives = 175/386 (45%), Gaps = 50/386 (12%)

Query: 171 IDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPG 230
           ++D++ L  G + F  E    +PVG  LLGR+++  G  +D K       R  +      
Sbjct: 51  LEDVEGLRPGARVFPLEGPLRLPVGDSLLGRVIDGLGRPLDGKGPLDAGERVPLYAPPIN 110

Query: 231 IMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTT----IAIDTIINQKNKNV 286
            + R  ++EPL  G+++I+ ++ +G+GQR  I      GK+T    +A  T   + +  V
Sbjct: 111 PLKRAPIDEPLDVGVRAINGLLTVGRGQRMGIFAGSGVGKSTLLGMMARYT---EADVVV 167

Query: 287 ICIYVCIGQK---ISSLINVI---NKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTI 340
           + +   IG++   +   I  I     L        +VVVAATA +S   +  + +    I
Sbjct: 168 VGL---IGERGREVKEFIEDILGEEGLAR------SVVVAATADESPLMRLRAAFYATAI 218

Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
            EYFRD G+D L++ D LT+ A A R+I+L +  PP  + +P  VF    +L+ER+    
Sbjct: 219 AEYFRDQGKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFAKLPQLVERAGN-- 276

Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF-IPTNVISITDGQIFLDTNLFNSNYRP 459
                      +  G++TAF  +   EGD     I     +I DG I L   L    + P
Sbjct: 277 ---------GEEGKGSITAFYTVLV-EGDDQQDPIADAARAILDGHIVLSRELAEQGHYP 326

Query: 460 AINVGLSVSRVGGAA----QYKIVKKLSGDIRIMLAQYRELESF-----SKFSSDLDIVT 510
           AI++  S+SRV          +  ++     + +L++Y+E          +  SD ++  
Sbjct: 327 AIDILASISRVMPDVVSPEHRQAARRF----KQLLSRYQENRDLISIGAYQAGSDPELDQ 382

Query: 511 KTQLYNGEKISLLMKQKPHENYSIVE 536
              LY   +I   ++Q   E  S  E
Sbjct: 383 AIALY--PRIEAFLQQGMRERASFEE 406

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|180712 PRK06820, PRK06820, type III secretion system ATPase; Validated

 Score =  145 bits (367), Expect = 3e-37
 Identities = 96/308 (31%), Positives = 154/308 (50%), Gaps = 18/308 (5%)

Query: 191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDS 250
           ++ VG +L GRI++  G  ID       + RE ++   P  + R+ + + L TGI++ID 
Sbjct: 98  QVQVGADLAGRILDGLGAPIDGGPPLTGQWRE-LDCPPPSPLTRQPIEQMLTTGIRAIDG 156

Query: 251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYY 310
           ++  G+GQR  I      GK+T+ +  +      +V+ +   IG++   +   + ++   
Sbjct: 157 ILSCGEGQRIGIFAAAGVGKSTL-LGMLCADSAADVM-VLALIGERGREVREFLEQVLTP 214

Query: 311 NCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISL 370
                TVVV AT+   A E+     T  TI EYFRD G+  L++ D LT++A A R+I L
Sbjct: 215 EARARTVVVVATSDRPALERLKGLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREIGL 274

Query: 371 LLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGD- 429
               PP   +FP  VF    RLLER+              N + G++TAF  +  +EGD 
Sbjct: 275 AAGEPPAAGSFPPSVFANLPRLLERTG-------------NSDRGSITAFYTV-LVEGDD 320

Query: 430 VTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIM 489
           +   +   V S+ DG I L   L  + + PAI++  SVSR+           ++  +R M
Sbjct: 321 MNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIMPQIVSAGQLAMAQKLRRM 380

Query: 490 LAQYRELE 497
           LA Y+E+E
Sbjct: 381 LACYQEIE 388

Length = 440

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

 Score =  142 bits (359), Expect = 4e-36
 Identities = 102/312 (32%), Positives = 147/312 (47%), Gaps = 27/312 (8%)

Query: 192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSM 251
           +PVG  LLGR+++  GE ID            V    P  M R  V  PL TG++ +D +
Sbjct: 98  VPVGPALLGRVIDGLGEPIDGGGPLDCDELVPVIAAPPDPMSRRMVEAPLPTGVRIVDGL 157

Query: 252 IPIGKGQRELIIGDRQTGKTTI----AIDTIINQKNKNVICIYVCIGQKISSLINVINKL 307
           + +G+GQR  I      GK+T+    A  T   Q + NVI     IG++   +   I  +
Sbjct: 158 MTLGEGQRMGIFAPAGVGKSTLMGMFARGT---QCDVNVI---ALIGERGREVREFIELI 211

Query: 308 KYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQ 367
              + M  +VVV AT+  S+ E+  + Y    I EYFRD G   L++ D LT+ A A R+
Sbjct: 212 LGEDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQRE 271

Query: 368 ISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLE 427
           I L    PP R  FP  VF    RLLER+                  G++TA   +  L 
Sbjct: 272 IGLAAGEPPARRGFPPSVFAELPRLLERAGM-------------GETGSITALYTV--LA 316

Query: 428 GDVTSFIPT--NVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGD 485
            D +   P    V  I DG + L   +   N  PAI+V  S+SRV      +   + +G 
Sbjct: 317 EDESGSDPIAEEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVMPQVVPREHVQAAGR 376

Query: 486 IRIMLAQYRELE 497
           +R +LA++RE+E
Sbjct: 377 LRQLLAKHREVE 388

Length = 441

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

 Score =  139 bits (351), Expect = 4e-35
 Identities = 110/368 (29%), Positives = 169/368 (45%), Gaps = 34/368 (9%)

Query: 186 TEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETV--EKIAPGIMDRESVNEPLLT 243
           T K  E+ VG  L+G+++++ GE +D     L K    V  ++  P  + R  + EP+  
Sbjct: 87  TGKPLEVKVGSGLIGQVLDALGEPLDGSA--LPKGLAPVSTDQDPPNPLKRPPIREPMEV 144

Query: 244 GIKSIDSMIPIGKGQRELIIGDRQTGKTT----IAIDTIINQKNKNVICIYVCIGQKISS 299
           G+++IDS++ +GKGQR  I      GK+T    IA +T     + NVI +   IG++   
Sbjct: 145 GVRAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIARNT---SADLNVIAL---IGERGRE 198

Query: 300 LINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLT 359
           +   I +      +  ++VV AT+   A  +    YT   I EYFRD G + +++ D +T
Sbjct: 199 VREFIERDLGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVT 258

Query: 360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
           + A A R+I L +  PP  + +   VF +  +LLER+                 +G++TA
Sbjct: 259 RVAMAQREIGLAVGEPPTTKGYTPSVFAILPKLLERTG-------------TNASGSITA 305

Query: 420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIV 479
           F  +     D+   I   V  I DG   LD  L N    PAINV  SVSRV         
Sbjct: 306 FYTVLVDGDDMNEPIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVMNHIVSPEH 365

Query: 480 KKLSGDIRIMLAQYRELESF-----SKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSI 534
           K+ +   R +L+ Y+  E        K  S  +I    Q Y   +I   +KQ   E  + 
Sbjct: 366 KEAANRFRELLSTYQNSEDLINIGAYKRGSSREIDEAIQFY--PQIISFLKQGTDEKATF 423

Query: 535 VELIIILL 542
            E I  LL
Sbjct: 424 EESIQALL 431

Length = 438

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

 Score =  136 bits (345), Expect = 2e-34
 Identities = 102/353 (28%), Positives = 165/353 (46%), Gaps = 24/353 (6%)

Query: 192 IPVGFELLGRIVNSKGEFID-NKKKFLIKNRET--VEKIAPGIMDRESVNEPLLTGIKSI 248
           I  G  LLGR++N  GE ID   K  L    ET  + +  P  + R  +   L TG++ I
Sbjct: 96  IRAGNGLLGRVLNGLGEPIDTETKGPLENVDETYPIFRAPPDPLHRAKLRTILSTGVRCI 155

Query: 249 DSMIPIGKGQRELIIGDRQTGKTTI--AIDTIINQKNKNVICIYVCIGQKISSLINVINK 306
           D M+ + +GQR  I      GK+++   I     + + NVI +   IG++   +   I  
Sbjct: 156 DGMLTVARGQRIGIFAGAGVGKSSLLGMIARNAEEADVNVIAL---IGERGREVREFIEG 212

Query: 307 LKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYR 366
                 M  +V+V +T+  S+  +  + Y G  I EYFRD G+  +++ D +T+ A A R
Sbjct: 213 DLGEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQGKTVVLMMDSVTRFARALR 272

Query: 367 QISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL 426
           ++ L    PP R  +   VF    +LLERS   +K             GT+TAF  +   
Sbjct: 273 EVGLAAGEPPARAGYTPSVFSTLPKLLERSGASDK-------------GTITAFYTVLVA 319

Query: 427 EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDI 486
             D+   +   V SI DG I L   L  + + PAI+V  S+SR+  A   +  +++ G  
Sbjct: 320 GDDMNEPVADEVKSILDGHIVLSNALAQAYHYPAIDVLASISRLLTAIVPEEQRRIIGKA 379

Query: 487 RIMLAQYRELESFSK---FSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVE 536
           R +LA+Y+  E   +   +    D      + + +K++  +KQ  HE  +  E
Sbjct: 380 REVLAKYKANEMLIRIGEYRRGSDREVDFAIDHIDKLNRFLKQDIHEKTNYEE 432

Length = 442

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

 Score =  137 bits (346), Expect = 2e-34
 Identities = 92/305 (30%), Positives = 157/305 (51%), Gaps = 22/305 (7%)

Query: 618 PVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFN-------NNILETGI 670
           P+G   LGR+L+  G P+D     ++ +   + T P       FN        ++L+TG+
Sbjct: 111 PLGPALLGRVLDGSGKPLDGLPAPDTGETGALITPP-------FNPLQRTPIEHVLDTGV 163

Query: 671 KVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDF 729
           + I+ L    +G ++GLF G+GVGK+V    L+  +A   +   + +G +GER RE  DF
Sbjct: 164 RAINALLTVGRGQRMGLFAGSGVGKSV----LLGMMARYTQADVIVVGLIGERGREVKDF 219

Query: 730 YHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL 789
              +  +    +  +I    +     R++ A     IAE+FR+ G+ VLL +D++ R+ +
Sbjct: 220 IENILGAEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAM 279

Query: 790 AGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISS--TKNGTITSVQAIYVPADDLTDPS 847
           A  E++  +G  P+  GY P++  ++  L ER  +  +  G+IT+   +    DD  DP 
Sbjct: 280 AQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGISGGGSITAFYTVLTEGDDQQDPI 339

Query: 848 PSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKY 907
             +    LD  IVLSR++AE G YPAID   S S+ +   ++ E+HY    + K  L  +
Sbjct: 340 ADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMTA-LIDEQHYARVRQFKQLLSSF 398

Query: 908 KELKD 912
           +  +D
Sbjct: 399 QRNRD 403

Length = 455

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

 Score =  135 bits (341), Expect = 7e-34
 Identities = 90/320 (28%), Positives = 153/320 (47%), Gaps = 23/320 (7%)

Query: 186 TEKIFEIPVGFELLGRIVNSKGEFIDN-----KKKFLIKNRETVEKIAPGIMDRESVNEP 240
           T K   + VG  LLG +++  G+ ++          + + R  ++   P   +R  + EP
Sbjct: 76  TGKPLSVWVGEALLGAVLDPTGKIVERFDAPPTVGPISEERV-IDVAPPSYAERRPIREP 134

Query: 241 LLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSL 300
           L+TG+++ID ++  G GQR  I      GKT++ ++ +I     +V  I + IG++   +
Sbjct: 135 LITGVRAIDGLLTCGVGQRMGIFASAGCGKTSL-MNMLIEHSEADVFVIGL-IGERGREV 192

Query: 301 INVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTK 360
              +  L+  +  +  V+V AT+  S+ ++  +     T+ EYFRD G+  ++  D +T+
Sbjct: 193 TEFVESLRASSRREKCVLVYATSDFSSVDRCNAALVATTVAEYFRDQGKRVVLFIDSMTR 252

Query: 361 HAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAF 420
           +A A R ++L     P R  +P  VF    RLLER                   G++TAF
Sbjct: 253 YARALRDVALAAGELPARRGYPASVFDSLPRLLERPG-------------ATLAGSITAF 299

Query: 421 PIIETLEGDVTS-FIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIV 479
             +  LE +     I   + SI DG I+L   L    + PAI+V  SVSRV G       
Sbjct: 300 YTV-LLESEEEPDPIGDEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSRVFGQVTDPKH 358

Query: 480 KKLSGDIRIMLAQYRELESF 499
           ++L+   R +L +  EL+ F
Sbjct: 359 RQLAAAFRKLLTRLEELQLF 378

Length = 428

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

 Score =  132 bits (335), Expect = 5e-33
 Identities = 93/294 (31%), Positives = 139/294 (47%), Gaps = 17/294 (5%)

Query: 180 GQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNE 239
           G K F +++   IPVG  LLGR+V+  G  ID K     +    + K     M R  ++E
Sbjct: 80  GDKVFISKEGLNIPVGRNLLGRVVDPLGRPIDGKGAIDYERYAPIMKAPIAAMKRGLIDE 139

Query: 240 PLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISS 299
               G+KSID ++  GKGQ+  I      GK+T+    +I +     I +   IG++   
Sbjct: 140 VFSVGVKSIDGLLTCGKGQKLGIFAGSGVGKSTLM--GMIVKGCLAPIKVVALIGERGRE 197

Query: 300 LINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLT 359
           +   I K      ++ TV+V AT+ DS   +    +   ++ EYF++ G D L I D +T
Sbjct: 198 IPEFIEK-NLGGDLENTVIVVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVT 256

Query: 360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
           + A A R+I L L  PP  + +P  V  L  +L+ER+ K             +  G++TA
Sbjct: 257 RFAMAQREIGLALGEPPTSKGYPPSVLSLLPQLMERAGK------------EEGKGSITA 304

Query: 420 FPIIETLEGDVTSF-IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGG 472
           F  +  +EGD  S  I     SI DG I L   L +    P IN+  S SRV  
Sbjct: 305 FFTV-LVEGDDMSDPIADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMN 357

Length = 434

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

 Score =  125 bits (316), Expect = 1e-30
 Identities = 92/321 (28%), Positives = 158/321 (49%), Gaps = 16/321 (4%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRES 236
           L  GQ+     +  ++PVG  LLGR+++  G  +D ++   +  ++  + + P  M R+ 
Sbjct: 76  LHCGQQVMALRRRHQVPVGEALLGRVIDGFGRPLDGRELPDVCWKD-YDAMPPPAMVRQP 134

Query: 237 VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQK 296
           + +PL+TGI++IDS+   G+GQR  I      GK+T+ +  + N  + +   + V IG++
Sbjct: 135 ITQPLMTGIRAIDSVATCGEGQRVGIFSAPGVGKSTL-LAMLCNAPDADS-NVLVLIGER 192

Query: 297 ISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYD 356
              +   I+           V+V AT+   A E+  + +   TI E+FRD G+  +++ D
Sbjct: 193 GREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALFVATTIAEFFRDNGKRVVLLAD 252

Query: 357 DLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGT 416
            LT++A A R+I+L          +P  VF    RLLER+    K             G+
Sbjct: 253 SLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTGMGEK-------------GS 299

Query: 417 LTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQY 476
           +TAF  +     D+   +   V S+ DG I L   L    + PAI+V  ++SRV      
Sbjct: 300 ITAFYTVLVEGDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVFPVVTS 359

Query: 477 KIVKKLSGDIRIMLAQYRELE 497
              ++L+  +R  LA Y+E+E
Sbjct: 360 HEHRQLAAILRRCLALYQEVE 380

Length = 433

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

 Score =  118 bits (298), Expect = 2e-29
 Identities = 80/272 (29%), Positives = 130/272 (47%), Gaps = 6/272 (2%)

Query: 617 TPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLL 676
            PV +  LGRI N  G PID   EI +++   I+  P     +I+   +++TGI  ID +
Sbjct: 4   VPVSEDMLGRIFNGSGKPIDGGPEILAEEYLDINGPPINPVARIYPEEMIQTGISAIDGM 63

Query: 677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI---EHKGCSVFIGVGERSREGNDFYHEM 733
              ++G KI +F G+G+       ++ R   +   E     VF  +G    +   F  + 
Sbjct: 64  NTLVRGQKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDF 123

Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGT 792
           +E+  L++V L     N+P+  R+      L+ AE      GK VL+ + ++  +  A  
Sbjct: 124 EETGALERVVLFLNLANDPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNYAEALR 183

Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQER--ISSTKNGTITSVQAIYVPADDLTDPSPST 850
           E+SA     P   GY   +  ++  + ER      +NG+IT +  + +P DD+T P P  
Sbjct: 184 EISAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPIPDL 243

Query: 851 TFTHLDSTIVLSRQIAELGIYPAIDPLESYSK 882
           T    +  IVL RQ+   GIYP I+ L S S+
Sbjct: 244 TGYITEGQIVLDRQLHNRGIYPPINVLPSLSR 275

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

 Score =  122 bits (308), Expect = 2e-29
 Identities = 89/314 (28%), Positives = 146/314 (46%), Gaps = 11/314 (3%)

Query: 596 FGNTNGI-KRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPP 654
           F  T+G+  + T V  TG+ +  PV +  LGRI N  G PID   EI  + +  I+  P 
Sbjct: 59  FEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPIDGGPEIVPEDRLDINGAPI 118

Query: 655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI---EHK 711
               +I+    ++TGI  ID +   ++G K+ +F G+G+       ++ R   +   E +
Sbjct: 119 NPYARIYPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIARQATVDGEEEE 178

Query: 712 GCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR 771
              VF  +G    E   F  E +E+  LD+  L     ++P+  R+      L++AE   
Sbjct: 179 FAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIITPRMALTVAEYLA 238

Query: 772 -NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST--KNG 828
                 VL+ + ++  +  A  E+SA     P   GY   +  ++  + ER      + G
Sbjct: 239 FEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIRGRKG 298

Query: 829 TITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI 888
           +IT +  + +P DD+T P P  T    +  IVLSR +   GIYP I+ L S S+ +   I
Sbjct: 299 SITQIPILTMPGDDITHPIPDLTGYITEGQIVLSRDLHRKGIYPPINVLPSLSRLMKDGI 358

Query: 889 ----VGEEHYKVAN 898
                 E+H  V+N
Sbjct: 359 GEGKTREDHGDVSN 372

Length = 463

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

 Score =  121 bits (306), Expect = 3e-29
 Identities = 82/279 (29%), Positives = 135/279 (48%), Gaps = 13/279 (4%)

Query: 192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSM 251
           +PVG  LLGR+++  G  +D         R +        + R  + EPL  G+++I++M
Sbjct: 97  LPVGMSLLGRVIDGVGNPLDGLGPIYTDQRASRHSPPINPLSRRPITEPLDVGVRAINAM 156

Query: 252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYN 311
           + +GKGQR  +      GK+ + +  +      +VI + + +G++   +   I ++    
Sbjct: 157 LTVGKGQRMGLFAGSGVGKS-VLLGMMTRGTTADVIVVGL-VGERGREVKEFIEEILGEE 214

Query: 312 CMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLL 371
               +VVVAA A  S   +     T  TI EYFRD G + L++ D LT++A A R+I+L 
Sbjct: 215 GRARSVVVAAPADTSPLMRLKGCETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREIALA 274

Query: 372 LRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT 431
           +  PP  + +P  VF     L+ER+                  G++TAF  + T   D+ 
Sbjct: 275 VGEPPATKGYPPSVFAKLPALVERAGN-----------GGPGQGSITAFYTVLTEGDDLQ 323

Query: 432 SFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
             I     +I DG I L   L +S + PAI++  S+SRV
Sbjct: 324 DPIADASRAILDGHIVLSRELADSGHYPAIDIEASISRV 362

Length = 444

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

 Score =  120 bits (302), Expect = 1e-28
 Identities = 94/328 (28%), Positives = 155/328 (47%), Gaps = 19/328 (5%)

Query: 587 GENIVRTIAFGNTNGIKRN-TIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKK 645
            E I     F  T G+    T V  TG+ +  PV +  LGRILN  G+PID   EI   +
Sbjct: 45  SEGIAVVQVFEGTTGLDPTGTKVRFTGETLKLPVSEDMLGRILNGSGEPIDGGPEIVPDE 104

Query: 646 KSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN 705
           +  I+  P     + +    ++TGI  ID +   ++G K+ +F G+G+       ++ R 
Sbjct: 105 RRDINGAPINPYAREYPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIARQ 164

Query: 706 IAI---EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL---RV 759
             +   E +   VF  +G    E N F  + +E+  L++  +     ++P+  R+   R+
Sbjct: 165 ATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTPRM 224

Query: 760 ALTGLSIAEEFRNSGKD--VLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK 817
           ALT    A E+    KD  VL+ + ++  +  A  E+SA     P   GY   +  ++  
Sbjct: 225 ALT----AAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLAT 280

Query: 818 LQER--ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           + ER      K G+IT +  + +P DD+T P P  T    +  IVLSR++   GIYP I+
Sbjct: 281 IYERAGRVKGKKGSITQMPILTMPGDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPIN 340

Query: 876 PLESYSKQLDPYI----VGEEHYKVANE 899
            L S S+ +   I      E+H  V+++
Sbjct: 341 VLPSLSRLMKDGIGEGKTREDHKDVSDQ 368

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

 Score =  113 bits (284), Expect = 1e-27
 Identities = 81/288 (28%), Positives = 128/288 (44%), Gaps = 20/288 (6%)

Query: 189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSI 248
             ++PV  ++LGRI N  G+ ID   + L +    +       + R    E + TGI +I
Sbjct: 1   TLKVPVSEDMLGRIFNGSGKPIDGGPEILAEEYLDINGPPINPVARIYPEEMIQTGISAI 60

Query: 249 DSMIPIGKGQRELIIGDRQTG------KTTIAIDTIINQKNKNVICIYVCIGQKISSLIN 302
           D M  + +GQ+  I     +G         IA    +  + +N   ++  +G  +     
Sbjct: 61  DGMNTLVRGQKIPIFSG--SGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARF 118

Query: 303 VINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLTKH 361
             +  +    ++  V+    A D   E+ I+P    T  EY   + G+  L+I  D+T +
Sbjct: 119 FKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTAEYLAYEKGKHVLVILTDMTNY 178

Query: 362 AWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFP 421
           A A R+IS      PGR  +PG   Y+++ L    + I  Y  E+       NG++T  P
Sbjct: 179 AEALREISAAREEVPGRRGYPG---YMYTDL----ATI--Y--ERAGRVEGRNGSITQIP 227

Query: 422 IIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR 469
           I+     D+T  IP     IT+GQI LD  L N    P INV  S+SR
Sbjct: 228 ILTMPNDDITHPIPDLTGYITEGQIVLDRQLHNRGIYPPINVLPSLSR 275

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|102061 PRK05922, PRK05922, type III secretion system ATPase; Validated

 Score =  116 bits (293), Expect = 1e-27
 Identities = 92/309 (29%), Positives = 143/309 (46%), Gaps = 14/309 (4%)

Query: 608 VVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILE 667
           V+   +P    + D  LGR+L+  G+P+D K ++      P+ + PP   ++     I  
Sbjct: 83  VLPLRRPPSLHLSDHLLGRVLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSRQPIQEIFP 142

Query: 668 TGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFIGVGERSREG 726
           TGIK ID      KG +IG+F   G GK+     L+  IA   K   +V   +GER RE 
Sbjct: 143 TGIKAIDAFLTLGKGQRIGVFSEPGSGKS----SLLSTIAKGSKSTINVIALIGERGREV 198

Query: 727 NDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYR 786
            ++  + KE     +  +I    +E +  ++      ++IAE FR+ G  VL  +D++ R
Sbjct: 199 REYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSR 258

Query: 787 FTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAI-YVP--ADDL 843
           +  A  EV+   G T SA  Y  ++   + +  ER  +   G+IT++ AI + P   D  
Sbjct: 259 WIAALQEVALARGETLSAHHYAASVFHHVSEFTERAGNNDKGSITALYAILHYPNHPDIF 318

Query: 844 TDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFY 903
           TD   S     LD    L+ Q   L   P ID L S S+      +   HY  A E++  
Sbjct: 319 TDYLKSL----LDGHFFLTPQGKALA-SPPIDILTSLSRSARQLAL-PHHYAAAEELRSL 372

Query: 904 LQKYKELKD 912
           L+ Y E  D
Sbjct: 373 LKAYHEALD 381

Length = 434

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

 Score =  115 bits (290), Expect = 3e-27
 Identities = 82/287 (28%), Positives = 140/287 (48%), Gaps = 29/287 (10%)

Query: 192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGI--MDRESVNEPLLTGIKSID 249
           +P+G  +LGR+++  G  +D K    +K  + V    P I  ++R  ++EPL  GI+SI+
Sbjct: 103 LPMGMSMLGRVLDGAGRALDGKGP--MKAEDWVPMDGPTINPLNRHPISEPLDVGIRSIN 160

Query: 250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY 309
            ++ +G+GQR  +      GK+ +    ++ +  +  I +   IG++   +   I  +  
Sbjct: 161 GLLTVGRGQRLGLFAGTGVGKSVLL--GMMTRFTEADIIVVGLIGERGREVKEFIEHILG 218

Query: 310 YNCMDYTVVVAATAADSA-----AEQYISPYTGCT-IGEYFRDLGQDCLIIYDDLTKHAW 363
              +  +VVVA+ A D+      A  Y      CT I EYFRD G++ L++ D LT+ A 
Sbjct: 219 EEGLKRSVVVASPADDAPLMRLRAAMY------CTRIAEYFRDKGKNVLLLMDSLTRFAQ 272

Query: 364 AYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPII 423
           A R+I+L +  PP  + +P  VF    +L+ER+                  G++TAF  +
Sbjct: 273 AQREIALAIGEPPATKGYPPSVFAKLPKLVERAGNA-----------EPGGGSITAFYTV 321

Query: 424 ETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
            +   D    I  +   + DG I L   L    + PAI++  S+SRV
Sbjct: 322 LSEGDDQQDPIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRV 368

Length = 451

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

 Score =  114 bits (287), Expect = 1e-26
 Identities = 88/353 (24%), Positives = 165/353 (46%), Gaps = 24/353 (6%)

Query: 570 IINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILN 629
           +I  +  +    +   + E+ V  +  G+ + I+  + V  TG+ +  PVGD  LGR++N
Sbjct: 51  LIEFEGGVQ--GIALNLEEDSVGAVIMGDYSDIREGSTVKRTGRILEVPVGDGLLGRVVN 108

Query: 630 VLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFG 689
            LG+PID KG I+S + SP+  + P    +   +  L+TGIK ID + P  +G +  + G
Sbjct: 109 ALGEPIDGKGPIDSDEFSPVEKIAPGVIERKSVHEPLQTGIKAIDAMIPIGRGQRELIIG 168

Query: 690 GAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQM 749
               GKT   ++ I N       C +++ +G+++        +++E   +    ++    
Sbjct: 169 DRQTGKTAVAIDTIINQKDSDVYC-IYVAIGQKASTVAQVVRKLEEHGAMAYTIVVAATA 227

Query: 750 NEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-- 807
           ++ +  +     TG ++ E FR++GK  L+  D++ +  +A  ++S +L R P    +  
Sbjct: 228 SDSASLQYLAPYTGCTMGEYFRDNGKHALIIYDDLSKQAVAYRQISLLLRRPPGREAFPG 287

Query: 808 -----QPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLS 862
                   L E   KL +       G++T++  I   A D++   P+   +  D  I L 
Sbjct: 288 DVFYLHSRLLERAAKLNDEKGG---GSLTALPIIETQAGDVSAYIPTNVISITDGQIFLE 344

Query: 863 RQIAELGIYPAIDPLESYSKQLDPYIVG-----EEHYKVANEVKFYLQKYKEL 910
             +   GI PAI+   S S+      VG     +   +VA  ++  L +Y+EL
Sbjct: 345 SDLFNSGIRPAINVGLSVSR------VGGAAQIKAMKQVAGSLRLELAQYREL 391

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

 Score =  114 bits (287), Expect = 1e-26
 Identities = 100/325 (30%), Positives = 156/325 (48%), Gaps = 33/325 (10%)

Query: 596 FGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPP 654
           F  T G+  ++T V  TG+P+  PV +  LGRI + LG PID   EI  +K+  I+  P 
Sbjct: 56  FEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPIDGGPEIIPEKRLDINGAPI 115

Query: 655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI---EHK 711
               + +    ++TGI  ID L   ++G K+ +F G+G+       ++ R   +   E  
Sbjct: 116 NPVAREYPEEFIQTGISAIDGLNTLVRGQKLPIFSGSGLPHNELAAQIARQAKVLGEEEN 175

Query: 712 GCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL---RVALTGLSIAE 768
              VF  +G    E N F  + +E+  L++  +     ++P+  R+   R+ALT    AE
Sbjct: 176 FAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALT---AAE 232

Query: 769 --EFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP--------TLAEEMGKL 818
              F   G  VL+ + ++  +  A  E+SA     P   GY P        T+ E  G++
Sbjct: 233 YLAF-EKGMHVLVILTDMTNYCEALREISAAREEVPGRRGY-PGYMYTDLATIYERAGRI 290

Query: 819 QERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLE 878
           +      K G+IT +  + +P DD+T P P  T    +  IVLSR++   GIYP ID L 
Sbjct: 291 KG-----KKGSITQIPILTMPDDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPIDVLP 345

Query: 879 SYSKQLDPYIVG-----EEHYKVAN 898
           S S+ +   I G     E+H  VAN
Sbjct: 346 SLSRLMKDGI-GEGKTREDHKDVAN 369

Length = 460

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

 Score =  113 bits (284), Expect = 3e-26
 Identities = 90/344 (26%), Positives = 159/344 (46%), Gaps = 21/344 (6%)

Query: 577 ISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPID 636
           I+ N  + ++G      +  G  + ++    V  TG+ +  PVGD  LGR+++ LG P+D
Sbjct: 62  IAFNVDEDEVG-----VVLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLGRPLD 116

Query: 637 NKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKT 696
             G + S  + PI    P   ++      L+TG+KVID L P  +G +  + G    GKT
Sbjct: 117 GGGPLASSPRLPIERPAPPIMDRAPVTVPLQTGLKVIDALIPIGRGQRELILGDRQTGKT 176

Query: 697 VNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNR 756
              ++ I N    +  C ++  +G+R+         ++E   +D   ++  + N+P G +
Sbjct: 177 AIAIDTILNQKGRNVLC-IYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQ 235

Query: 757 LRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG 816
                   SI E F   G+DVL+  D++ +   A  E+S +L R P    +   +     
Sbjct: 236 YIAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIFYVHS 295

Query: 817 KLQER----ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYP 872
           +L ER          G++T++  I   A +++   P+   +  D  I LS  + ELG+ P
Sbjct: 296 RLLERSTHLNEELGGGSLTALPIIETEAQNISAYIPTNLISITDGQIYLSPTLFELGVLP 355

Query: 873 AIDPLESYSK-----QLDPYIVGEEHYKVANEVKFYLQKYKELK 911
           A+D  +S S+     QL  Y        VA ++K    +++EL+
Sbjct: 356 AVDVGKSVSRVGGKAQLAAY------RAVAGDLKLAYAQFEELE 393

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

 Score =  111 bits (279), Expect = 2e-25
 Identities = 98/350 (28%), Positives = 160/350 (45%), Gaps = 50/350 (14%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
           E+ V  +  G+ + IK    V  TG+ +  PVG+  LGR+++ LG+PID KG I++ K  
Sbjct: 68  EDSVGAVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGNPIDGKGPIDATKTR 127

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
           P+    P   ++   N  L+TGIK ID L P  +G +  + G    GKT         IA
Sbjct: 128 PVEKKAPGVMDRKSVNEPLQTGIKAIDALIPIGRGQRELIIGDRQTGKT--------AIA 179

Query: 708 IE----HKG----CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRV 759
           I+     KG    C +++ +G++     +    ++E   +D   ++    ++ +  +   
Sbjct: 180 IDTIINQKGSGVKC-IYVAIGQKRSTVANVVRTLEEHGAMDYTIVVAASASDSAPLQYLA 238

Query: 760 ALTGLSIAEEFRNSGKDVLLFID------NIYRFTLAGTEVSAMLGRTPSAVGYQP---- 809
              G ++AE FR++GKDVL+  D        YR      E+S +L R P    Y      
Sbjct: 239 PYAGCAMAEYFRDNGKDVLIVYDDLSKHAVAYR------EISLLLRRPPGREAYPGDVFY 292

Query: 810 ---TLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIA 866
               L E   KL + +     G+IT++  I   A D++   P+   +  D  I L   + 
Sbjct: 293 LHSRLLERAAKLSDEL---GGGSITALPIIETQAGDVSAYIPTNVISITDGQIFLETDLF 349

Query: 867 ELGIYPAIDPLESYSKQLDPYIVGE--EHY---KVANEVKFYLQKYKELK 911
             GI PAI+   S S+      VG   +     KVA  ++  L +Y+EL+
Sbjct: 350 NAGIRPAINVGLSVSR------VGSAAQIKAMKKVAGSLRLILAQYRELE 393

Length = 504

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

 Score =  110 bits (277), Expect = 2e-25
 Identities = 89/311 (28%), Positives = 141/311 (45%), Gaps = 43/311 (13%)

Query: 200 GRIVNSKGEFIDNKKKFLIKNRE-TVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQ 258
           GR++N+ GE ID         R  +++  AP  M R  V   L TG++ ID   P+  GQ
Sbjct: 107 GRVINALGEPIDGLGPLAPGTRPMSIDATAPPAMTRARVETGLRTGVRVIDIFTPLCAGQ 166

Query: 259 RELIIGDRQTGKTTI--------AIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYY 310
           R  I      GK+T+        A DT+       VI +   +G++   +   +      
Sbjct: 167 RIGIFAGSGVGKSTLLAMLARADAFDTV-------VIAL---VGERGREVREFLEDTLAD 216

Query: 311 NCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISL 370
           N +   V V AT+ +S   + ++P T   I EYFRD G++ L+I D +T+ A A R+++L
Sbjct: 217 N-LKKAVAVVATSDESPMMRRLAPLTATAIAEYFRDRGENVLLIVDSVTRFAHAAREVAL 275

Query: 371 LLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL-EGD 429
               PP    +P  VF    RLLER+               +  G++T   I   L +GD
Sbjct: 276 AAGEPPVARGYPPSVFSELPRLLERAGP-----------GAEGGGSITG--IFSVLVDGD 322

Query: 430 V-TSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA----QYKIVKKLSG 484
                +  ++    DG I LD  +      PA++   S+SR+   A    Q K+V +L  
Sbjct: 323 DHNDPVADSIRGTLDGHIVLDRAIAEQGRYPAVDPLASISRLARHAWTPEQRKLVSRL-- 380

Query: 485 DIRIMLAQYRE 495
             + M+A++ E
Sbjct: 381 --KSMIARFEE 389

Length = 450

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

 Score =  110 bits (276), Expect = 2e-25
 Identities = 91/350 (26%), Positives = 145/350 (41%), Gaps = 30/350 (8%)

Query: 135 NQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPV 194
            + +N+   + TV SGQ+   +G  +A  Q F      D K  T    C  T  I   PV
Sbjct: 24  AEIVNLTLPDGTVRSGQVLEVSG-NKAVVQVFEGTSGIDAKKTT----CEFTGDILRTPV 78

Query: 195 GFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPI 254
             ++LGR+ N  G+ ID     L ++   +         R    E + TGI +ID M  I
Sbjct: 79  SEDMLGRVFNGSGKPIDKGPPVLAEDYLDINGQPINPYARIYPEEMIQTGISAIDVMNSI 138

Query: 255 GKGQRELIIGD-------------RQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLI 301
            +GQ+  I                RQ G   +    + +    N   ++  +G  + +  
Sbjct: 139 ARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETAR 198

Query: 302 NVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLTK 360
                 +    M+   +    A D   E+ I+P    T  EY      +  L+I  D++ 
Sbjct: 199 FFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS 258

Query: 361 HAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAF 420
           +A A R++S      PGR  FPG ++   + + ER+ ++              NG++T  
Sbjct: 259 YADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVEG-----------RNGSITQI 307

Query: 421 PIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
           PI+     D+T  IP     IT+GQI++D  L N    P INV  S+SR+
Sbjct: 308 PILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRL 357

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 =  109 bits (274), Expect = 3e-25
 Identities = 92/318 (28%), Positives = 154/318 (48%), Gaps = 26/318 (8%)

Query: 192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGI--MDRESVNEPLLTGIKSID 249
           IP G  LLG+++++ GE ++ + + +   +  ++  AP I   +RE + +   TGIKSID
Sbjct: 91  IPRGNHLLGKVLSANGEVLNEEAENIPLQKIKLD--APPIHAFEREEITDVFETGIKSID 148

Query: 250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY 309
           SM+ IG GQ+  I      GK+T+    +I +  K  I +   +G++   + + I K   
Sbjct: 149 SMLTIGIGQKIGIFAGSGVGKSTLL--GMIAKNAKADINVISLVGERGREVKDFIRKELG 206

Query: 310 YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQIS 369
              M  +VVV AT+ +S   Q  +     +I EYFRD G + L++ D +T+ A A R + 
Sbjct: 207 EEGMRKSVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFADARRSVD 266

Query: 370 LLLRRPPGREAFPGDVFYLHS---RLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL 426
           + ++  P      G    + S   +LLERS K  K             G++T    +   
Sbjct: 267 IAVKELP----IGGKTLLMESYMKKLLERSGKTQK-------------GSITGIYTVLVD 309

Query: 427 EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDI 486
             D+   +P     I DG I L   L   ++ PAI+V  SVSR+          +L+ ++
Sbjct: 310 GDDLNGPVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIMEEIVSPNHWQLANEM 369

Query: 487 RIMLAQYRELESFSKFSS 504
           R +L+ Y+E E + K  +
Sbjct: 370 RKILSIYKENELYFKLGT 387

Length = 432

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

 Score =  108 bits (271), Expect = 7e-25
 Identities = 72/278 (25%), Positives = 130/278 (46%), Gaps = 17/278 (6%)

Query: 192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSM 251
           + +   LLGR+++  G  +D K++    + + +    P  M R+ + E   TGIK+ID+ 
Sbjct: 92  LHLSDHLLGRVLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSRQPIQEIFPTGIKAIDAF 151

Query: 252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYN 311
           + +GKGQR  +  +  +GK+++   + I + +K+ I +   IG++   +   I + K   
Sbjct: 152 LTLGKGQRIGVFSEPGSGKSSLL--STIAKGSKSTINVIALIGERGREVREYIEQHKEGL 209

Query: 312 CMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLL 371
               T+++A+ A ++A  + I+     TI EYFRD G   L I D L++   A ++++L 
Sbjct: 210 AAQRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALA 269

Query: 372 LRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT 431
                    +   VF+  S   ER+              N + G++TA   I        
Sbjct: 270 RGETLSAHHYAASVFHHVSEFTERAG-------------NNDKGSITALYAILHYPNHPD 316

Query: 432 SFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR 469
            F    + S+ DG  FL T    +   P I++  S+SR
Sbjct: 317 IFTDY-LKSLLDGHFFL-TPQGKALASPPIDILTSLSR 352

Length = 434

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

 Score =  107 bits (268), Expect = 2e-24
 Identities = 90/326 (27%), Positives = 151/326 (46%), Gaps = 26/326 (7%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKN--RETVEKIAPGIMDR 234
           +  G + F +E+  E+ +G   LGR++N  GE +D K +       ++ + +I P  + R
Sbjct: 75  VLGGARVFPSEQDGELLIGDSWLGRVINGLGEPLDGKGQLGGSTPLQQQLPQIHP--LQR 132

Query: 235 ESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIG 294
            +V+ PL  G+ +I+ ++ IGKGQR  ++     GK+ + +  I      +V+ + + IG
Sbjct: 133 RAVDTPLDVGVNAINGLLTIGKGQRVGLMAGSGVGKSVL-LGMITRYTQADVVVVGL-IG 190

Query: 295 QKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLII 354
           ++   +   I        M  +VVVAA A +S   +  +      I  Y+RD G D L++
Sbjct: 191 ERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKATELCHAIATYYRDKGHDVLLL 250

Query: 355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNN 414
            D LT++A A R+I+L L  PP  + +P   F +  RL E +              +  N
Sbjct: 251 VDSLTRYAMAQREIALSLGEPPATKGYPPSAFSIIPRLAESAGN------------SSGN 298

Query: 415 GTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR----V 470
           GT+TA   +     D    I     ++ DG I L   L  + + PAI++  S+SR    V
Sbjct: 299 GTMTAIYTVLAEGDDQQDPIVDCARAVLDGHIVLSRKLAEAGHYPAIDISQSISRCMSQV 358

Query: 471 GGAAQYKIVKKLSGDIRIMLAQYREL 496
            G+ Q K    L        A Y  +
Sbjct: 359 IGSQQAKAASLLKQ----CYADYMAI 380

Length = 434

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

 Score = 96.0 bits (239), Expect = 6e-23
 Identities = 52/184 (28%), Positives = 78/184 (42%), Gaps = 23/184 (12%)

Query: 684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVS 743
            I +FG  G GKT   ++L  NIA    G  V++ + E   E  +          LD + 
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIA-TKGGKVVYVDIEEEIEELTERLIGESLKGALDNLI 59

Query: 744 LIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPS 803
           +++   ++P+  RL       S AE  R  G D L+ +D + R   A  E+         
Sbjct: 60  IVFATADDPAAARLL------SKAERLRERGGDDLIILDELTRLVRALREI--------- 104

Query: 804 AVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPS----PSTTFTHLDSTI 859
             GY   L EE+ +L ER    + G +T +  + VP+ D  DP             D+ I
Sbjct: 105 REGYPGELDEELRELLERA---RKGGVTVIFTLQVPSGDKGDPRLTRGAQNLEDIADTVI 161

Query: 860 VLSR 863
           VLSR
Sbjct: 162 VLSR 165

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

 Score =  102 bits (255), Expect = 1e-22
 Identities = 93/378 (24%), Positives = 153/378 (40%), Gaps = 52/378 (13%)

Query: 186 TEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGI 245
           T +  +IPV  +LLGRI N  G+ ID   + + ++R  +         R    E + TGI
Sbjct: 75  TGETLKIPVSEDLLGRIFNGSGKPIDGGPEIVPEDRLDINGAPINPYARIYPEEFIQTGI 134

Query: 246 KSIDSMIPIGKGQR------------ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCI 293
            +ID M  + +GQ+            EL           IA    ++ + +    ++  +
Sbjct: 135 SAIDGMNTLVRGQKLPIFSGSGLPHNELAA--------QIARQATVDGEEEEFAVVFAAM 186

Query: 294 GQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCL 352
           G      +  +++ +    +D  V+    A D A E+ I+P    T+ EY   +     L
Sbjct: 187 GITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIITPRMALTVAEYLAFEKDMHVL 246

Query: 353 IIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNK 412
           +I  D+T +  A R+IS      PGR  +PG   Y+++ L         Y  E+      
Sbjct: 247 VILTDMTNYCEALREISAAREEVPGRRGYPG---YMYTDLATI------Y--ERAGRIRG 295

Query: 413 NNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGG 472
             G++T  PI+     D+T  IP     IT+GQI L  +L      P INV  S+SR+  
Sbjct: 296 RKGSITQIPILTMPGDDITHPIPDLTGYITEGQIVLSRDLHRKGIYPPINVLPSLSRLMK 355

Query: 473 AAQYKIV-----KKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISL----- 522
               +         +S  +    A+ R+L           +V +  L   ++  L     
Sbjct: 356 DGIGEGKTREDHGDVSNQLYAAYAEGRDLRELVA------VVGEEALSERDRKYLKFADL 409

Query: 523 ----LMKQKPHENYSIVE 536
                +KQ  +EN SI E
Sbjct: 410 FEQRFIKQGRYENRSIEE 427

Length = 463

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

 Score =   99 bits (250), Expect = 7e-22
 Identities = 82/306 (26%), Positives = 142/306 (46%), Gaps = 15/306 (4%)

Query: 586 IGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKK 645
           + E +V  +   +T  I   T V  TG+ +  PVGD  LGR+++ LG P+D  G + +  
Sbjct: 66  LEEELVGAVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVIDPLGRPLDGGGPLQATA 125

Query: 646 KSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN 705
           + P+    P    + F    L+TGIKV+D L P  +G +  + G    GKT   ++ I  
Sbjct: 126 RRPLERPAPAIIERDFVTEPLQTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAI-- 183

Query: 706 IAIEHKG--CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
           I  +     C V++ +G+++         ++E   L+  +++  + ++P G +      G
Sbjct: 184 INQKDSDVIC-VYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLAPFAG 242

Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            +IAE FR+ G+D L+  D++ +   A  E+S +L R P    Y          L E   
Sbjct: 243 CAIAEYFRDQGQDALIVYDDLSKHAAAYRELSLLLRRPPGREAYPGDIFYLHSRLLERAA 302

Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL   +     G++T++  I   A +L+   P+   +  D  I L   +   G  PA+D 
Sbjct: 303 KLSPEL---GGGSLTALPIIETLAGELSAYIPTNLISITDGQIYLDSDLFAAGQRPAVDV 359

Query: 877 LESYSK 882
             S S+
Sbjct: 360 GLSVSR 365

Length = 502

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

 Score = 97.9 bits (244), Expect = 2e-21
 Identities = 88/330 (26%), Positives = 148/330 (44%), Gaps = 30/330 (9%)

Query: 596 FGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPP 654
           F  T+GI  + T    TG  + TPV +  LGR+ N  G PID    + ++    I+  P 
Sbjct: 54  FEGTSGIDAKKTTCEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPVLAEDYLDINGQPI 113

Query: 655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI------ 708
               +I+   +++TGI  ID++    +G KI +F  AG+       ++ R   +      
Sbjct: 114 NPYARIYPEEMIQTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTK 173

Query: 709 ------EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL---RV 759
                 E     VF  +G        F  + +E+  +++V L     N+P+  R+   R+
Sbjct: 174 DVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRL 233

Query: 760 ALTGLSIAEEF--RNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK 817
           ALT      E+      K VL+ + ++  +  A  EVSA     P   G+   +  ++  
Sbjct: 234 ALT----TAEYLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTDLAT 289

Query: 818 LQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           + ER      +NG+IT +  + +P DD+T P P  T    +  I + RQ+    IYP I+
Sbjct: 290 IYERAGRVEGRNGSITQIPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPIN 349

Query: 876 PLESYSKQLDPYIVGE-----EHYKVANEV 900
            L S S+ +   I GE     +H  V+N++
Sbjct: 350 VLPSLSRLMKSAI-GEGMTRKDHSDVSNQL 378

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|238552 cd01132, F1_ATPase_alpha, F1 ATP synthase alpha, central domain

 Score = 94.6 bits (236), Expect = 3e-21
 Identities = 73/275 (26%), Positives = 131/275 (47%), Gaps = 17/275 (6%)

Query: 618 PVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLC 677
           PVG+  LGR+++ LG+PID KG I +K++ PI +  P    +   N  L+TGIK ID + 
Sbjct: 5   PVGEALLGRVVDALGNPIDGKGPIETKERRPIESKAPGIIPRKSVNEPLQTGIKAIDAMI 64

Query: 678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG---CSVFIGVGERSREGNDFYHEMK 734
           P  +G +  + G    GKT   ++ I    I  KG     +++ +G+++         ++
Sbjct: 65  PIGRGQRELIIGDRQTGKTAIAIDTI----INQKGKKVYCIYVAIGQKASTVAQVVKTLE 120

Query: 735 ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEV 794
           E   ++   ++    ++P+  +     TG ++ E F ++GK  L+  D++ +  +A  ++
Sbjct: 121 EHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQM 180

Query: 795 SAMLGRTPSAVGY-------QPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPS 847
           S +L R P    Y          L E   KL +       G++T++  I   A D++   
Sbjct: 181 SLLLRRPPGREAYPGDVFYLHSRLLERAAKLND---ELGGGSLTALPIIETQAGDVSAYI 237

Query: 848 PSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK 882
           P+   +  D  I L   +   GI PAI+   S S+
Sbjct: 238 PTNVISITDGQIFLETDLFNKGIRPAINVGLSVSR 272

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|200071 TIGR01041, ATP_syn_B_arch, ATP synthase archaeal, B subunit

 Score = 97.5 bits (243), Expect = 3e-21
 Identities = 78/291 (26%), Positives = 124/291 (42%), Gaps = 18/291 (6%)

Query: 186 TEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGI 245
           T +  ++PV  ++LGRI+N  GE ID   + +   R  +         RE   E + TGI
Sbjct: 70  TGETLKLPVSEDMLGRILNGSGEPIDGGPEIVPDERRDINGAPINPYAREYPEEFIQTGI 129

Query: 246 KSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ-----KNKNVICIYVCIGQKISSL 300
            +ID M  + +GQ+  I          +A   I  Q     +      ++  +G      
Sbjct: 130 SAIDGMNTLVRGQKLPIFSGSGLPHNELAAQ-IARQATVRGEESEFAVVFAAMGITYEEA 188

Query: 301 INVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLT 359
              +   +    ++  VV    A D A E+ ++P    T  EY   +     L+I  D+T
Sbjct: 189 NFFMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAFEKDMHVLVILTDMT 248

Query: 360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
            +  A R+IS      PGR  +PG ++   + + ER+ ++       KK      G++T 
Sbjct: 249 NYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVKG-----KK------GSITQ 297

Query: 420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
            PI+     D+T  IP     IT+GQI L   L      P INV  S+SR+
Sbjct: 298 MPILTMPGDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPINVLPSLSRL 348

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|130115 TIGR01043, ATP_syn_A_arch, ATP synthase archaeal, A subunit

 Score = 96.7 bits (241), Expect = 1e-20
 Identities = 73/240 (30%), Positives = 106/240 (44%), Gaps = 29/240 (12%)

Query: 666 LETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSRE 725
           L TG +++D   P  KGG   + G  G GKTV   +L +    +     V+IG GER  E
Sbjct: 206 LITGQRILDTFFPIAKGGTAAIPGPFGSGKTVTQHQLAKWSDAD---IVVYIGCGERGNE 262

Query: 726 GNDFYHEMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVL 778
             D   E  E         ++++  LI    N P   R     TG++IAE FR+ G DV 
Sbjct: 263 MTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVA 322

Query: 779 LFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTIT 831
           L  D+  R+  A  E+S  L   P   GY   LA  + +  ER           + G++T
Sbjct: 323 LMADSTSRWAEAMREISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGGEERVGSVT 382

Query: 832 SVQAIYVPADDLTDPSPSTT------FTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLD 885
            + A+  P  D ++P    T      F  LD+ +   R       +PAI+ L+SYS  +D
Sbjct: 383 VIGAVSPPGGDFSEPVTQNTLRIVKVFWALDADLAQRRH------FPAINWLQSYSLYVD 436

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

 Score = 96.2 bits (240), Expect = 2e-20
 Identities = 82/290 (28%), Positives = 135/290 (46%), Gaps = 33/290 (11%)

Query: 219 KNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTI 278
           K R    K+ P          PL+TG + ID++ P+ KG    + G   +GKT     T+
Sbjct: 194 KARPVKRKLPP--------EIPLVTGQRVIDTLFPVAKGGTAAVPGPFGSGKTVS-QHTL 244

Query: 279 INQKNKNVICIYVCIGQKISSLINVIN---KLKYYNC----MDYTVVVAATAADSAAEQY 331
               + +++ IYV  G++ + +  V+    +LK  N     MD TV++A T+    A + 
Sbjct: 245 SKLADGDIV-IYVGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAARE 303

Query: 332 ISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSR 391
            S YTG TI EY+RD+G D  ++ D  ++ A A R+IS  L   PG E +P    YL SR
Sbjct: 304 ASIYTGITIAEYYRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLGSR 360

Query: 392 L---LERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIF- 447
           L    ER+ ++     E++       G++T    +    GD +  +  N + +   ++F 
Sbjct: 361 LAEFYERAGRVRLVSPEERF------GSITVIGAVSPPGGDFSEPVTQNTLRVV--RVFW 412

Query: 448 -LDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYREL 496
            LD  L N  + P+IN   S S      +    + +S +   +  Q  E+
Sbjct: 413 ALDAALANRRHFPSINWLNSYSLYTEDLRSWYDENVSPEWGALRDQAMEI 462

Length = 588

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

 Score = 94.5 bits (236), Expect = 3e-20
 Identities = 79/303 (26%), Positives = 132/303 (43%), Gaps = 44/303 (14%)

Query: 186 TEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGI 245
           T +  ++PV  ++LGRI +  G  ID   + + + R  +       + RE   E + TGI
Sbjct: 72  TGEPLKLPVSEDMLGRIFDGLGRPIDGGPEIIPEKRLDINGAPINPVAREYPEEFIQTGI 131

Query: 246 KSIDSMIPIGKGQR------------EL---IIGDRQTGKTTIAIDTIINQKNKNVICIY 290
            +ID +  + +GQ+            EL   I   RQ          ++ ++    + ++
Sbjct: 132 SAIDGLNTLVRGQKLPIFSGSGLPHNELAAQIA--RQA--------KVLGEEENFAV-VF 180

Query: 291 VCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQ 349
             +G         +   +    ++ +VV    A D A E+ ++P    T  EY   + G 
Sbjct: 181 AAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALTAAEYLAFEKGM 240

Query: 350 DCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRL---LERSSKINKYFLEK 406
             L+I  D+T +  A R+IS      PGR  +PG   Y+++ L    ER+ +I     + 
Sbjct: 241 HVLVILTDMTNYCEALREISAAREEVPGRRGYPG---YMYTDLATIYERAGRI-----KG 292

Query: 407 KKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLS 466
           KK      G++T  PI+   + D+T  IP     IT+GQI L   L      P I+V  S
Sbjct: 293 KK------GSITQIPILTMPDDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPIDVLPS 346

Query: 467 VSR 469
           +SR
Sbjct: 347 LSR 349

Length = 460

>gnl|CDD|211621 TIGR01039, atpD, ATP synthase, F1 beta subunit

 Score = 93.2 bits (232), Expect = 7e-20
 Identities = 86/328 (26%), Positives = 139/328 (42%), Gaps = 24/328 (7%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRES 236
           L +G +   T     +PVG E LGRI N  GE ID K     K R  + + AP   ++ +
Sbjct: 63  LVRGLEVIDTGAPISVPVGKETLGRIFNVLGEPIDEKGPIPAKERWPIHRKAPSFEEQST 122

Query: 237 VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNVICIYVCIGQ 295
             E L TGIK ID + P  KG +  + G    GKT +  + I N  K      ++  +G+
Sbjct: 123 KVEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGE 182

Query: 296 KISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL-GQDCLII 354
           +     ++ +++K    +D T +V     +    +     TG T+ EYFRD  GQD L+ 
Sbjct: 183 RTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALTGLTMAEYFRDEQGQDVLLF 242

Query: 355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNN 414
            D++ +   A  ++S LL R P    +   +      L ER             I +   
Sbjct: 243 IDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGELQER-------------ITSTKT 289

Query: 415 GTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR----- 469
           G++T+   +     D+T   P    +  D    L   +      PA++   S SR     
Sbjct: 290 GSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRKIAELGIYPAVDPLDSTSRLLDPS 349

Query: 470 VGGAAQYKIVKKLSGDIRIMLAQYRELE 497
           V G   Y + + +      +L +Y+EL+
Sbjct: 350 VVGEEHYDVARGVQQ----ILQRYKELQ 373

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 [Energy metabolism, ATP-proton motive force interconversion]. Length = 461

>gnl|CDD|183615 PRK12597, PRK12597, F0F1 ATP synthase subunit beta; Provisional

 Score = 92.2 bits (230), Expect = 2e-19
 Identities = 84/337 (24%), Positives = 149/337 (44%), Gaps = 24/337 (7%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           A+ +     L +G +   T    E+PVG  +LGR+++  GE +D       + R  +   
Sbjct: 54  AIALGSTSGLARGDEVRNTGGPIEVPVGEAVLGRLLDVLGEPLDGGPPLPAEERRPIHST 113

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNV 286
            P + ++++  E L TGIK ID + PI KG +  + G    GKT + ++ I N  K  + 
Sbjct: 114 IPPLAEQDTSTEILETGIKVIDLLCPIAKGGKTGLFGGAGVGKTVLMMELIFNISKQHSG 173

Query: 287 ICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD 346
             ++  +G++      + +++K    +D TV+V     +    +     TG TI EY RD
Sbjct: 174 SSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRD 233

Query: 347 -LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLE 405
              +D L+  D++ +   A  ++S LL R P R      V Y    L    +++      
Sbjct: 234 EEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSR------VGY-QPTLASEVAEL------ 280

Query: 406 KKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL 465
           +++I +  NG++T+   +     D+T      + S  D  + L          PAI+   
Sbjct: 281 QERIASTKNGSITSIQAVYVPADDLTDPAAVAIFSHLDSTVVLSRAQAAKGIYPAIDPLA 340

Query: 466 SVSR-----VGGAAQYKIVKKLSGDIRIMLAQYRELE 497
           S S      V G   Y    +    ++ +L +Y+ELE
Sbjct: 341 SSSNLLDPLVVGERHYDAAIE----VKRILQRYKELE 373

Length = 461

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

 Score = 90.7 bits (226), Expect = 2e-19
 Identities = 71/239 (29%), Positives = 106/239 (44%), Gaps = 27/239 (11%)

Query: 663 NNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGER 722
           N  L TG +V+D L P +KGG   + G  G GKTV    L +    +     +++G GER
Sbjct: 138 NEPLLTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVIQQSLSKYSNSD---IVIYVGCGER 194

Query: 723 SREG----NDFYH---EMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGK 775
             E      +F      +    ++ +  LI    N P   R     TG++IAE FR+ G 
Sbjct: 195 GNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTGITIAEYFRDMGY 254

Query: 776 DVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNG 828
           +V L  D+  R+  A  E+S  L   P   GY   L   +    ER        S  + G
Sbjct: 255 NVALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREG 314

Query: 829 TITSVQAIYVPADDLTDPSPSTTFTHLDSTIV-----LSRQIAELGIYPAIDPLESYSK 882
           ++T V A+  P  D ++P    T       IV     L +++A+   +P+I+ L SYSK
Sbjct: 315 SVTIVGAVSPPGGDFSEPVTQATL-----RIVQVFWGLDKKLAQRRHFPSINWLISYSK 368

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

 Score = 91.4 bits (227), Expect = 3e-19
 Identities = 79/286 (27%), Positives = 137/286 (47%), Gaps = 25/286 (8%)

Query: 191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEK---IAPGI--MDRESVNEPLLTGI 245
           ++P+G  LLGR+++  G+ +D      +   +T E    I P    + R  +   L TG+
Sbjct: 109 QLPLGPALLGRVLDGSGKPLDG-----LPAPDTGETGALITPPFNPLQRTPIEHVLDTGV 163

Query: 246 KSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVIN 305
           ++I++++ +G+GQR  +      GK+ + +  +      +VI + + IG++   + + I 
Sbjct: 164 RAINALLTVGRGQRMGLFAGSGVGKSVL-LGMMARYTQADVIVVGL-IGERGREVKDFIE 221

Query: 306 KLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAY 365
            +        +VV+AA A  S   +         I E FRD GQ  L+I D LT++A A 
Sbjct: 222 NILGAEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQ 281

Query: 366 RQISLLLRRPPGREAFPGDVFYLHSRLLERSSK-INKYFLEKKKIFNKNNGTLTAFPIIE 424
           R+I+L +  PP  + +P  VF     L+ER+   I+              G++TAF  + 
Sbjct: 282 REIALAIGEPPATKGYPPSVFAKLPALVERAGNGIS------------GGGSITAFYTVL 329

Query: 425 TLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
           T   D    I  +  +I DG I L   L  + + PAI++  S+SR 
Sbjct: 330 TEGDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRA 375

Length = 455

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

 Score = 91.7 bits (228), Expect = 4e-19
 Identities = 74/258 (28%), Positives = 118/258 (45%), Gaps = 37/258 (14%)

Query: 219 KNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTI 278
             R   EK+ P          PL+TG + +D+  PI KG    I G   +GKT +    +
Sbjct: 192 IPRPYKEKLPP--------EVPLITGQRILDTFFPIAKGGTAAIPGPFGSGKT-VTQHQL 242

Query: 279 INQKNKNVICIYVCIGQKISSLINVINKLKYYN-------CMDYTVVVAATAADSAAEQY 331
               + +++ +Y+  G++ + + +V+ +             M+ TV++A T+    A + 
Sbjct: 243 AKWSDADIV-VYIGCGERGNEMTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAARE 301

Query: 332 ISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSR 391
            S YTG TI EYFRD+G D  ++ D  ++ A A R+IS  L   PG E +P    YL SR
Sbjct: 302 ASIYTGITIAEYFRDMGYDVALMADSTSRWAEAMREISGRLEEMPGEEGYPA---YLASR 358

Query: 392 LLERSSKINKYFLEKK---KIFNKNN--GTLTAFPIIETLEGDVTSFIPTNVISITDGQI 446
           L E        F E+    K        G++T    +    GD +  +  N + I   ++
Sbjct: 359 LAE--------FYERAGRVKTLGGEERVGSVTVIGAVSPPGGDFSEPVTQNTLRIV--KV 408

Query: 447 F--LDTNLFNSNYRPAIN 462
           F  LD +L    + PAIN
Sbjct: 409 FWALDADLAQRRHFPAIN 426

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 = 90.0 bits (224), Expect = 4e-19
 Identities = 81/268 (30%), Positives = 123/268 (45%), Gaps = 47/268 (17%)

Query: 221 RETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN 280
           R   EK+ P        NEPLLTG + +D++ P+ KG    I G    GKT I   ++  
Sbjct: 129 RPVKEKLPP--------NEPLLTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVI-QQSLSK 179

Query: 281 QKNKNVICIYVCIGQKISSLINVIN---KLKYYN----CMDYTVVVAAT-----AADSAA 328
             N +++ IYV  G++ + +  V+    +L         M  TV++A T     AA  A 
Sbjct: 180 YSNSDIV-IYVGCGERGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREA- 237

Query: 329 EQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYL 388
               S YTG TI EYFRD+G +  ++ D  ++ A A R+IS  L   PG E +P    YL
Sbjct: 238 ----SIYTGITIAEYFRDMGYNVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YL 290

Query: 389 HSRL---LERSSKINKYFLEKKKIFNKNN--GTLTAFPIIETLEGDVTSFIPTNVISITD 443
            +RL    ER+ ++        K        G++T    +    GD +  +    + I  
Sbjct: 291 GARLASFYERAGRV--------KCLGSPGREGSVTIVGAVSPPGGDFSEPVTQATLRIV- 341

Query: 444 GQIF--LDTNLFNSNYRPAINVGLSVSR 469
            Q+F  LD  L    + P+IN  +S S+
Sbjct: 342 -QVFWGLDKKLAQRRHFPSINWLISYSK 368

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|223133 COG0055, AtpD, F0F1-type ATP synthase, beta subunit [Energy production and conversion]

 Score = 90.4 bits (225), Expect = 6e-19
 Identities = 85/340 (25%), Positives = 147/340 (43%), Gaps = 28/340 (8%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVE-- 225
            + +     L +G +   T K   +PVG   LGRI N  GE ID K     ++ E     
Sbjct: 56  TIAMGSTDGLVRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPIKAEDFEKWPIH 115

Query: 226 KIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ--KN 283
           + AP   +  +  E L TGIK ID + P  KG +  + G    GKT + I  +IN   K 
Sbjct: 116 RKAPSFEELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVL-IQELINNIAKE 174

Query: 284 KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEY 343
                ++  +G++     ++ +++K    +D T +V     +    +     TG T+ EY
Sbjct: 175 HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARMRVALTGLTMAEY 234

Query: 344 FRD-LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKY 402
           FRD  GQD L+  D++ +   A  ++S LL R P        V Y    L     ++   
Sbjct: 235 FRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSA------VGY-QPTLATEMGQL--- 284

Query: 403 FLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAIN 462
              +++I +   G++T+   +     D+T   P    +  D    L   +      PA++
Sbjct: 285 ---QERITSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAALGIYPAVD 341

Query: 463 VGLSVSR-----VGGAAQYKIVKKLSGDIRIMLAQYRELE 497
              S SR     + G   Y++ ++    ++ +L +Y+EL+
Sbjct: 342 PLDSTSRALDPKIVGEEHYEVARE----VQSILQRYKELQ 377

Length = 468

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

 Score = 91.2 bits (227), Expect = 7e-19
 Identities = 79/272 (29%), Positives = 120/272 (44%), Gaps = 35/272 (12%)

Query: 665 ILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR 724
            L TG +VID L P  KGG   + G  G GKTV+   L +    +     +++G GER  
Sbjct: 207 PLVTGQRVIDTLFPVAKGGTAAVPGPFGSGKTVSQHTLSKLADGD---IVIYVGCGERGN 263

Query: 725 EGNDF---YHEMKESN----VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDV 777
           E  +    + E+K+ N    ++D+  LI    N P   R     TG++IAE +R+ G DV
Sbjct: 264 EMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIAEYYRDMGYDV 323

Query: 778 LLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLA-------EEMGKLQERISSTKNGTI 830
            L  D+  R+  A  E+S  L   P   GY   L        E  G+++      + G+I
Sbjct: 324 ALMADSTSRWAEALREISGRLEEMPGEEGYPAYLGSRLAEFYERAGRVRLVSPEERFGSI 383

Query: 831 TSVQAIYVPADDLTDPSPSTT------FTHLDSTIVLSRQIAELGIYPAIDPLESYSK-- 882
           T + A+  P  D ++P    T      F  LD+ +   R       +P+I+ L SYS   
Sbjct: 384 TVIGAVSPPGGDFSEPVTQNTLRVVRVFWALDAALANRRH------FPSINWLNSYSLYT 437

Query: 883 -QLDPYI---VGEEHYKVANEVKFYLQKYKEL 910
             L  +    V  E   + ++    LQ+  EL
Sbjct: 438 EDLRSWYDENVSPEWGALRDQAMEILQRESEL 469

Length = 588

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

 Score = 89.4 bits (222), Expect = 3e-18
 Identities = 76/271 (28%), Positives = 127/271 (46%), Gaps = 28/271 (10%)

Query: 663 NNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGER 722
           N  L TG +V+D L P ++GG   + G  G GKTV    L +     +    V++G GER
Sbjct: 207 NTPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSK---YSNSDAIVYVGCGER 263

Query: 723 SREGN----DF---YHEM--KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS 773
             E      DF     E+  +E +++ + +L+    N P   R     TG+++AE FR+ 
Sbjct: 264 GNEMAEVLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYTGITLAEYFRDM 323

Query: 774 GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTK 826
           G +V +  D+  R+  A  E+S  L   P+  GY   L   +    ER        S  +
Sbjct: 324 GYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPER 383

Query: 827 NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK---Q 883
            G+++ V A+  P  D +DP  S T   +     L +++A+   +P+++ L SYSK    
Sbjct: 384 EGSVSIVGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRA 443

Query: 884 LDPYIVGEEHY----KVANEVKFYLQKYKEL 910
           L+ +   E+ Y     +  + K  LQ+ ++L
Sbjct: 444 LEEFY--EKFYPEFVPLRTKAKEILQEEEDL 472

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

 Score = 87.0 bits (216), Expect = 7e-18
 Identities = 92/349 (26%), Positives = 151/349 (43%), Gaps = 37/349 (10%)

Query: 570 IINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILN 629
            +  K+  S+ +V +  G+  V    FG T GI     VV  G+P+     +  LGR  N
Sbjct: 30  TVERKDGSSLAQVIRLDGD-KVTLQVFGGTRGISTGDEVVFLGRPMQVTYSESLLGRRFN 88

Query: 630 VLGDPIDNKGEINSKKKSPIHTLPPKF--SNQIFNNNILETGIKVIDLLCPFLKGGKIGL 687
             G PID   E+  +   PI    P      +I    ++ TGI +ID+    ++  KI +
Sbjct: 89  GSGKPIDGGPELEGE---PIEIGGPSVNPVKRIVPREMIRTGIPMIDVFNTLVESQKIPI 145

Query: 688 FGGAGVGKTVNMMELIRNIAIEHKG-CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIY 746
           F  +  G+  N   L+  IA++ +    +  G+G    +   F    + +  LD+  +  
Sbjct: 146 FSVS--GEPYN--ALLARIALQAEADIIILGGMGLTFDDYLFFKDTFENAGALDRTVMFI 201

Query: 747 GQMNEPSGNRLRVALTGLSIAEEFRNSG-KDVLLFIDNIYRFTLAGTEVSAMLGRTPSAV 805
              ++P    L V    L++AE+F   G K VL+ + ++  F  A  E+S  + + PS  
Sbjct: 202 HTASDPPVECLLVPDMALAVAEKFALEGKKKVLVLLTDMTNFADALKEISITMDQIPSNR 261

Query: 806 GYQPTLAEEMGKLQER-ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQ 864
           GY  +L  ++    E+ +     G+IT +    +P DD+T P P  T             
Sbjct: 262 GYPGSLYSDLASRYEKAVDFEDGGSITIIAVTTMPGDDVTHPVPDNT-----------GY 310

Query: 865 IAELGIY---PAIDPLESYS--KQLDPYIVG----EEHYKVANE-VKFY 903
           I E   Y     IDP  S S  KQL   ++G    E+H  + N  ++ Y
Sbjct: 311 ITEGQFYLRRGRIDPFGSLSRLKQL---VIGKKTREDHGDLMNAMIRLY 356

Length = 436

>gnl|CDD|238553 cd01133, F1-ATPase_beta, F1 ATP synthase beta subunit, nucleotide-binding domain

 Score = 84.2 bits (209), Expect = 9e-18
 Identities = 73/283 (25%), Positives = 123/283 (43%), Gaps = 15/283 (5%)

Query: 190 FEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSID 249
             +PVG E LGRI N  GE ID +     K    + + AP  +++ +  E L TGIK ID
Sbjct: 2   ISVPVGPETLGRIFNVLGEPIDERGPIKTKKTWPIHREAPEFVEQSTKTEILETGIKVID 61

Query: 250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNVICIYVCIGQKISSLINVINKLK 308
            + P  KG +  + G    GKT + ++ I N  K      ++  +G++     ++ +++K
Sbjct: 62  LLAPYAKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMK 121

Query: 309 YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLIIYDDLTKHAWAYRQ 367
               +  T +V     +    +     TG T+ EYFRD  GQD L+  D++ +   A  +
Sbjct: 122 ESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSE 181

Query: 368 ISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLE 427
           +S LL R P        V Y    L      +      +++I +   G++T+   +    
Sbjct: 182 VSALLGRMPSA------VGY-QPTLATEMGAL------QERITSTKKGSITSVQAVYVPA 228

Query: 428 GDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
            D+T   P    +  D    L   +      PA++   S SR+
Sbjct: 229 DDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRI 271

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. Length = 274

>gnl|CDD|132348 TIGR03305, alt_F1F0_F1_bet, alternate F1F0 ATPase, F1 subunit beta

 Score = 81.4 bits (201), Expect = 5e-16
 Identities = 78/328 (23%), Positives = 138/328 (42%), Gaps = 24/328 (7%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRES 236
           L +G     +    + PVG   L R+ +  G  ID ++        +V +  P +  R S
Sbjct: 58  LARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDRREPPKDVEWRSVHQAPPTLTRRSS 117

Query: 237 VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIGQ 295
            +E   TGIK+ID ++P+ +G +  + G    GKT +  + I N       + I+  IG+
Sbjct: 118 KSEVFETGIKAIDVLVPLERGGKAGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCGIGE 177

Query: 296 KISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLII 354
           +      +  ++K    +D TV+V     +    ++   +T  T+ EYFR D  QD L++
Sbjct: 178 RCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRDDEKQDVLLL 237

Query: 355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNN 414
            D++ +   A  ++S LL + P R  +   +    + L ER             I   ++
Sbjct: 238 IDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELEER-------------IATTSD 284

Query: 415 GTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS-----R 469
           G +T+   +     D T     +  S     + L     +    PAI+   S S      
Sbjct: 285 GAITSIQAVYVPADDFTDPAAVHTFSHLSASLVLSRKRASEGLYPAIDPLQSTSKMATPG 344

Query: 470 VGGAAQYKIVKKLSGDIRIMLAQYRELE 497
           + G   Y + ++    +R  LAQY EL+
Sbjct: 345 IVGERHYDLARE----VRQTLAQYEELK 368

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

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

 Score = 74.8 bits (184), Expect = 1e-15
 Identities = 53/194 (27%), Positives = 80/194 (41%), Gaps = 35/194 (18%)

Query: 259 RELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVV 318
             L+ G   +GKTT+A+   +N   K    +YV I ++I  L   +        +D  ++
Sbjct: 1   LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLII 60

Query: 319 VAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGR 378
           V ATA D AA + +S        E  R+ G D LII D+LT+   A R+I         R
Sbjct: 61  VFATADDPAAARLLS------KAERLRERGGDDLIILDELTRLVRALREI---------R 105

Query: 379 EAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT----SFI 434
           E +PG++      LLER+                  G +T    ++   GD      +  
Sbjct: 106 EGYPGELDEELRELLERA----------------RKGGVTVIFTLQVPSGDKGDPRLTRG 149

Query: 435 PTNVISITDGQIFL 448
             N+  I D  I L
Sbjct: 150 AQNLEDIADTVIVL 163

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

 Score = 81.2 bits (200), Expect = 1e-15
 Identities = 67/242 (27%), Positives = 105/242 (43%), Gaps = 27/242 (11%)

Query: 698 NMMELIRNIAIEHKGCS-------VFIGVGERSREGNDFYHE---MKESN----VLDKVS 743
           NM  L+ N   +H+          ++IG GER  E  D   E   +K+      ++++  
Sbjct: 662 NMPTLLHNTVTQHQLAKWSDAQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTV 721

Query: 744 LIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPS 803
           LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  E+S  L   P 
Sbjct: 722 LIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPG 781

Query: 804 AVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLD 856
             GY   LA ++ +  ER        S  + G+++ + A+  P  D ++P    T   + 
Sbjct: 782 EEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVK 841

Query: 857 STIVLSRQIAELGIYPAIDPLESYSKQLDPYI------VGEEHYKVANEVKFYLQKYKEL 910
               L   +A    +PAI+ L SYS  +D         V  E   + ++    LQK  EL
Sbjct: 842 VFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNVDPEWKAMRDKAMELLQKEAEL 901

Query: 911 KD 912
           ++
Sbjct: 902 QE 903

Length = 1017

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

 Score = 79.4 bits (197), Expect = 4e-15
 Identities = 66/196 (33%), Positives = 90/196 (45%), Gaps = 50/196 (25%)

Query: 221 RETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKT----TIAID 276
           R   EK+ P         EPL+TG + ID+  P+ KG    I G   +GKT     +A  
Sbjct: 199 RPYKEKLPP--------VEPLITGQRVIDTFFPVAKGGTAAIPGPFGSGKTVTQHQLA-- 248

Query: 277 TIINQKNKNV-ICIYVCIGQKISSLINVI------------NKLKYYNCMDYTVVVAAT- 322
                K  +  I IYV  G++ + +  V+              L     M+ TV++A T 
Sbjct: 249 -----KWADADIVIYVGCGERGNEMTEVLEEFPELIDPKTGRPL-----MERTVLIANTS 298

Query: 323 ----AADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGR 378
               AA  A     S YTG TI EY+RD+G D L++ D  ++ A A R+IS  L   PG 
Sbjct: 299 NMPVAAREA-----SIYTGITIAEYYRDMGYDVLLMADSTSRWAEALREISGRLEEMPGE 353

Query: 379 EAFPGDVFYLHSRLLE 394
           E +P    YL SRL E
Sbjct: 354 EGYPA---YLASRLAE 366

Length = 586

>gnl|CDD|180739 PRK06876, PRK06876, F0F1 ATP synthase subunit C; Validated

 Score = 70.7 bits (174), Expect = 4e-15
 Identities = 25/49 (51%), Positives = 32/49 (65%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
            AA+I +GLA++G  IG G+LGGK LE  +RQPEL   L  K F+  G
Sbjct: 9  AIAAAIAIGLAALGAAIGIGLLGGKFLEGAARQPELIPMLQTKMFIGAG 57

Length = 78

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

 Score = 77.5 bits (191), Expect = 1e-14
 Identities = 86/336 (25%), Positives = 147/336 (43%), Gaps = 42/336 (12%)

Query: 208 EFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQ 267
           EF   KKKF +     V    P + ++   N PLLTG + +D++ P  +G    I G   
Sbjct: 178 EFQGVKKKFSMLQTWPVRSPRP-VTEKLPANTPLLTGQRVLDALFPCVQGGTTAIPGAFG 236

Query: 268 TGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC---------MDYTVV 318
            GKT I+  ++    N + I +YV  G++ + +  V+                 M  T +
Sbjct: 237 CGKTVIS-QSLSKYSNSDAI-VYVGCGERGNEMAEVLMDFPELTMEVDGREESIMKRTTL 294

Query: 319 VAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGR 378
           VA T+    A +  S YTG T+ EYFRD+G +  ++ D  ++ A A R+IS  L   P  
Sbjct: 295 VANTSNMPVAAREASIYTGITLAEYFRDMGYNVSMMADSTSRWAEALREISGRLAEMPAD 354

Query: 379 EAFPGDVFYLHSRL---LERSSKINKYFLEKKKIFN-KNNGTLTAFPIIETLEGDVTSFI 434
             +P    YL +RL    ER+ ++       K + + +  G+++    +    GD +  +
Sbjct: 355 SGYPA---YLGARLASFYERAGRV-------KCLGSPEREGSVSIVGAVSPPGGDFSDPV 404

Query: 435 PTNVISITDGQIF--LDTNLFNSNYRPAINVGLSVSRVGGAAQ------YKIVKKLSGDI 486
            +  + I   Q+F  LD  L    + P++N  +S S+   A +      Y     L    
Sbjct: 405 TSATLGIV--QVFWGLDKKLAQRKHFPSVNWLISYSKYMRALEEFYEKFYPEFVPLRTKA 462

Query: 487 RIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISL 522
           + +L +  +L         + +V K  L   +KI+L
Sbjct: 463 KEILQEEEDLNEI------VQLVGKDALAETDKITL 492

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

 Score = 76.6 bits (189), Expect = 2e-14
 Identities = 85/314 (27%), Positives = 141/314 (44%), Gaps = 42/314 (13%)

Query: 199 LGRIVNSKGEFIDNK-------KKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSM 251
           LGR+VN+ GE ID K         + ++         P    R  V EPL  G++++++ 
Sbjct: 99  LGRVVNALGEPIDGKGPLPQGPVPYPLRAP------PPPAHSRARVGEPLDLGVRALNTF 152

Query: 252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYN 311
           +   +GQR  I      GK+ + +  +    + +V  I + IG++   +   +       
Sbjct: 153 LTCCRGQRMGIFAGSGVGKSVL-LSMLARNADADVSVIGL-IGERGREVQEFLQDDLGPE 210

Query: 312 CMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLL 371
            +  +VVV AT+ + A  +  + Y    I EYFRD G+D L + D +T+ A A R+I L 
Sbjct: 211 GLARSVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLS 270

Query: 372 LRRPPGREAFPGDVFYLHSRLLERS--SKINKYFLEKKKIFNKNNGTLTA-FPIIETLEG 428
              PP  + +   VF    RLLER+    I +             GT+T  F ++  ++G
Sbjct: 271 AGEPPTTKGYTPTVFAELPRLLERAGPGPIGE-------------GTITGLFTVL--VDG 315

Query: 429 -DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR----VGGAAQYKIVKKLS 483
            D    +   V  I DG I ++  +      PAINV  SVSR         +  +V++  
Sbjct: 316 DDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKSVSRTMPGCNDPEENPLVRR-- 373

Query: 484 GDIRIMLAQYRELE 497
              R ++A Y ++E
Sbjct: 374 --ARQLMATYADME 385

Length = 442

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

 Score = 76.0 bits (188), Expect = 4e-14
 Identities = 88/287 (30%), Positives = 126/287 (43%), Gaps = 65/287 (22%)

Query: 666 LETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCS----VFIGVGE 721
           L TG +VID   P  KGG   + G  G GKTV        +A   K       +++G GE
Sbjct: 211 LITGQRVIDTFFPVAKGGTAAIPGPFGSGKTV----TQHQLA---KWADADIVIYVGCGE 263

Query: 722 RSREGNDFYHEMKESNVLDKVSLIYGQMNEP-SGNRL--R-----------VA------L 761
           R   GN    EM E  VL++    + ++ +P +G  L  R           VA       
Sbjct: 264 R---GN----EMTE--VLEE----FPELIDPKTGRPLMERTVLIANTSNMPVAAREASIY 310

Query: 762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
           TG++IAE +R+ G DVLL  D+  R+  A  E+S  L   P   GY   LA  + +  ER
Sbjct: 311 TGITIAEYYRDMGYDVLLMADSTSRWAEALREISGRLEEMPGEEGYPAYLASRLAEFYER 370

Query: 822 --ISSTKNGTITSVQAI-YV--PADDLTDPSPSTTFTHLDSTIV-----LSRQIAELGIY 871
                T  G   SV  I  V  P  D ++P    T       IV     L  ++A+   +
Sbjct: 371 AGRVKTLGGEEGSVTIIGAVSPPGGDFSEPVTQNTLR-----IVKVFWALDAELADRRHF 425

Query: 872 PAIDPLESYSK---QLDPYI---VGEEHYKVANEVKFYLQKYKELKD 912
           PAI+ L SYS    Q+ P+    V  +  ++ +E    LQ+  EL++
Sbjct: 426 PAINWLTSYSLYLDQVAPWWEENVDPDWRELRDEAMDLLQREAELQE 472

Length = 586

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

 Score = 73.9 bits (183), Expect = 1e-13
 Identities = 68/252 (26%), Positives = 106/252 (42%), Gaps = 75/252 (29%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
           E+ V  +  G+   IK    V  TG+ +  PVG+  LGR++N LG PID KG I + +  
Sbjct: 68  EDNVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLGQPIDGKGPIEATETR 127

Query: 648 PIHTLPP-----KFSNQIFNNNILETGIKVIDLLCPFLKGGKIG------LFGGAGVGKT 696
           P+    P     K  ++      L+TGIK ID + P      IG      + G    GKT
Sbjct: 128 PVERKAPGVIDRKSVHE-----PLQTGIKAIDAMIP------IGRGQRELIIGDRQTGKT 176

Query: 697 VNMMELIRNIAIE----HKG----CSVFIGVGERSREGNDFYHEMKESNVLDKVSLI--Y 746
                    IAI+     KG    C +++ +G+            K S V   V  +  +
Sbjct: 177 A--------IAIDTIINQKGKDVIC-IYVAIGQ------------KASTVAQVVRKLEEH 215

Query: 747 GQM----------NEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNI------YRFTLA 790
           G M          ++P+  +      G ++ E F ++GKD L+  D++      YR    
Sbjct: 216 GAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIVYDDLSKQAVAYR---- 271

Query: 791 GTEVSAMLGRTP 802
             ++S +L R P
Sbjct: 272 --QLSLLLRRPP 281

Length = 502

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

 Score = 73.1 bits (179), Expect = 4e-13
 Identities = 68/254 (26%), Positives = 115/254 (45%), Gaps = 14/254 (5%)

Query: 287 ICIYVCIGQKISSLINVIN---KLKYYNC----MDYTVVVAATAADSAAEQYISPYTGCT 339
           + IY+  G++ + + +V+    KLK        M+ TV++A T+    A +  S YTG T
Sbjct: 684 VVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGIT 743

Query: 340 IGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKI 399
           I EYFRD+G D  ++ D  ++ A A R+IS  L   PG E +P    YL S+L E   + 
Sbjct: 744 IAEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGYPA---YLASKLAEFYERA 800

Query: 400 NKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRP 459
            +         +   G+++    +    GD +  +  N + +      LD +L    + P
Sbjct: 801 GRVVTLGS---DYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVKVFWALDADLARRRHFP 857

Query: 460 AINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRE-LESFSKFSSDLDIVTKTQLYNGE 518
           AIN   S S    A +    K +  + + M  +  E L+  ++    + IV    L   E
Sbjct: 858 AINWLTSYSLYVDAVKDWWHKNVDPEWKAMRDKAMELLQKEAELQEIVRIVGPDALPERE 917

Query: 519 KISLLMKQKPHENY 532
           +  LL+ +   E+Y
Sbjct: 918 RAILLVARMLREDY 931

Length = 1017

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

 Score = 71.1 bits (175), Expect = 1e-12
 Identities = 72/286 (25%), Positives = 131/286 (45%), Gaps = 11/286 (3%)

Query: 597 GNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKF 656
           G+   I+  + V  TGK    PV +  LGR++N L  PID KGEI++ +   I +  P  
Sbjct: 56  GDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALAKPIDGKGEISASESRLIESPAPGI 115

Query: 657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVF 716
            ++      L+TG+  ID + P  +G +  + G    GKT    + I N   ++  C V+
Sbjct: 116 ISRRSVYEPLQTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVATDTILNQKGQNVIC-VY 174

Query: 717 IGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKD 776
           + +G+++         ++E   ++   ++    + P+  +     TG ++AE F   G+ 
Sbjct: 175 VAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRH 234

Query: 777 VLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMGKLQERISSTKNGT 829
            L+  D++ +   A  ++S +L R P    Y          L E   KL  ++     G+
Sbjct: 235 TLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSQLGE---GS 291

Query: 830 ITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           +T++  +   A D++   P+   +  D  I LS  +   GI PAI+
Sbjct: 292 MTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAIN 337

Length = 485

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

 Score = 71.2 bits (174), Expect = 1e-12
 Identities = 76/344 (22%), Positives = 151/344 (43%), Gaps = 29/344 (8%)

Query: 594 IAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPID------NKGEINSKKK- 646
           I   N   ++    V+ TGK +  PVG   LG+++N LG  +       ++  + S++  
Sbjct: 94  ILMDNITEVQSGQKVMATGKLLYIPVGAGVLGKVVNPLGHEVPVGLLTRSRALLESEQTL 153

Query: 647 SPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKT-------VNM 699
             +    P   ++   N  L TG K +D + P  +G +  + G    GKT       +N 
Sbjct: 154 GKVDAGAPNIVSRSPVNYNLLTGFKAVDTMIPIGRGQRELIVGDRQTGKTSIAVSTIINQ 213

Query: 700 MELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRV 759
           + + + I  ++   S+++ +G+R       +  ++    L   +++     EP+G +   
Sbjct: 214 VRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGLQYLA 273

Query: 760 ALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ 819
             +G+++ E F N G+  L   D++ +  +A  ++S +L R P    Y   +     +L 
Sbjct: 274 PYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQISLLLRRPPGREAYPGDVFYLHSRLL 333

Query: 820 ER---ISSTK-NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           ER   +S  K  G++T++  +   ++D+T    +   +  D  I L  ++   G  PA++
Sbjct: 334 ERAAMLSPGKGGGSVTALPIVETLSNDVTAYIVTNVISITDGQIYLDTKLFTGGQRPAVN 393

Query: 876 PLESYSKQLDPYIVGEEHYK-----VANEVKFYLQKYKELKDTS 914
              S S+      VG          VA ++K  L +Y++L   S
Sbjct: 394 IGLSVSR------VGSSAQNVAMKAVAGKLKGILAEYRKLAADS 431

Length = 574

>gnl|CDD|223709 COG0636, AtpE, F0F1-type ATP synthase, subunit c/Archaeal/vacuolar-type H+-ATPase, subunit K [Energy production and conversion]

 Score = 56.9 bits (138), Expect = 3e-10
 Identities = 20/49 (40%), Positives = 30/49 (61%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
          L  A + +GLA++G GIG GI+G   +E+++RQPE    L  K F+   
Sbjct: 10 LIGAGLAVGLAALGAGIGQGIIGAAAVEAVARQPEAAGKLFGKMFIGLA 58

Length = 79

>gnl|CDD|236447 PRK09280, PRK09280, F0F1 ATP synthase subunit beta; Validated

 Score = 61.3 bits (150), Expect = 1e-09
 Identities = 30/81 (37%), Positives = 39/81 (48%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRES 236
           L +G +   T     +PVG   LGRI N  GE ID K     + R  + + AP   +  +
Sbjct: 64  LVRGMEVIDTGAPISVPVGKATLGRIFNVLGEPIDEKGPIGAEERWPIHRKAPSFEELST 123

Query: 237 VNEPLLTGIKSIDSMIPIGKG 257
             E L TGIK ID + P  KG
Sbjct: 124 KTEILETGIKVIDLLAPYAKG 144

Length = 463

>gnl|CDD|130327 TIGR01260, ATP_synt_c, ATP synthase, F0 subunit c

 Score = 54.7 bits (132), Expect = 1e-09
 Identities = 22/39 (56%), Positives = 26/39 (66%)

Query: 16 ASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
          A+IG  IG GILGGK LES +RQPEL+  L    F+  G
Sbjct: 1  AAIGAAIGIGILGGKFLESAARQPELKPLLRTTMFIGMG 39

This model describes the subunit c in F1/F0-ATP synthase, a membrane associated multisubunit complex found in bacteria and organelles of higher eukaryotes, namely, mitochondria and chloroplast. This enzyme is principally involved in the synthesis of ATP from ADP and inorganic phosphate by coupling the energy derived from the proton electrochemical gradient across the biological membrane. A brief description of this multisubunit enzyme complex: F1 and F0 represent two major clusters of subunits. The functional role of subunit c, which is the part of F0 cluster, has been delineated in-vitro reconstitution experiments. Overall experimental proof exists that demonstrate the electrochemical gradient is converted into a rotational torque that leads to ATP synthesis [Energy metabolism, ATP-proton motive force interconversion]. Length = 58

>gnl|CDD|184065 PRK13464, PRK13464, F0F1 ATP synthase subunit C; Provisional

 Score = 54.6 bits (131), Expect = 3e-09
 Identities = 22/47 (46%), Positives = 34/47 (72%)

Query: 8  AASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
          A ++++ L ++GT IGFG+LGGK LE ++RQPEL   LL + F++  
Sbjct: 18 AVALLISLPALGTAIGFGVLGGKYLEGVARQPELGGMLLGRMFIVAA 64

Length = 101

>gnl|CDD|237150 PRK12608, PRK12608, transcription termination factor Rho; Provisional

 Score = 58.9 bits (143), Expect = 5e-09
 Identities = 61/250 (24%), Positives = 105/250 (42%), Gaps = 38/250 (15%)

Query: 666 LETG-----IKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVF-IGV 719
           LETG     ++V+DL+ P  KG +  +      GKTV + ++   +A  H    +  + +
Sbjct: 112 LETGSDDLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLI 171

Query: 720 GERSREGNDFYHEMKESNVLDKVSLIYGQMN-EPSGNRLRVALTGLSIAEEFRNSGKDVL 778
            ER  E  D    +K          +Y      P    +RVA   L  A+     GKDV+
Sbjct: 172 DERPEEVTDMRRSVK--------GEVYASTFDRPPDEHIRVAELVLERAKRLVEQGKDVV 223

Query: 779 LFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN----GTITSVQ 834
           + +D++ R   A        GRT S  G     A  + + +    + +N    G++T + 
Sbjct: 224 ILLDSLTRLARAYNNEVESSGRTLSG-GVD---ARALQRPKRLFGAARNIEEGGSLTIIA 279

Query: 835 AIYVP----ADDLTDPSPSTTFTHLDST----IVLSRQIAELGIYPAIDPLESYSKQLDP 886
              V      D++        F     T    IVL R++A+  ++PAID  +S +++ + 
Sbjct: 280 TALVDTGSRMDEV-------IFEEFKGTGNMEIVLDRELADKRVFPAIDIAKSGTRREEL 332

Query: 887 YIVGEEHYKV 896
            +  +E  KV
Sbjct: 333 LLDSKELEKV 342

Length = 380

>gnl|CDD|215848 pfam00306, ATP-synt_ab_C, ATP synthase alpha/beta chain, C terminal domain

 Score = 52.7 bits (127), Expect = 2e-08
 Identities = 19/101 (18%), Positives = 40/101 (39%), Gaps = 9/101 (8%)

Query: 480 KKLSGDIRIMLAQYRELESFSKF--SSDLDIVTKTQLYNGEKISLLMKQKPHENY----- 532
           K+++G +++ LAQYREL++  +      L    K  L    +I   +KQ  +        
Sbjct: 1   KQVAGQLKLELAQYRELQAIVQLVGEDALSEEDKLTLERARRIEEFLKQNQYSPEPVEKQ 60

Query: 533 --SIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRII 571
              + E I +   +    F  +P   +       +  ++ +
Sbjct: 61  YVPVEETIDLFYALLRGKFDDLPEDALYRIGTIDLAKYKDL 101

Length = 110

>gnl|CDD|215743 pfam00137, ATP-synt_C, ATP synthase subunit C

 Score = 51.3 bits (124), Expect = 2e-08
 Identities = 17/36 (47%), Positives = 24/36 (66%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPEL 41
             A + +GLA++G GIG GI G   +E+I+R PEL
Sbjct: 3  ALGAGLAIGLAALGAGIGIGIAGAAAIEAIARNPEL 38

Length = 66

>gnl|CDD|177001 CHL00061, atpH, ATP synthase CF0 C subunit

 Score = 50.9 bits (122), Expect = 5e-08
 Identities = 19/39 (48%), Positives = 26/39 (66%)

Query: 5  PLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELEN 43
           + AA + +GLASIG G+G G   G+ +E I+RQPE E 
Sbjct: 9  SVIAAGLAVGLASIGPGVGQGTAAGQAVEGIARQPEAEG 47

Length = 81

>gnl|CDD|169138 PRK07874, PRK07874, F0F1 ATP synthase subunit C; Validated

 Score = 48.3 bits (115), Expect = 3e-07
 Identities = 21/43 (48%), Positives = 28/43 (65%)

Query: 9  ASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
           ++  GLA+IG GIG GI+ GK LE ++RQPE+   L    FL
Sbjct: 19 GAVGYGLAAIGPGIGVGIVVGKALEGMARQPEMAGQLRTTMFL 61

Length = 80

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

 Score = 47.5 bits (114), Expect = 5e-07
 Identities = 13/53 (24%), Positives = 21/53 (39%), Gaps = 9/53 (16%)

Query: 569 RIINLKNNISINK---------VQQQIGENIVRTIAFGNTNGIKRNTIVVDTG 612
           R+  L N + +               +G + VR +  G T+G+ R   V  TG
Sbjct: 17  RLPGLYNALEVELVEFGNGLLGEVLNLGGDKVRVVVMGGTDGLSRGDEVKRTG 69

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

>gnl|CDD|180303 PRK05880, PRK05880, F0F1 ATP synthase subunit C; Validated

 Score = 47.9 bits (114), Expect = 6e-07
 Identities = 17/49 (34%), Positives = 26/49 (53%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
          L    ++M   +IG GIG G+ G  L+  ++RQPE +  L    F+  G
Sbjct: 10 LIGGGLIMAGGAIGAGIGDGVAGNALISGVARQPEAQGRLFTPFFITVG 58

Length = 81

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

 Score = 52.3 bits (126), Expect = 7e-07
 Identities = 64/269 (23%), Positives = 110/269 (40%), Gaps = 36/269 (13%)

Query: 191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRET---------VEKIAPGIMDRESVNEPL 241
           ++     LLGR  N  G+ ID   +  ++             V++I P  M R       
Sbjct: 75  QVTYSESLLGRRFNGSGKPIDGGPE--LEGEPIEIGGPSVNPVKRIVPREMIR------- 125

Query: 242 LTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAI-DTIINQKNKNVICIYVCIGQKISSL 300
            TGI  ID    + + Q+  I     +G+   A+   I  Q   ++I I   +G      
Sbjct: 126 -TGIPMIDVFNTLVESQKIPIFSV--SGEPYNALLARIALQAEADII-ILGGMGLTFDDY 181

Query: 301 INVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLT 359
           +   +  +    +D TV+   TA+D   E  + P     + E F  +  +  L++  D+T
Sbjct: 182 LFFKDTFENAGALDRTVMFIHTASDPPVECLLVPDMALAVAEKFALEGKKKVLVLLTDMT 241

Query: 360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
             A A ++IS+ + + P    +PG    L+S L  R  K   +         ++ G++T 
Sbjct: 242 NFADALKEISITMDQIPSNRGYPGS---LYSDLASRYEKAVDF---------EDGGSITI 289

Query: 420 FPIIETLEGDVTSFIPTNVISITDGQIFL 448
             +      DVT  +P N   IT+GQ +L
Sbjct: 290 IAVTTMPGDDVTHPVPDNTGYITEGQFYL 318

Length = 436

>gnl|CDD|224127 COG1206, Gid, NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]

 Score = 48.5 bits (116), Expect = 1e-05
 Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 1/78 (1%)

Query: 92  GLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFD-PRCLNQTLNIKFANNTVLSG 150
           G  T L    QK++ + I GL  +  +R+       + + P+ L+ TL +K   N   +G
Sbjct: 282 GFQTHLKWGEQKRVFRMIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAG 341

Query: 151 QINGTTGYEEAAAQGFVA 168
           QI G  GY E+AA G +A
Sbjct: 342 QITGVEGYVESAASGLLA 359

Length = 439

>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

 Score = 46.9 bits (112), Expect = 2e-05
 Identities = 59/226 (26%), Positives = 92/226 (40%), Gaps = 39/226 (17%)

Query: 671 KVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDF 729
           +V+DL  P  KG +  +      GKT  +  +   I   H    + +  + ER  E  D 
Sbjct: 5   RVVDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTD- 63

Query: 730 YHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL 789
              M+ S    K  +I    +EP    ++VA   L  A+     GKDV++ +D+I R   
Sbjct: 64  ---MQRSV---KGEVIASTFDEPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLAR 117

Query: 790 AGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN----GTITSVQAIYVPADDLTD 845
           A   V    G+  S  G        + K +    + +N    G++T      + A  L D
Sbjct: 118 AYNTVVPPSGKILSG-GVDAN---ALHKPKRFFGAARNIEEGGSLT------IIATALVD 167

Query: 846 PSPSTTFTHLDSTI------------VLSRQIAELGIYPAIDPLES 879
                T + +D  I            VL R++AE  I+PAID L+S
Sbjct: 168 -----TGSRMDDVIFEEFKGTGNMELVLDRRLAERRIFPAIDILKS 208

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. Length = 249

>gnl|CDD|180942 PRK07354, PRK07354, F0F1 ATP synthase subunit C; Validated

 Score = 42.9 bits (101), Expect = 3e-05
 Identities = 19/37 (51%), Positives = 26/37 (70%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELE 42
          + AA++ +GLA+IG GIG G   G  +E I+RQPE E
Sbjct: 10 VVAAALAVGLAAIGPGIGQGNAAGGAVEGIARQPEAE 46

Length = 81

>gnl|CDD|224080 COG1158, Rho, Transcription termination factor [Transcription]

 Score = 46.9 bits (112), Expect = 3e-05
 Identities = 69/289 (23%), Positives = 107/289 (37%), Gaps = 72/289 (24%)

Query: 624 LGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIK-------VIDLL 676
           L ++  V GD  +      +K +     L P + N+      LE           VIDL+
Sbjct: 116 LLKVEAVNGDDPEK-----AKNRVLFENLTPLYPNERLK---LERENGSTDLSTRVIDLI 167

Query: 677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDFYHEMKE 735
            P  KG +  +      GKT  +  +   I   H  C + +  + ER  E  D    M+ 
Sbjct: 168 SPIGKGQRGLIVAPPKAGKTTLLQNIANAITTNHPECELIVLLIDERPEEVTD----MQR 223

Query: 736 SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVS 795
           S    K  ++    +EP    ++VA   +  A+     GKDV++ +D+I R   A   V 
Sbjct: 224 SV---KGEVVASTFDEPPSRHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVV 280

Query: 796 AMLGRT------PSAVGYQPTL-------AEEMGKLQERISSTKNGTITSVQAIYVPADD 842
              G+        +A+ ++P          EE G L          TI         A  
Sbjct: 281 PSSGKVLSGGVDANAL-HRPKRFFGAARNIEEGGSL----------TII--------ATA 321

Query: 843 LTDPSPSTTFTHLDSTI------------VLSRQIAELGIYPAIDPLES 879
           L D     T + +D  I             L R++AE  I+PAID  +S
Sbjct: 322 LVD-----TGSRMDEVIFEEFKGTGNMELHLDRKLAERRIFPAIDINKS 365

Length = 422

>gnl|CDD|184069 PRK13471, PRK13471, F0F1 ATP synthase subunit C; Provisional

 Score = 42.5 bits (100), Expect = 4e-05
 Identities = 15/43 (34%), Positives = 28/43 (65%)

Query: 9  ASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
          A + MG+ +IG GIG G +G   +++++RQPE+  ++  +  L
Sbjct: 20 AGLCMGIGAIGPGIGEGNIGAHAMDAMARQPEMVGTITTRMLL 62

Length = 85

>gnl|CDD|172066 PRK13466, PRK13466, F0F1 ATP synthase subunit C; Provisional

 Score = 41.9 bits (98), Expect = 5e-05
 Identities = 17/43 (39%), Positives = 27/43 (62%)

Query: 9  ASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
           ++ +GLA +G  IG G+L    L S +RQPE+++ L+   FL
Sbjct: 4  GALALGLACLGVSIGEGLLVASYLSSTARQPEMQSKLMAGVFL 46

Length = 66

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

 Score = 46.1 bits (110), Expect = 7e-05
 Identities = 72/280 (25%), Positives = 112/280 (40%), Gaps = 55/280 (19%)

Query: 625 GRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFN-----------NNILETGIKVI 673
           G+I+++ G+ I  + +    KK   +T      + IFN           N  L TGI  I
Sbjct: 81  GKIIDIDGNIIYPEAQNPLSKKFLPNT------SSIFNLAHGLMTVKTLNEQLYTGIIAI 134

Query: 674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM 733
           DLL P  KG +  + G    GKT   +  I N    +  C +++ +G++    +  Y  +
Sbjct: 135 DLLIPIGKGQRELIIGDRQTGKTHIALNTIINQKNTNVKC-IYVAIGQKRENLSRIYETL 193

Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALT---GLSIAEEFRNSGKDVLLFID------NI 784
           KE + L    +I    + PS +     L     ++ AE    +  DVL+  D      NI
Sbjct: 194 KEHDALKNTIII----DAPSTSPYEQYLAPYVAMAHAENISYN-DDVLIVFDDLTKHANI 248

Query: 785 YRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM--------GKLQERISSTKNG-TITSVQA 835
           YR      E++ +  +        P   E           KL ER    KN  TIT++  
Sbjct: 249 YR------EIALLTNK--------PVGKEAFPGDMFFAHSKLLERAGKFKNRKTITALPI 294

Query: 836 IYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           +    +D+T    S   +  D  IV S  +   G  PAID
Sbjct: 295 LQTVDNDITSLISSNIISITDGQIVTSSDLFASGKLPAID 334

Length = 507

>gnl|CDD|129243 TIGR00137, gid_trmFO, tRNA:m(5)U-54 methyltransferase

 Score = 45.7 bits (108), Expect = 8e-05
 Identities = 21/78 (26%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 92  GLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFD-PRCLNQTLNIKFANNTVLSG 150
           G  T+L    QK++ + I GL  +  +R        + + P+ L  +L+ K       +G
Sbjct: 277 GFQTNLRWGEQKRVFRLIPGLENAEFVRMGVMHRNTFINSPQLLTASLHFKDRQTLFFAG 336

Query: 151 QINGTTGYEEAAAQGFVA 168
           Q+ G  GY  + A G++A
Sbjct: 337 QLTGVEGYVASTAGGWLA 354

This model represents an orthologous set of proteins present in relatively few bacteria but very tightly conserved where it occurs. It is closely related to gidA (glucose-inhibited division protein A), which appears to be present in all complete eubacterial genomes so far and in Saccharomyces cerevisiae. It was designated gid but is now recognized as a tRNA:m(5)U-54 methyltransferase and is now designated trmFO [Protein synthesis, tRNA and rRNA base modification]. Length = 433

>gnl|CDD|162030 TIGR00767, rho, transcription termination factor Rho

 Score = 45.4 bits (108), Expect = 1e-04
 Identities = 61/270 (22%), Positives = 110/270 (40%), Gaps = 36/270 (13%)

Query: 624 LGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETG-----IKVIDLLCP 678
           L ++ +V GD  +      +K +     L P + N+      LET       +V+DL  P
Sbjct: 113 LLKVESVNGDDPEK-----AKNRVLFENLTPLYPNERLR---LETSTEDLSTRVLDLFAP 164

Query: 679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDFYHEMKESN 737
             KG +  +      GKTV + ++ + I   H    + +  + ER  E  D    M+ S 
Sbjct: 165 IGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTD----MQRSV 220

Query: 738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAM 797
              K  ++    +EP+   ++VA   +  A+      KDV++ +D+I R   A   V+  
Sbjct: 221 ---KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPA 277

Query: 798 LGRTPSAVGYQPTLAEEMGKLQERISSTKN----GTITSVQAIYVPADDLTDPSPSTTFT 853
            G+  S  G        + + +    + +N    G++T +    +      D      F 
Sbjct: 278 SGKVLSG-GVDAN---ALHRPKRFFGAARNIEEGGSLTIIATALIDTGSRMD---EVIFE 330

Query: 854 HLDST----IVLSRQIAELGIYPAIDPLES 879
               T    + L R++A+  I+PAID  +S
Sbjct: 331 EFKGTGNMELHLDRKLADRRIFPAIDIKKS 360

This RNA helicase, the transcription termination factor Rho, occurs in nearly all bacteria but is missing from the Cyanobacteria, the Mollicutes (Mycoplasmas), and various Lactobacillales including Streptococcus. It is also missing, of course, from the Archaea, which also lack Nus factors. Members of this family from Micrococcus luteus, Mycobacterium tuberculosis, and related species have a related but highly variable long, highly charged insert near the amino end. Members of this family differ in the specificity of RNA binding [Transcription, Transcription factors]. Length = 415

>gnl|CDD|214349 CHL00060, atpB, ATP synthase CF1 beta subunit

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 60/233 (25%), Positives = 96/233 (41%), Gaps = 39/233 (16%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AV +     L +G +   T     +PVG   LGRI N  GE +DN      +    + + 
Sbjct: 72  AVAMSATDGLMRGMEVIDTGAPLSVPVGGATLGRIFNVLGEPVDNLGPVDTRTTSPIHRS 131

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNV 286
           AP  +  ++      TGIK +D + P  +G +  + G    GKT + ++ I N  K    
Sbjct: 132 APAFIQLDTKLSIFETGIKVVDLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGG 191

Query: 287 ICIYVCIGQ------------KISSLINVINKLKY------YNCMDYT----VVVAATAA 324
           + ++  +G+            K S +IN  N +        Y  M+      + V  TA 
Sbjct: 192 VSVFGGVGERTREGNDLYMEMKESGVINEQN-IAESKVALVYGQMNEPPGARMRVGLTAL 250

Query: 325 DSAAEQYISPYTGCTIGEYFRDLG-QDCLIIYDDLTKHAWAYRQISLLLRRPP 376
                         T+ EYFRD+  QD L+  D++ +   A  ++S LL R P
Sbjct: 251 --------------TMAEYFRDVNKQDVLLFIDNIFRFVQAGSEVSALLGRMP 289

Length = 494

>gnl|CDD|235416 PRK05335, PRK05335, tRNA (uracil-5-)-methyltransferase Gid; Reviewed

 Score = 43.6 bits (104), Expect = 4e-04
 Identities = 27/81 (33%), Positives = 41/81 (50%), Gaps = 7/81 (8%)

Query: 92  GLSTSLSLENQKKLIKKITGLNYSSIIRFAY---NIEYDYFD-PRCLNQTLNIKFANNTV 147
           G  T L    QK++ + I GL  +  +R+     N    + + P+ L+ TL +K   N  
Sbjct: 278 GFQTKLKWGEQKRVFRMIPGLENAEFVRYGVMHRN---TFINSPKLLDPTLQLKKRPNLF 334

Query: 148 LSGQINGTTGYEEAAAQGFVA 168
            +GQI G  GY E+AA G +A
Sbjct: 335 FAGQITGVEGYVESAASGLLA 355

Length = 436

>gnl|CDD|184068 PRK13469, PRK13469, F0F1 ATP synthase subunit C; Provisional

 Score = 39.3 bits (92), Expect = 5e-04
 Identities = 20/45 (44%), Positives = 26/45 (57%), Gaps = 2/45 (4%)

Query: 8  AASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLI 52
           A I   LA IG GIG GI  GK +E++ RQPE    ++  T L+
Sbjct: 14 GAGIAA-LAGIGAGIGIGIATGKAVEAVGRQPEASGKIM-STMLL 56

Length = 79

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 40.0 bits (93), Expect = 0.001
 Identities = 29/120 (24%), Positives = 42/120 (35%), Gaps = 17/120 (14%)

Query: 681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD 740
            G  I + G  G GKT     L R +     G  V    GE   E            VLD
Sbjct: 1   PGEVILIVGPPGSGKTTLARALARELGPPGGG--VIYIDGEDILEE-----------VLD 47

Query: 741 KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGR 800
           ++ LI     + SG+        L++A + +      +L +D I     A  E   +L  
Sbjct: 48  QLLLIIVGGKKASGSGELRLRLALALARKLKPD----VLILDEITSLLDAEQEALLLLLE 103

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. Length = 148

>gnl|CDD|162030 TIGR00767, rho, transcription termination factor Rho

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 43/160 (26%), Positives = 73/160 (45%), Gaps = 19/160 (11%)

Query: 218 IKNRETVEKIAPGIMDR----ESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI 273
            KNR   E + P   +     E+  E L T +  +D   PIGKGQR LI+   + GKT +
Sbjct: 127 AKNRVLFENLTPLYPNERLRLETSTEDLSTRV--LDLFAPIGKGQRGLIVAPPKAGKTVL 184

Query: 274 --AIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQY 331
              I   I + +  V  I + I ++   + ++   +K         VVA+T  D  A ++
Sbjct: 185 LQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVK-------GEVVAST-FDEPASRH 236

Query: 332 ISPYTGCTIGEYFR--DLGQDCLIIYDDLTKHAWAYRQIS 369
           +       I +  R  +  +D +I+ D +T+ A AY  ++
Sbjct: 237 VQ-VAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVT 275

This RNA helicase, the transcription termination factor Rho, occurs in nearly all bacteria but is missing from the Cyanobacteria, the Mollicutes (Mycoplasmas), and various Lactobacillales including Streptococcus. It is also missing, of course, from the Archaea, which also lack Nus factors. Members of this family from Micrococcus luteus, Mycobacterium tuberculosis, and related species have a related but highly variable long, highly charged insert near the amino end. Members of this family differ in the specificity of RNA binding [Transcription, Transcription factors]. Length = 415

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 41.4 bits (98), Expect = 0.002
 Identities = 20/37 (54%), Positives = 25/37 (67%), Gaps = 2/37 (5%)

Query: 238 NEP-LLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI 273
            EP  LT  + ID ++PIGKGQR LI+   + GKTTI
Sbjct: 397 TEPKKLTT-RVIDLIMPIGKGQRGLIVSPPKAGKTTI 432

Length = 672

>gnl|CDD|238548 cd01128, rho_factor, Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

 Score = 40.0 bits (94), Expect = 0.003
 Identities = 34/131 (25%), Positives = 61/131 (46%), Gaps = 23/131 (17%)

Query: 248 IDSMIPIGKGQRELIIGDRQTGKTTI--AIDTIINQKNKNVICIYVCIGQKISSLINVIN 305
           +D   PIGKGQR LI+   + GKTT+  +I   I + +  V  I + I ++   + ++  
Sbjct: 7   VDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQR 66

Query: 306 KLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEY-------FRDLGQDCLIIYDDL 358
            +K         V+A+T  D   E+++       + E          + G+D +I+ D +
Sbjct: 67  SVK-------GEVIAST-FDEPPERHVQ------VAEMVLEKAKRLVEHGKDVVILLDSI 112

Query: 359 TKHAWAYRQIS 369
           T+ A AY  + 
Sbjct: 113 TRLARAYNTVV 123

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. Length = 249

>gnl|CDD|224080 COG1158, Rho, Transcription termination factor [Transcription]

 Score = 40.3 bits (95), Expect = 0.003
 Identities = 28/87 (32%), Positives = 42/87 (48%), Gaps = 10/87 (11%)

Query: 218 IKNRETVEKIAPG------IMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKT 271
            KNR   E + P        ++RE+ +  L T +  ID + PIGKGQR LI+   + GKT
Sbjct: 130 AKNRVLFENLTPLYPNERLKLERENGSTDLSTRV--IDLISPIGKGQRGLIVAPPKAGKT 187

Query: 272 TI--AIDTIINQKNKNVICIYVCIGQK 296
           T+   I   I   +     I + I ++
Sbjct: 188 TLLQNIANAITTNHPECELIVLLIDER 214

Length = 422

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	915
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	100.0
CHL00059	485	atpA ATP synthase CF1 alpha subunit	100.0
COG0056	504	AtpA F0F1-type ATP synthase, alpha subunit [Energy	100.0
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	100.0
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	100.0
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	100.0
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	100.0
PTZ00185	574	ATPase alpha subunit; Provisional	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
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	100.0
CHL00060	494	atpB ATP synthase CF1 beta subunit	100.0
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	100.0
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	100.0
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	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
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	100.0
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	100.0
PRK06936	439	type III secretion system ATPase; Provisional	100.0
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	100.0
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	100.0
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	100.0
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	100.0
PRK02118	436	V-type ATP synthase subunit B; Provisional	100.0
CHL00060	494	atpB ATP synthase CF1 beta subunit	100.0
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	100.0
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	100.0
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	100.0
PRK04196	460	V-type ATP synthase subunit B; Provisional	100.0
PTZ00185	574	ATPase alpha subunit; Provisional	100.0
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	100.0
CHL00059	485	atpA ATP synthase CF1 alpha subunit	100.0
PRK06936	439	type III secretion system ATPase; Provisional	100.0
PRK06820	440	type III secretion system ATPase; Validated	100.0
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	100.0
PRK09099	441	type III secretion system ATPase; Provisional	100.0
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	100.0
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	100.0
PRK13343	502	F0F1 ATP synthase subunit alpha; Provisional	100.0
PRK07594	433	type III secretion system ATPase SsaN; Validated	100.0
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	100.0
TIGR00962	501	atpA proton translocating ATP synthase, F1 alpha s	100.0
PRK07165	507	F0F1 ATP synthase subunit alpha; Validated	100.0
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	100.0
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	100.0
PRK08472	434	fliI flagellum-specific ATP synthase; Validated	100.0
PRK08149	428	ATP synthase SpaL; Validated	100.0
PRK04192	586	V-type ATP synthase subunit A; Provisional	100.0
TIGR01043	578	ATP_syn_A_arch ATP synthase archaeal, A subunit. A	100.0
PRK07960	455	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
PRK02118	436	V-type ATP synthase subunit B; Provisional	100.0
PRK05922	434	type III secretion system ATPase; Validated	100.0
TIGR01042	591	V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit. Th	100.0
PRK04192	586	V-type ATP synthase subunit A; Provisional	100.0
PRK09099	441	type III secretion system ATPase; Provisional	100.0
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06820	440	type III secretion system ATPase; Validated	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
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	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
PRK07594	433	type III secretion system ATPase SsaN; Validated	100.0
TIGR03497	413	FliI_clade2 flagellar protein export ATPase FliI.	100.0
PRK07960	455	fliI flagellum-specific ATP synthase; Validated	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
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	100.0
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	100.0
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	100.0
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	100.0
COG1156	463	NtpB Archaeal/vacuolar-type H+-ATPase subunit B [E	100.0
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	100.0
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	100.0
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	100.0
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	100.0
TIGR02546	422	III_secr_ATP type III secretion apparatus H+-trans	100.0
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	100.0
TIGR01026	440	fliI_yscN ATPase FliI/YscN family. This family of	100.0
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06315	442	type III secretion system ATPase; Provisional	100.0
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	100.0
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	100.0
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	100.0
COG0056	504	AtpA F0F1-type ATP synthase, alpha subunit [Energy	100.0
KOG1351|consensus	489		100.0
PRK07721	438	fliI flagellum-specific ATP synthase; Validated	100.0
PRK06315	442	type III secretion system ATPase; Provisional	100.0
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	100.0
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	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
KOG1350|consensus	521		100.0
PRK12608	380	transcription termination factor Rho; Provisional	100.0
PRK14698	1017	V-type ATP synthase subunit A; Provisional	100.0
COG1156	463	NtpB Archaeal/vacuolar-type H+-ATPase subunit B [E	100.0
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	100.0
PRK09376	416	rho transcription termination factor Rho; Provisio	100.0
PRK12678	672	transcription termination factor Rho; Provisional	100.0
PRK12608	380	transcription termination factor Rho; Provisional	100.0
KOG1350|consensus	521		100.0
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	100.0
KOG1351|consensus	489		100.0
KOG1352|consensus	618		100.0
COG1155	588	NtpA Archaeal/vacuolar-type H+-ATPase subunit A [E	100.0
KOG1352|consensus	618		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
PRK12678	672	transcription termination factor Rho; Provisional	100.0
PRK09376	416	rho transcription termination factor Rho; Provisio	100.0
COG1158	422	Rho Transcription termination factor [Transcriptio	100.0
cd01128	249	rho_factor Transcription termination factor rho is	100.0
TIGR00767	415	rho transcription termination factor Rho. Members	100.0
COG0445	621	GidA Flavin-dependent tRNA uridine 5-carboxymethyl	100.0
PRK05192	618	tRNA uridine 5-carboxymethylaminomethyl modificati	100.0
cd01128	249	rho_factor Transcription termination factor rho is	100.0
KOG1353|consensus	340		100.0
KOG2311|consensus	679		100.0
TIGR00136	617	gidA glucose-inhibited division protein A. GidA, t	100.0
TIGR00137	433	gid_trmFO tRNA:m(5)U-54 methyltransferase. This mo	100.0
PF01134	392	GIDA: Glucose inhibited division protein A; InterP	100.0
COG1158	422	Rho Transcription termination factor [Transcriptio	100.0
PRK05335	436	tRNA (uracil-5-)-methyltransferase Gid; Reviewed	100.0
KOG1353|consensus	340		100.0
COG1206	439	Gid NAD(FAD)-utilizing enzyme possibly involved in	99.97
PRK05880	81	F0F1 ATP synthase subunit C; Validated	99.2
PRK06876	78	F0F1 ATP synthase subunit C; Validated	99.16
PRK13466	66	F0F1 ATP synthase subunit C; Provisional	99.1
PRK13464	101	F0F1 ATP synthase subunit C; Provisional	99.08
MTH00222	77	ATP9 ATP synthase F0 subunit 9; Provisional	99.07
PRK13467	66	F0F1 ATP synthase subunit C; Provisional	99.07
PRK07558	74	F0F1 ATP synthase subunit C; Validated	99.04
PRK08482	105	F0F1 ATP synthase subunit C; Validated	99.04
PRK07874	80	F0F1 ATP synthase subunit C; Validated	99.03
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	99.0
TIGR03322	86	alt_F1F0_F0_C alternate F1F0 ATPase, F0 subunit C.	98.99
CHL00061	81	atpH ATP synthase CF0 C subunit	98.97
PRK13471	85	F0F1 ATP synthase subunit C; Provisional	98.94
PRK13468	82	F0F1 ATP synthase subunit C; Provisional	98.93
PRK09302	509	circadian clock protein KaiC; Reviewed	98.87
PRK07354	81	F0F1 ATP synthase subunit C; Validated	98.87
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	98.86
PRK07159	100	F0F1 ATP synthase subunit C; Validated	98.82
PF00306	113	ATP-synt_ab_C: ATP synthase alpha/beta chain, C te	98.82
COG0636	79	AtpE F0F1-type ATP synthase, subunit c/Archaeal/va	98.74
PRK13469	79	F0F1 ATP synthase subunit C; Provisional	98.71
TIGR01260	58	ATP_synt_c ATP synthase, F0 subunit c. This model	98.68
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	98.62
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.99
PRK06251	102	V-type ATP synthase subunit K; Validated	97.95
PF00137	66	ATP-synt_C: ATP synthase subunit C; InterPro: IPR0	97.93
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.93
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.9
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	97.8
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	97.79
smart00382	148	AAA ATPases associated with a variety of cellular	97.72
PRK09302	509	circadian clock protein KaiC; Reviewed	97.59
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	97.56
PRK06067	234	flagellar accessory protein FlaH; Validated	97.53
PRK04328	249	hypothetical protein; Provisional	97.52
PRK14893	161	V-type ATP synthase subunit K; Provisional	97.5
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.49
PRK08344	157	V-type ATP synthase subunit K; Validated	97.47
cd01394	218	radB RadB. The archaeal protein radB shares simila	97.43
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.42
PRK09621	141	V-type ATP synthase subunit K; Provisional	97.39
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.38
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.38
PRK09354	349	recA recombinase A; Provisional	97.37
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.35
PRK06067	234	flagellar accessory protein FlaH; Validated	97.35
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.33
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.31
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	97.31
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	97.29
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	97.27
PRK09354	349	recA recombinase A; Provisional	97.23
PRK06558	159	V-type ATP synthase subunit K; Validated	97.23
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	97.23
cd00983	325	recA RecA is a bacterial enzyme which has roles in	97.23
PRK06271	213	V-type ATP synthase subunit K; Validated	97.19
PRK14893	161	V-type ATP synthase subunit K; Provisional	97.16
PRK06271	213	V-type ATP synthase subunit K; Validated	97.16
PRK04328	249	hypothetical protein; Provisional	97.15
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	97.15
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	97.15
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.14
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.11
KOG3025|consensus	137		97.09
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	97.08
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	97.03
TIGR02236	310	recomb_radA DNA repair and recombination protein R	97.01
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.98
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	96.94
PRK08533	230	flagellar accessory protein FlaH; Reviewed	96.93
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	96.91
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.91
smart00382	148	AAA ATPases associated with a variety of cellular	96.9
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.89
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.86
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.85
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.79
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.77
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	96.75
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.75
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	96.74
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.7
PRK09519	790	recA DNA recombination protein RecA; Reviewed	96.63
PRK04301	317	radA DNA repair and recombination protein RadA; Va	96.6
PRK11823	446	DNA repair protein RadA; Provisional	96.54
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	96.48
PF00154	322	RecA: recA bacterial DNA recombination protein; In	96.46
PRK06558	159	V-type ATP synthase subunit K; Validated	96.41
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.38
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	96.24
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	96.22
PTZ00035	337	Rad51 protein; Provisional	96.19
PRK11823	446	DNA repair protein RadA; Provisional	96.11
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.01
PF05729	166	NACHT: NACHT domain	95.98
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.98
PTZ00035	337	Rad51 protein; Provisional	95.97
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.92
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.83
PRK08344	157	V-type ATP synthase subunit K; Validated	95.83
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	95.78
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.67
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.5
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	95.5
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	95.45
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	95.41
COG2256	436	MGS1 ATPase related to the helicase subunit of the	95.31
KOG2028|consensus	554		95.28
PRK05973	237	replicative DNA helicase; Provisional	95.25
PF00004	132	AAA: ATPase family associated with various cellula	95.2
PF13173	128	AAA_14: AAA domain	95.19
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.9
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.88
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.84
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.81
PRK10416	318	signal recognition particle-docking protein FtsY;	94.68
PRK00411	394	cdc6 cell division control protein 6; Reviewed	94.66
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.63
PRK05973	237	replicative DNA helicase; Provisional	94.51
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.51
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	94.5
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	94.41
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	94.38
PRK14974	336	cell division protein FtsY; Provisional	94.34
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.25
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.21
PF02874	69	ATP-synt_ab_N: ATP synthase alpha/beta family, bet	94.15
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.14
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	94.14
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	94.14
PF13173	128	AAA_14: AAA domain	94.08
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	94.08
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	93.96
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	93.95
COG2256	436	MGS1 ATPase related to the helicase subunit of the	93.9
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	93.86
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	93.76
PRK08181	269	transposase; Validated	93.72
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	93.71
PRK09183	259	transposase/IS protein; Provisional	93.7
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	93.64
TIGR00959	428	ffh signal recognition particle protein. This mode	93.53
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	93.47
COG1484	254	DnaC DNA replication protein [DNA replication, rec	93.38
COG4619	223	ABC-type uncharacterized transport system, ATPase	93.33
PRK10867	433	signal recognition particle protein; Provisional	93.19
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	93.12
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	93.07
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	93.05
PRK12377	248	putative replication protein; Provisional	93.03
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	93.01
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	92.96
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	92.95
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	92.92
PRK13342	413	recombination factor protein RarA; Reviewed	92.88
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	92.88
TIGR00665	434	DnaB replicative DNA helicase. This model describe	92.85
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	92.85
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	92.84
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	92.83
COG3638	258	ABC-type phosphate/phosphonate transport system, A	92.83
PF05729	166	NACHT: NACHT domain	92.8
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	92.74
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	92.71
PF07088	484	GvpD: GvpD gas vesicle protein; InterPro: IPR00978	92.65
PRK05541	176	adenylylsulfate kinase; Provisional	92.64
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	92.62
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	92.61
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	92.5
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	92.49
TIGR00665	434	DnaB replicative DNA helicase. This model describe	92.47
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	92.45
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	92.45
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	92.34
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	92.31
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	92.3
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	92.27
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	92.27
PRK06921	266	hypothetical protein; Provisional	92.25
PRK09621	141	V-type ATP synthase subunit K; Provisional	92.24
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	92.22
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	92.2
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	92.19
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	92.18
PF13479	213	AAA_24: AAA domain	92.16
cd03269	210	ABC_putative_ATPase This subfamily is involved in	92.11
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	92.1
PRK06893	229	DNA replication initiation factor; Validated	92.06
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	92.04
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	92.03
PRK08727	233	hypothetical protein; Validated	92.02
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	92.01
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	92.0
PF00005	137	ABC_tran: ABC transporter This structure is on hol	91.99
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	91.98
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	91.98
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	91.95
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	91.94
PRK04296	190	thymidine kinase; Provisional	91.93
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	91.91
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	91.89
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	91.88
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	91.84
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	91.84
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	91.83
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	91.82
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	91.81
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	91.8
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	91.76
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	91.75
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	91.73
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	91.71
PRK00411	394	cdc6 cell division control protein 6; Reviewed	91.69
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	91.69
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	91.68
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	91.68
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	91.67
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	91.6
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	91.6
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	91.58
PRK14087	450	dnaA chromosomal replication initiation protein; P	91.58
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	91.58
PRK08118	167	topology modulation protein; Reviewed	91.57
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	91.54
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	91.53
PRK03846	198	adenylylsulfate kinase; Provisional	91.53
PRK04296	190	thymidine kinase; Provisional	91.51
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	91.51
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	91.51
PRK09435	332	membrane ATPase/protein kinase; Provisional	91.5
PRK11701	258	phnK phosphonate C-P lyase system protein PhnK; Pr	91.49
cd03246	173	ABCC_Protease_Secretion This family represents the	91.48
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	91.48
KOG0727|consensus	408		91.48
cd03216	163	ABC_Carb_Monos_I This family represents the domain	91.45
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	91.45
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	91.44
PRK14274	259	phosphate ABC transporter ATP-binding protein; Pro	91.41
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	91.4
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	91.39
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	91.39
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	91.38
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	91.37
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	91.33
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	91.3
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	91.28
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	91.28
PRK14240	250	phosphate transporter ATP-binding protein; Provisi	91.28
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	91.28
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	91.26
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	91.23
PRK06526	254	transposase; Provisional	91.23
cd03252	237	ABCC_Hemolysin The ABC-transporter hemolysin B is	91.18
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	91.14
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	91.13
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	91.11
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	91.11
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	91.1
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	91.1
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	91.08
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	91.08
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	91.07
PRK14255	252	phosphate ABC transporter ATP-binding protein; Pro	91.06
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	91.06
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	91.05
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	91.04
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	91.03
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	91.03
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	91.03
PRK05748	448	replicative DNA helicase; Provisional	90.99
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	90.99
PRK14086	617	dnaA chromosomal replication initiation protein; P	90.98
cd03215	182	ABC_Carb_Monos_II This family represents domain II	90.97
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	90.97
COG2874	235	FlaH Predicted ATPases involved in biogenesis of a	90.97
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	90.95
cd03249	238	ABC_MTABC3_MDL1_MDL2 MTABC3 (also known as ABCB6)	90.94
cd03290	218	ABCC_SUR1_N The SUR domain 1. The sulfonylurea rec	90.93
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	90.92
COG4987	573	CydC ABC-type transport system involved in cytochr	90.9
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	90.9
cd03248	226	ABCC_TAP TAP, the Transporter Associated with Anti	90.89
PRK08727	233	hypothetical protein; Validated	90.89
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	90.89
PRK07261	171	topology modulation protein; Provisional	90.87
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	90.83
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	90.79
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	90.79
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	90.78
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	90.78
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	90.78
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	90.77
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	90.77
PRK14241	258	phosphate transporter ATP-binding protein; Provisi	90.77
KOG0057|consensus	591		90.74
PRK15056	272	manganese/iron transporter ATP-binding protein; Pr	90.73
COG1127	263	Ttg2A ABC-type transport system involved in resist	90.72
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	90.71
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	90.7
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	90.7
PRK13646	286	cbiO cobalt transporter ATP-binding subunit; Provi	90.7
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	90.69
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	90.69
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	90.69
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	90.67
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	90.66
TIGR01618	220	phage_P_loop phage nucleotide-binding protein. Thi	90.65
PRK14273	254	phosphate ABC transporter ATP-binding protein; Pro	90.64
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	90.61
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	90.59
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	90.56
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	90.56
PRK14262	250	phosphate ABC transporter ATP-binding protein; Pro	90.55
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	90.55
PRK10908	222	cell division protein FtsE; Provisional	90.54
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	90.54
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	90.54
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	90.51
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	90.48
PRK13641	287	cbiO cobalt transporter ATP-binding subunit; Provi	90.47
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	90.46
PRK14248	268	phosphate ABC transporter ATP-binding protein; Pro	90.46
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	90.45
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	90.45
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	90.43
PRK14237	267	phosphate transporter ATP-binding protein; Provisi	90.42
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	90.41
CHL00181	287	cbbX CbbX; Provisional	90.41
PRK06649	143	V-type ATP synthase subunit K; Validated	90.4
PRK14239	252	phosphate transporter ATP-binding protein; Provisi	90.39
PRK14245	250	phosphate ABC transporter ATP-binding protein; Pro	90.38
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	90.38
PRK15093	330	antimicrobial peptide ABC transporter ATP-binding	90.34
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	90.33
PRK13645	289	cbiO cobalt transporter ATP-binding subunit; Provi	90.32
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	90.31
PRK14243	264	phosphate transporter ATP-binding protein; Provisi	90.29
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	90.28
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	90.28
PRK14266	250	phosphate ABC transporter ATP-binding protein; Pro	90.26
PRK14269	246	phosphate ABC transporter ATP-binding protein; Pro	90.25
PF13245	76	AAA_19: Part of AAA domain	90.25
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	90.25
PRK14238	271	phosphate transporter ATP-binding protein; Provisi	90.22
PRK14256	252	phosphate ABC transporter ATP-binding protein; Pro	90.22
PRK13649	280	cbiO cobalt transporter ATP-binding subunit; Provi	90.18
PRK00889	175	adenylylsulfate kinase; Provisional	90.17
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	90.16
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	90.16
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	90.16
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	90.13
COG4181	228	Predicted ABC-type transport system involved in ly	90.13
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	90.12
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	90.11
PRK14244	251	phosphate ABC transporter ATP-binding protein; Pro	90.11
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	90.1
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	90.09
PRK08084	235	DNA replication initiation factor; Provisional	90.08
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	90.07
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	90.04
cd03115	173	SRP The signal recognition particle (SRP) mediates	90.04
PF03796	259	DnaB_C: DnaB-like helicase C terminal domain; Inte	90.03
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	90.03
PRK10744	260	pstB phosphate transporter ATP-binding protein; Pr	90.02
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	90.02
PRK14261	253	phosphate ABC transporter ATP-binding protein; Pro	89.99
PRK13643	288	cbiO cobalt transporter ATP-binding subunit; Provi	89.98
PRK14272	252	phosphate ABC transporter ATP-binding protein; Pro	89.96

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=100.00  E-value=1.7e-106  Score=920.20  Aligned_cols=467  Identities=41%  Similarity=0.660  Sum_probs=431.7

Q ss_pred             CCHHHHHHHHHHhcCccc-eeeecceeEEE-------EeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccch
Q psy210           97 LSLENQKKLIKKITGLNY-SSIIRFAYNIE-------YDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA  168 (915)
Q Consensus        97 l~~~~q~~~~~~ipgl~~-a~~~r~g~~~~-------~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a  168 (915)
                      .+.+.-..+-+.|..++. .++..+|...+       -.-+....++|.+++.  ++  ..|+|.+.++  +    .+.+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~G~V~~v~g~ii~v~gl~~~~~gEl~~i~--~~--~~g~Vi~l~~--~----~v~~   73 (497)
T TIGR03324         4 VLDKAFQQLDQARESFQPQLTVQEVGTVESVSTGIARVHGLPGVGFEELLRFP--GG--LLGIAFNVDE--D----EVGV   73 (497)
T ss_pred             CHHHHHHHHHHHHHhcCCCcceeEEEEEEEEeceEEEEEccCCCCcCCEEEEC--CC--cEEEEEEEcC--C----eEEE
Confidence            333333334446666643 23444454333       3333456788999984  34  5789999998  3    3588


Q ss_pred             hhccccccccCCCcccccCccceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceee
Q psy210          169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSI  248 (915)
Q Consensus       169 ~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~ai  248 (915)
                      ++++.+.+++.|++|.+||+++++|+|+++||||+|++|+|||+++++....+++++.++|++++|.++++||+|||++|
T Consensus        74 ~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVvd~lG~PiDg~~~~~~~~~~~i~~~~p~~~~R~~v~epl~TGI~aI  153 (497)
T TIGR03324        74 VLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLGRPLDGGGPLASSPRLPIERPAPPIMDRAPVTVPLQTGLKVI  153 (497)
T ss_pred             EEecCCcCCcCCCEEEECCCCCeEECCHhhCcCEECCCCCCcCCCCCCCCCceeehhccCcCccccCCCCchhhcCCEEE
Confidence            89999999999999999999999999999999999999999999998887788999999999999999999999999999


Q ss_pred             eccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHH
Q psy210          249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAA  328 (915)
Q Consensus       249 D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~  328 (915)
                      |+|+|||||||++|||++|+|||+||++||+||+++|++|||++||||++||.+|++++++.++|+||++|++++|+||.
T Consensus       154 D~l~pigrGQR~~Ifg~~g~GKT~Lal~~I~~q~~~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~  233 (497)
T TIGR03324       154 DALIPIGRGQRELILGDRQTGKTAIAIDTILNQKGRNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPG  233 (497)
T ss_pred             eccCCcccCCEEEeecCCCCCHHHHHHHHHHHhcCCCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhh
Q psy210          329 EQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK  408 (915)
Q Consensus       329 ~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~  408 (915)
                      +|+++||+|||+||||||+|+|||++||||||||+||||||+++||||+++|||||+||+||||+||||++++..|    
T Consensus       234 ~r~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL~lgepPgr~gYPg~vF~~~srLlERag~~~~~~~----  309 (497)
T TIGR03324       234 LQYIAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIFYVHSRLLERSTHLNEELG----  309 (497)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCEEEEEcChhHHHHHHHHHHhhccCCCccCcCCccHHHHhHHHHHhhhhccCCCC----
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999865433    


Q ss_pred             hccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHH
Q psy210          409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRI  488 (915)
Q Consensus       409 ~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~  488 (915)
                           +||||+||+|++++||++|||||+++|||||||||||+||++||||||||+.|+||+|+++|.++|+++|+++|.
T Consensus       310 -----~GSITal~~V~~~~dD~s~pI~d~v~sItDGqIvLsr~La~~G~~PAIDv~~SvSRv~~~~~~~~~~~~a~~lr~  384 (497)
T TIGR03324       310 -----GGSLTALPIIETEAQNISAYIPTNLISITDGQIYLSPTLFELGVLPAVDVGKSVSRVGGKAQLAAYRAVAGDLKL  384 (497)
T ss_pred             -----CcceeEEEEEEcCCCCCCCcchHhheeccceEEEEcHHHHhCCCCCcCCCccccccCCccccCHHHHHHHHHHHH
Confidence                 799999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHH
Q psy210          489 MLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYF  568 (915)
Q Consensus       489 ~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~L  568 (915)
                      .|++|+|+++|+++|+.+|++++++|+++++|++||+|+.++++++++++..|+++.+|+||++|.+++..|+..+..|+
T Consensus       385 ~la~y~e~e~~~~~G~~ld~~~~~~i~~~~~i~~fL~Q~~~~~~~~~~~~~~l~~~~~g~~d~~~~~~v~~~~~~~~~~~  464 (497)
T TIGR03324       385 AYAQFEELETFARFGARLDENTRKTIEHGRRIRACLKQTQSSPLTVPQQIAILLALTNGLFDGVDLDAMPEAESAIRAAV  464 (497)
T ss_pred             HHHHHHHHHHHHHhhhhcCHHHHHHHHhHHHHHHHhCCCCCCCCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhcccccchhhhh
Q psy210          569 RIINLKNNISINKV  582 (915)
Q Consensus       569 r~~~~~lv~~i~ev  582 (915)
                      ++.+++..+.+.+.
T Consensus       465 ~~~~~~~~~~~~~~  478 (497)
T TIGR03324       465 TSLPADLRERLQSG  478 (497)
T ss_pred             HhhhHHHHHHHHhc
Confidence            99999888777654

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.

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=100.00  E-value=1.2e-106  Score=917.35  Aligned_cols=442  Identities=47%  Similarity=0.733  Sum_probs=423.3

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      ..++-.-++...+++.+++.  +|  ..|+|.+.++  +    .+.+++++.+.+++.|++|.+||+++++|+|+++|||
T Consensus        16 ~ii~v~Gl~~~~~ge~~~i~--~~--~~g~vi~~~~--~----~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGR   85 (485)
T CHL00059         16 GIARIYGLDEVMAGELVEFE--DG--TIGIALNLES--N----NVGVVLMGDGLMIQEGSSVKATGKIAQIPVSEAYLGR   85 (485)
T ss_pred             cEEEEeccccCCcCCEEEEC--CC--CEEEEEEEcC--C----EEEEEEeeCCCCCCCCCEEEECCCcceEEcCHhhcCC
Confidence            45555556677899999985  45  4789999997  3    3578899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+|++|+|||+++++....+++++.++|++++|.++++||+|||++||+|+|||||||++|||++|+|||+||++||+||
T Consensus        86 Vvd~lG~piDg~~~~~~~~~~~i~~~ap~~~~R~~v~epl~TGI~aID~l~pigrGQR~~I~g~~g~GKt~Lal~~I~~q  165 (485)
T CHL00059         86 VVNALAKPIDGKGEISASESRLIESPAPGIISRRSVYEPLQTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVATDTILNQ  165 (485)
T ss_pred             EECCCCCeeCCCCCcCCCccccccCCCCCchhccCCCcccccCceeeccccccccCCEEEeecCCCCCHHHHHHHHHHhc
Confidence            99999999999998877778899999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          282 KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       282 ~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      +++|++|||++||||++||.+|+++++++++|+||++|++++++||.+|+++||+|||+|||||++|+|||++|||||||
T Consensus       166 ~~~dv~cV~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~ap~~a~aiAEyfr~~G~~VLlv~DdlTr~  245 (485)
T CHL00059        166 KGQNVICVYVAIGQKASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLSKQ  245 (485)
T ss_pred             ccCCeEEEEEEecCCchHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHHHHHHHhhHHHHHHHcCCCEEEEEcChhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccc
Q psy210          362 AWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISI  441 (915)
Q Consensus       362 a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i  441 (915)
                      |+||||||+++||||+++|||||+||+||+|+||||++++..|         +||||++|+|++++||++|||||+++||
T Consensus       246 A~A~REisl~l~epPgr~gYP~~vF~~~srLlERag~~~~~~~---------~GSITal~~V~~~~dD~s~pI~~~v~sI  316 (485)
T CHL00059        246 AQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSQLG---------EGSMTALPIVETQAGDVSAYIPTNVISI  316 (485)
T ss_pred             HHHHHHHHHhcCCCCCcCCcCchHHHHhHHHHHhhhcccCCCC---------CcceEEEEEEEccCCCCCCcchHhhhhh
Confidence            9999999999999999999999999999999999999875444         7999999999999999999999999999


Q ss_pred             cCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHH
Q psy210          442 TDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKIS  521 (915)
Q Consensus       442 ~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~  521 (915)
                      |||||||||+||++||||||||+.|+||+|+++|.++|+++|.++|..|++|+|+++|+++++++|++++++|+++++|+
T Consensus       317 tDGqIvLsr~La~~G~~PAIDv~~SvSRvg~~aq~~~~~~~a~~lr~~la~y~e~e~~~~~~~~~d~~~~~~i~~~~~i~  396 (485)
T CHL00059        317 TDGQIFLSADLFNAGIRPAINVGISVSRVGSAAQIKAMKQVAGKLKLELAQFAELEAFAQFASDLDKATQNQLARGQRLR  396 (485)
T ss_pred             cceEEEEcHHHHhCCCCCCcCcccchhcCCchhhcHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHhHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          522 LLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       522 ~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      +||+|+.++++++++++.+++++.||+|++++.+++..|+..+++|+++++++.++.+.+.
T Consensus       397 ~~L~Q~~~~~~~~~e~~~~l~a~~~g~l~~~~~~~v~~~~~~l~~~~~~~~~~~~~~i~~~  457 (485)
T CHL00059        397 ELLKQSQSAPLTVEEQVATIYTGTNGYLDSLEIGQVRKFLVELRTYLKTNKPQFQEIISST  457 (485)
T ss_pred             HHhcCCCCCCCCHHHHHHHHHHhccCCcCccCHHHHHHHHHHHHHHHHhhhHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999999888777654

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

Probab=100.00  E-value=1.7e-106  Score=881.58  Aligned_cols=456  Identities=52%  Similarity=0.819  Sum_probs=429.9

Q ss_pred             cceeeecce-eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccce
Q psy210          113 NYSSIIRFA-YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFE  191 (915)
Q Consensus       113 ~~a~~~r~g-~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~  191 (915)
                      +.-+++..| +..+..=+++..++|.+++.  +|.  .|-....|      .+.+++.++++...++.|++|..||+.+.
T Consensus        27 ~~g~V~sv~DgIa~v~Gl~~~~~~E~~ef~--~~v--~G~alnle------~d~VG~vi~g~~~~i~eG~~v~~Tg~i~~   96 (504)
T COG0056          27 EVGTVISVGDGIARVSGLENVMAGELVEFP--GGV--KGMALNLE------EDSVGAVILGDYSDIKEGDEVKRTGRILE   96 (504)
T ss_pred             ccceEEEEecceEEEecCchhhcCceEEec--CCc--EEEEEecc------ccceeEEEecCCccccCCcEEEeeCceEE
Confidence            334455555 55566666788888988877  333  23333333      24568889999999999999999999999


Q ss_pred             eccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChh
Q psy210          192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKT  271 (915)
Q Consensus       192 vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt  271 (915)
                      +|+++.++|||+|.+|+|+|+++++....+.+++..+|+.++|+++++||+|||++||+|+|||||||++|+||++||||
T Consensus        97 Vpvg~~llGRVVn~lG~pidgkg~i~~~~~~~~e~~Apgv~~RksV~ePlqTGikaIDamiPIGRGQRELIIGDRQTGKT  176 (504)
T COG0056          97 VPVGEELLGRVVDALGNPIDGKGPIDATKTRPVEKKAPGVMDRKSVNEPLQTGIKAIDALIPIGRGQRELIIGDRQTGKT  176 (504)
T ss_pred             EecchhhcceeecCCCCccCCCCCccccccCccccccCceecccccCchhhhhhHHHhhhcccCCCceEEEeccCcCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcE
Q psy210          272 TIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDC  351 (915)
Q Consensus       272 ~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~V  351 (915)
                      ++|+++|+||++.+++|||++||||.+.+..+++.|+++|+|+||+||++++++|+.+||++||+|||+|||||++|+||
T Consensus       177 aIAidtIiNQk~~~v~CIYVAIGQK~stva~vv~tL~e~gAmdyTiVV~AsASd~a~lqYLaPy~g~a~aE~f~~~G~dv  256 (504)
T COG0056         177 AIAIDTIINQKGSGVKCIYVAIGQKRSTVANVVRTLEEHGAMDYTIVVAASASDSAPLQYLAPYAGCAMAEYFRDNGKDV  256 (504)
T ss_pred             hhhHHHHHhcccCCcEEEEEEcccchHHHHHHHHHHHHcCCccceEEEEecCCcchhhhhhhhhhhhHHHHHHHhcCCeE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCC
Q psy210          352 LIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT  431 (915)
Q Consensus       352 lv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~  431 (915)
                      |+||||||+||.|||||||+++||||||+||||+||+||||+|||+++++++|         +||||++|+++|.++|++
T Consensus       257 LIVyDDLsKhA~AYReiSLLlrRPPGREAyPGDVFYlHSrLLERAakl~~e~g---------~GSiTALPIIETqagDvS  327 (504)
T COG0056         257 LIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELG---------GGSITALPIIETQAGDVS  327 (504)
T ss_pred             EEEecCchHHHHHHHHHHHHhcCCCCccCCCCceeehhHHHHHHHHhhccccC---------CCceEeeeeEEeccCcee
Confidence            99999999999999999999999999999999999999999999999999888         899999999999999999


Q ss_pred             CccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHH
Q psy210          432 SFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTK  511 (915)
Q Consensus       432 ~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~  511 (915)
                      .+||+|++|||||||||+.+||++|+.||||+..||||+|+++|.+.++++++.||..|++|+|++.|++|+++||++++
T Consensus       328 AyIpTNVISITDGQIfl~t~LFn~G~rPAInvGlSVSRvGssAQ~kamkkvag~lrl~laqYrel~afsqf~sdLd~~T~  407 (504)
T COG0056         328 AYIPTNVISITDGQIFLETDLFNAGIRPAINVGLSVSRVGSAAQIKAMKKVAGSLRLILAQYRELEAFSQFGSDLDKATR  407 (504)
T ss_pred             eecccceEEecCCcEEeehhhhhcCCCccccCCceeeccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhcccc
Q psy210          512 TQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGE  588 (915)
Q Consensus       512 ~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~  588 (915)
                      +.|++++++.++|+|++++|++.++++.++|++.||+|+++|++++..|+..+..|++..++++.+.|.+.. .+++
T Consensus       408 ~~l~~G~r~~ellkQ~~~~p~sv~~qv~ilya~~~G~ld~v~v~~v~~fe~~l~~~~~~~~~~~~~~I~~~~-~l~~  483 (504)
T COG0056         408 KQLERGKRLTELLKQPQYSPLSVEEQVLILYAGTNGYLDDVPVEKVADFEKELLAYLRSDHKELLEEIRTTK-ELDD  483 (504)
T ss_pred             HHHHccHHHHHHhcCCCCCCccHHHHHHHHHHHhcCcccCCcHHHHHHHHHHHHHHHHhhHHHHHHHHHhhc-CCCH
Confidence            999999999999999999999999999999999999999999999999999999999999998888887774 3443

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=1.7e-105  Score=921.73  Aligned_cols=440  Identities=53%  Similarity=0.842  Sum_probs=420.5

Q ss_pred             EEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEe
Q psy210          124 IEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIV  203 (915)
Q Consensus       124 ~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrvi  203 (915)
                      ++-.-++...+++.+++.  +|  ..|+|.++++  +    -+.+++++.+.+++.|++|.++|+++++|+|+++||||+
T Consensus        39 v~v~g~~~~~~ge~~~i~--~~--~~g~Vi~~~~--~----~~~~~~~~~~~gi~~g~~V~~~~~~~~v~vg~~llGrv~  108 (502)
T PRK09281         39 ARVYGLDNVMAGELLEFP--GG--VYGIALNLEE--D----NVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVV  108 (502)
T ss_pred             EEEECccccccCCEEEEC--CC--cEEEEEEEcC--C----eEEEEEecCcccccCCCeeeecCCceEEecCHHhcCCEE
Confidence            333444467899999985  45  6899999998  3    347889999999999999999999999999999999999


Q ss_pred             CCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          204 NSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       204 D~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      |++|+|||+++++...++++++..||+|++|.++++||+|||++||+|+|||||||++|||++|+|||+||++||+||++
T Consensus       109 d~~G~pid~~~~~~~~~~~~i~~~~p~~~~R~~~~~~l~TGi~~ID~l~pigrGQr~~Ifg~~g~GKt~lal~~i~~~~~  188 (502)
T PRK09281        109 NPLGQPIDGKGPIEATETRPVERKAPGVIDRKSVHEPLQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG  188 (502)
T ss_pred             ccCCCCcCCCCCCCCCceecccCCCcCccccCCccceeecCCeeeecccccccCcEEEeecCCCCCchHHHHHHHHHhcC
Confidence            99999999999888888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          284 KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       284 ~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      +|++|||++||||++|+.+|++++++.++++||++|++++|+||.+|+++||+|||+|||||++|+|||+|||||||||+
T Consensus       189 ~dv~~V~~~IGer~~ev~e~~~~~~~~~~l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLli~DdlTr~A~  268 (502)
T PRK09281        189 KDVICIYVAIGQKASTVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIVYDDLSKQAV  268 (502)
T ss_pred             CCeEEEEEEecCChHHHHHHHHHHhhcCCccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecCchHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccC
Q psy210          364 AYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITD  443 (915)
Q Consensus       364 A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~d  443 (915)
                      |+||||+++||||+++|||||||++||+|+||||++++..|         +||||++|+|++|+||++|||||+++||||
T Consensus       269 A~REisl~~gepPgr~gyP~~vf~~~s~LlERag~~~~~~~---------~GSITal~~V~~~~dD~s~pI~d~~~sItD  339 (502)
T PRK09281        269 AYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDELG---------GGSLTALPIIETQAGDVSAYIPTNVISITD  339 (502)
T ss_pred             HHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhhccCCCC---------CccEEEEEEEECCCCCCCCcchHhhhcccc
Confidence            99999999999999999999999999999999999865333         799999999999999999999999999999


Q ss_pred             cEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHH
Q psy210          444 GQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLL  523 (915)
Q Consensus       444 gqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~f  523 (915)
                      |||||||+||++||||||||+.|+||+|+.++.++|+++|.++|..|++|+|+++|+++|+++|++++++|+++++|++|
T Consensus       340 GqIvLsr~La~~G~~PAIdv~~SvSRv~~~~~~~~~~~~a~~lr~~la~y~e~~~l~~~g~~l~~~~~~~l~~~~~i~~f  419 (502)
T PRK09281        340 GQIFLESDLFNAGIRPAINVGISVSRVGGAAQIKAMKKVAGTLRLDLAQYRELEAFAQFGSDLDEATRAQLERGQRLVEL  419 (502)
T ss_pred             eEEEEcHHHHhCCCCCccCCcccccccCCccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          524 MKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       524 L~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      |+|+.++++++++++.++|++.||+|+.+|.+++..|+..+++|+++.+++..+.+...
T Consensus       420 L~Q~~~~~~~~~~~~~~~~~~~~G~l~~l~~~~i~~~~~~~~~~l~~~~~~~~~~I~~~  478 (502)
T PRK09281        420 LKQPQYSPLPVEEQVVILYAGTNGYLDDVPVEKVRRFEAELLAYLRSNHADLLEEIRET  478 (502)
T ss_pred             hCCCCCCCCCHHHHHHHHHHHhcCccccCCHHHHHHHHHHHHHHHHHhhHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999888777553

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=100.00  E-value=3e-105  Score=913.97  Aligned_cols=440  Identities=47%  Similarity=0.771  Sum_probs=421.1

Q ss_pred             EEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEe
Q psy210          124 IEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIV  203 (915)
Q Consensus       124 ~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrvi  203 (915)
                      ++.+-+....+++.+++.  +|  ..|+|.+.++  +    .+.+++|+.+.+++.|++|.+||+++++|+|+.+||||+
T Consensus        39 ~~v~gl~~~~~ge~~~i~--~~--~~g~V~~l~~--~----~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVi  108 (502)
T PRK13343         39 AFVSGLPDAALDELLRFE--GG--SRGFAFNLEE--E----LVGAVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVI  108 (502)
T ss_pred             EEEeCCCCCCCCCEEEEC--CC--cEEEEEEecC--C----eEEEEEeeCCCCCCCCCEeEecCCcceeecCHHhcCCEE
Confidence            334444566899999983  45  6889999997  3    347889999999999999999999999999999999999


Q ss_pred             CCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          204 NSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       204 D~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      |++|+|||+++++....+++++..+|++++|.++++||+||||+||+|+|||||||++|||++|+|||+||++||+||++
T Consensus       109 d~lG~piDg~~~i~~~~~~~i~~~ap~~~~R~~v~epl~TGIkaID~l~pigrGQR~~I~g~~g~GKt~Lal~~i~~~~~  188 (502)
T PRK13343        109 DPLGRPLDGGGPLQATARRPLERPAPAIIERDFVTEPLQTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAIINQKD  188 (502)
T ss_pred             CCCCCcccCCCCCCCCceecccCCCcChhhcCCCCcccccCCceeccccccccCCEEEeeCCCCCCccHHHHHHHHhhcC
Confidence            99999999999988888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          284 KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       284 ~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      +|++|||++||||++||.+|++++++.++|+||++|++++++||++|+++||+|||+||||||+|+|||++||||||||+
T Consensus       189 ~dv~~V~~~IGer~rev~e~~~~l~~~~~l~~tvvV~atsd~~~~~r~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A~  268 (502)
T PRK13343        189 SDVICVYVAIGQKASAVARVIETLREHGALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQGQDALIVYDDLSKHAA  268 (502)
T ss_pred             CCEEEEEEEeccChHHHHHHHHHHHhcCccceeEEEEecccccHHHHHHHHHHHHHHHHHHHhCCCCEEEEecchHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccC
Q psy210          364 AYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITD  443 (915)
Q Consensus       364 A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~d  443 (915)
                      ||||||+++||||+++|||||+||+||||+||||+++...|         +||||++|+|++++||++|||||+++||||
T Consensus       269 A~REisL~l~epPgr~gYP~~vf~~~srLlERAg~~~~~~~---------gGSITal~~V~~~~dD~s~pI~~~v~sItD  339 (502)
T PRK13343        269 AYRELSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSPELG---------GGSLTALPIIETLAGELSAYIPTNLISITD  339 (502)
T ss_pred             HHHHHHHhcCCCCCcCCcCcchHhhhHHHHHhhccCCCCCC---------CcceEEEEEEEcCCCCCCCcchhhhhcccc
Confidence            99999999999999999999999999999999999865433         799999999999999999999999999999


Q ss_pred             cEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHH
Q psy210          444 GQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLL  523 (915)
Q Consensus       444 gqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~f  523 (915)
                      |||||||+||++||||||||+.|+||+|+++|.++|++++.++|..|++|+|+++|+++|+.+|++++++|+++++|++|
T Consensus       340 GqIvLsr~La~~G~~PAIDv~~SvSRv~~~~~~~~~~~~a~~lr~~la~y~e~e~~~~~G~~ld~~~~~~i~~~~~i~~~  419 (502)
T PRK13343        340 GQIYLDSDLFAAGQRPAVDVGLSVSRVGGKAQHPAIRKESGRLRLDYAQFLELEAFTRFGGLLDAGTQKQITRGRRLREL  419 (502)
T ss_pred             eEEEECHHHHhCCCCCccCCccchhccCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999989999999999999999999


Q ss_pred             hhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          524 MKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       524 L~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      |+|+.++++++++++..|+++.+|+|+++|.+++..|+..+.+|+++++++.++.+.+.
T Consensus       420 L~Q~~~~~~~~~~~~~~l~~~~~g~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~i~~~  478 (502)
T PRK13343        420 LKQPRFSPLSVEEQIALLYALNEGLLDAVPLANIQAFEERLLEKLDARFAALSLALESP  478 (502)
T ss_pred             hcCCCCCCCCHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHhhhHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999888877664

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=3.9e-104  Score=899.35  Aligned_cols=445  Identities=36%  Similarity=0.540  Sum_probs=416.7

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      +..+-.=.....+++.+++...+  ...|+|.++++  +    .+++++++.+.+++.|++|.+||+++++|+|+++|||
T Consensus        11 ~i~~v~Gl~~~~~ge~~~~~~~~--~~~g~V~~~~~--~----~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~lLGR   82 (507)
T PRK07165         11 YIVEVKGEYDYQQNQFFTLKNNP--NVKAFVISATE--D----KAYLLINNEKGKIKINDELIELNNTNKVKTSKEYFGK   82 (507)
T ss_pred             eEEEEEcccCCCcCCEEEECCCC--eEEEEEEEEeC--C----eEEEEEccCccCCCCCCEEEECCCccEEECCccccCC
Confidence            45555555567899999985332  36899999997  3    3478899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccc-----cccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHH
Q psy210          202 IVNSKGEFIDNKKKFLI-----KNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAID  276 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~-----~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~  276 (915)
                      |+|++|+|||+++++..     ..+++++.+||+|++|.++++||+|||++||+|+|||||||++|||++|||||+|+++
T Consensus        83 Vvd~lG~piDg~g~i~~~~~~~~~~~~i~~~ap~~~~R~~v~epL~TGIkaID~l~pigrGQR~~Ifg~~gtGKT~lal~  162 (507)
T PRK07165         83 IIDIDGNIIYPEAQNPLSKKFLPNTSSIFNLAHGLMTVKTLNEQLYTGIIAIDLLIPIGKGQRELIIGDRQTGKTHIALN  162 (507)
T ss_pred             EECCCCcccCCCCCCCcccccccccccccCCCCCchhhCCCCceeecCchhhhhcCCcccCCEEEeecCCCCCccHHHHH
Confidence            99999999999987665     4567999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEec
Q psy210          277 TIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYD  356 (915)
Q Consensus       277 ~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~D  356 (915)
                      +|+||+++|++|||++||||++|+.+|+++++++++|+||++|++++ +||++|+++||+|||+|||||++ +|||+|||
T Consensus       163 ~I~~q~~~dv~~V~~~IGer~~ev~~~~~~l~~~gal~~tvvV~ats-d~~~~r~~ap~~a~tiAEyfrd~-~dVLlv~D  240 (507)
T PRK07165        163 TIINQKNTNVKCIYVAIGQKRENLSRIYETLKEHDALKNTIIIDAPS-TSPYEQYLAPYVAMAHAENISYN-DDVLIVFD  240 (507)
T ss_pred             HHHHhcCCCeEEEEEEccCChHHHHHHHHHhhhcCceeeeEEEEeCC-CCHHHHHHHHHHHHHHHHHHHhc-CceEEEEc
Confidence            99999999999999999999999999999999999999999999998 59999999999999999999999 99999999


Q ss_pred             cchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccc
Q psy210          357 DLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPT  436 (915)
Q Consensus       357 dltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~  436 (915)
                      ||||||+|+||||+++||||+++||||||||.||+||||||++++            +||||++|+|+|++||++|||||
T Consensus       241 dLTr~A~A~REisLllgepPgregYPg~vF~~~srLlERAg~~~g------------~GSITalpiV~t~~dDis~pIpd  308 (507)
T PRK07165        241 DLTKHANIYREIALLTNKPVGKEAFPGDMFFAHSKLLERAGKFKN------------RKTITALPILQTVDNDITSLISS  308 (507)
T ss_pred             ChHHHHHHHHHHHhhccCCCCccCCCchHHHHhHHHHHhccCCCC------------CCceEEEEEEECCCCCCCCcchh
Confidence            999999999999999999999999999999999999999999853            68999999999999999999999


Q ss_pred             ccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHh
Q psy210          437 NVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYN  516 (915)
Q Consensus       437 ~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~  516 (915)
                      +++|||||||||||+||++||||||||+.|+||+|+++|.+.|+++++.+|+.|++|+|+++++++++++|++++++|++
T Consensus       309 nv~sItDGqIvLsr~L~~~G~~PAIDvl~SvSRv~~~~q~~~~~~~a~~~r~~la~Y~e~e~~~~~~~~ld~~~~~~l~~  388 (507)
T PRK07165        309 NIISITDGQIVTSSDLFASGKLPAIDIDLSVSRTGSSVQSKTITKVAGEISKIYRAYKRQLKLSMLDYDLNKETSDLLFK  388 (507)
T ss_pred             hhccccCeEEEEcHHHHhCCCCCCcCCccchhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccch-hhHHHHHHHHHHHHhhhcccccchhhhhhhccccce
Q psy210          517 GEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPI-KQIELFEINIIKYFRIINLKNNISINKVQQQIGENI  590 (915)
Q Consensus       517 ~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~-~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~~  590 (915)
                      +++|++||+|+++++++.++++.+++++.||+|+.+|. +++..|++.+++| +..+++..+.|.+-. .++++.
T Consensus       389 g~~i~~~L~Q~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~~~~-~~~~~~  461 (507)
T PRK07165        389 GKMIEKMFNQKGFSLYSYRFVLLISKLISWGLLKDVKDEQKALDFIDYLIEN-DPDAKKIFNKIKNNE-DVDDEL  461 (507)
T ss_pred             HHHHHHHhCCCCCCCCCHHHHHHHHHHHHhhhhhhCCcHHHHHHHHHHHHHh-hhhhHHHHHHHHhcC-CCCHHH
Confidence            99999999999999999999999999999999999998 9999999999999 888888777765553 344443

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=100.00  E-value=7.8e-104  Score=907.87  Aligned_cols=439  Identities=54%  Similarity=0.842  Sum_probs=418.7

Q ss_pred             EEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeC
Q psy210          125 EYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVN  204 (915)
Q Consensus       125 ~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD  204 (915)
                      +-.-+....+++.+++.  +|  ..|+|.++++  +    .+.+++++.+.+++.|++|.+||+++++|+|+++||||+|
T Consensus        39 ~v~g~~~~~~ge~~~i~--~~--~~g~Vi~~~~--~----~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~llGRV~d  108 (501)
T TIGR00962        39 RVYGLENVMSGELIEFE--GG--VQGIALNLEE--D----SVGAVIMGDYSNIREGSTVKRTGRILKVPVGDGLLGRVVN  108 (501)
T ss_pred             EEECCcCCCCCCEEEEC--CC--eEEEEEEecC--C----eEEEEEecCCcCCCCCCeeEecCCccEEecChHhcCCEeC
Confidence            33334467889999984  45  6889999997  3    3478899999999999999999999999999999999999


Q ss_pred             CCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCC
Q psy210          205 SKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNK  284 (915)
Q Consensus       205 ~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~  284 (915)
                      ++|+|||+++++....+++++..+|++++|.++++||+|||++||+|+|||||||++|||++|+|||+||++||+||+++
T Consensus       109 ~~G~pld~~~~~~~~~~~~i~~~~p~~~~R~~i~~pl~TGi~aID~l~pigrGQr~~I~g~~g~GKt~Lal~~i~~~~~~  188 (501)
T TIGR00962       109 ALGQPIDGKGPIDSDEFRPIEKIAPGVMERKSVHEPLQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAVAIDTIINQKDS  188 (501)
T ss_pred             CCCCeeCCCCCcCCCCceeeecCCCChhhcCCcCceeccCCceeeccCCcccCCEEEeecCCCCCccHHHHHHHHhhcCC
Confidence            99999999988877777899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          285 NVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       285 ~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      |++|||++||||++|+.+|++++++.++|+||++|++++|+||.+|+++||+|||+||||||+|+|||++||||||||+|
T Consensus       189 dv~~V~~~IGer~rev~e~~~~~~~~~~l~~tvvV~atsd~p~~~r~~a~~~a~aiAEyfrd~G~~VLlv~Ddltr~A~A  268 (501)
T TIGR00962       189 DVYCVYVAIGQKASTVAQVVRKLEEHGAMDYTIVVAATASDSASLQYLAPYTGCTMAEYFRDNGKHALIIYDDLSKHAVA  268 (501)
T ss_pred             CeEEEEEEccCChHHHHHHHHHHHhcCccceeEEEEecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCc
Q psy210          365 YRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDG  444 (915)
Q Consensus       365 ~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dg  444 (915)
                      +||||+++||||+++|||||+||.||+|+||||++++..|         +||||++|+|++|+||++|||||+++|||||
T Consensus       269 ~REisl~lgepP~~~gYP~~vf~~~srLlERag~~~~~~g---------~GSITal~~V~~~~dD~s~pI~~~~~sItDG  339 (501)
T TIGR00962       269 YRQISLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDEKG---------GGSLTALPIIETQAGDVSAYIPTNVISITDG  339 (501)
T ss_pred             HHHHHHhcCCCCcccCcCchHHHHHHHHHHHHhhccCCCC---------CcceEEEEEEECCCCCCCCcchHhhhhhcce
Confidence            9999999999999999999999999999999999865333         6999999999999999999999999999999


Q ss_pred             EEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHh
Q psy210          445 QIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLM  524 (915)
Q Consensus       445 qi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL  524 (915)
                      ||||||+||++||||||||+.|+||+|++++.++|++++.++|..|++|+|+++|+++|+++|++++.+|+++++|++||
T Consensus       340 qIvLsr~La~~G~~PAIdv~~SvSRv~~~~~~~~~~~~a~~lr~~la~y~e~~~l~~~g~~ld~~~~~~l~~~~~i~~fL  419 (501)
T TIGR00962       340 QIFLESDLFNSGIRPAINVGLSVSRVGGAAQIKAMKQVAGSLRLELAQYRELEAFSQFASDLDEATKAQLERGKRLVELL  419 (501)
T ss_pred             EEEEcHhHHhCCCCCccCCccchhccCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          525 KQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       525 ~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      +|+.++++++++++.+++++.||+|+.++.+++..|+..+.+|+++.+++.++.+.+.
T Consensus       420 ~Q~~~~~~~~~~q~~~l~a~~~G~l~~v~~~~i~~~~~~l~~~l~~~~~~~~~~i~~~  477 (501)
T TIGR00962       420 KQPQYKPLPVEEQVVILYAGTKGYLDDIPVDKVRKFEQELLDYLDANHPDILEEINTK  477 (501)
T ss_pred             cCCCCCCcCHHHHHHHHHHHhcCCcccccHHHHHHHHHHHHHHHHHhhHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999999999887777554

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.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=100.00  E-value=3.9e-103  Score=881.15  Aligned_cols=448  Identities=43%  Similarity=0.672  Sum_probs=409.6

Q ss_pred             HHHHHHHHHHhcCccceeeecceeEEEE--eecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhcccccc
Q psy210           99 LENQKKLIKKITGLNYSSIIRFAYNIEY--DYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKN  176 (915)
Q Consensus        99 ~~~q~~~~~~ipgl~~a~~~r~g~~~~~--~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~g  176 (915)
                      .+-|+.+|+.+.-.-.+.-+-=|.+..|  .=++...++|.++++..++-...|++..+++  +.   -+.+++++.+.+
T Consensus        27 ~~~~~~~~~~~~~~G~V~~v~~gia~v~~v~Gl~~~~~gElv~f~~~~~~~~~G~vlnl~~--d~---~v~~v~lg~~~g  101 (574)
T PTZ00185         27 APGQKSFFKATEMIGYVHSIDGTIATLIPAPGNPGVAYNTIIMIQVSPTTFAAGLVFNLEK--DG---RIGIILMDNITE  101 (574)
T ss_pred             CCcchhhhhhheeeEEEEEEcCeEEEEeecCCCcccccCceEEEEcCCCCeEEEEEEEecC--CC---eEEEEEecCccC
Confidence            3568888887655444433321122222  3444678999999987666667899999997  21   257889999999


Q ss_pred             ccCCCcccccCccceeccccccceeEeCCCceeecCC------Cccccc-ccccccccCCCCCcccccCccccccceeee
Q psy210          177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNK------KKFLIK-NRETVEKIAPGIMDRESVNEPLLTGIKSID  249 (915)
Q Consensus       177 l~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~------~~~~~~-~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD  249 (915)
                      ++.|++|++||+++++|+|+++||||+|++|+|||++      +++.+. .+++++..||+|++|.++++||+|||++||
T Consensus       102 I~~G~~V~~tg~~~~VpVG~~lLGRVvD~lG~PIDg~~~~~~~g~i~~~~~~~pIe~~ap~~~~R~~v~epL~TGIkaID  181 (574)
T PTZ00185        102 VQSGQKVMATGKLLYIPVGAGVLGKVVNPLGHEVPVGLLTRSRALLESEQTLGKVDAGAPNIVSRSPVNYNLLTGFKAVD  181 (574)
T ss_pred             CCCCCEEEECCCccEEECCcccccCEECCCCcccCCCCccccCCCCCcccccccccCCCcChhhcCCCCCcCcCCceeee
Confidence            9999999999999999999999999999999999987      444544 467999999999999999999999999999


Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc--------CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEe
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK--------NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAA  321 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~--------~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~  321 (915)
                      +|+|||||||++|||++|+|||+||+++|+||+        +.+++|||++||||.+|+.++++.|++.|+|+||++|++
T Consensus       182 ~LiPIGRGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~A  261 (574)
T PTZ00185        182 TMIPIGRGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAA  261 (574)
T ss_pred             ccccccCCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEE
Confidence            999999999999999999999999999999997        345789999999999999999999999999999999999


Q ss_pred             cCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccc
Q psy210          322 TAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINK  401 (915)
Q Consensus       322 ~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~  401 (915)
                      ++++||.+|+++||+|||+||||||+|+|||++||||||||+|+||||+++||||+++|||||+||+||+|+||||++++
T Consensus       262 tAdep~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REISLllgrpPgRegYPgdVF~lhsrLlERAg~l~~  341 (574)
T PTZ00185        262 TAAEPAGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQISLLLRRPPGREAYPGDVFYLHSRLLERAAMLSP  341 (574)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHhcccccC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999875


Q ss_pred             cccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHH
Q psy210          402 YFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKK  481 (915)
Q Consensus       402 ~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~  481 (915)
                      ..|         +||||++|+|+||+||++|||||+++|||||||||||+||++|+||||||+.|+||+|+++|.+.|++
T Consensus       342 ~~G---------~GSITAlpiV~t~adDis~pIptnviSItDGqIvLsr~Lf~~GiyPAIDVl~SvSRvg~~aq~~~~k~  412 (574)
T PTZ00185        342 GKG---------GGSVTALPIVETLSNDVTAYIVTNVISITDGQIYLDTKLFTGGQRPAVNIGLSVSRVGSSAQNVAMKA  412 (574)
T ss_pred             CCC---------CcceEEEEEEEccCCCCCCcchHhhhhhcCeEEEEcHHHHhCCCCCCcCCcccccccCCccCCHHHHH
Confidence            444         79999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHH
Q psy210          482 LSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFE  561 (915)
Q Consensus       482 ~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~  561 (915)
                      +|+++|..|++|+|++.|++||+++|+   ..|+++++++++|+|++  |+++++++.++|+..+|+||++|++++..++
T Consensus       413 vAg~lr~~LaqY~El~~fa~fgsdld~---~~l~rG~r~~ellkQ~~--p~~~~~qv~~l~a~~~g~ld~~~~~~i~~~~  487 (574)
T PTZ00185        413 VAGKLKGILAEYRKLAADSVGGSQVQT---VPMIRGARFVALFNQKN--PSFFMNALVSLYACLNGYLDDVKVNYAKLYE  487 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcchhhH---HHHHhhHHHHHHHCCCC--CCCHHHHHHHHHHHhcCCcccCcHHHHHHHH
Confidence            999999999999999999999999999   88999999999999998  9999999999999999999999999999888


Q ss_pred             HHHH
Q psy210          562 INII  565 (915)
Q Consensus       562 ~~Li  565 (915)
                      ..+.
T Consensus       488 ~~~~  491 (574)
T PTZ00185        488 YLLV  491 (574)
T ss_pred             Hhcc
Confidence            6544

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=100.00  E-value=6.3e-99  Score=823.64  Aligned_cols=331  Identities=36%  Similarity=0.583  Sum_probs=322.0

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~  658 (915)
                      .+||+ .|+++.+.++||++..|+..|++|..+++++++++|++|||||+|++|+|+|+++.+....+.|+..+||+|++
T Consensus        61 ~aEVv-gf~~~~~~L~p~~~~~gv~~g~~V~~~~~~~~v~~g~~lLGRVld~~G~plDg~~~~~~~~~~~l~~~pp~pm~  139 (441)
T COG1157          61 LAEVV-GFNEERVLLMPFEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLDGGGLPDGTERRPLDAPPPNPLK  139 (441)
T ss_pred             eEEEE-EEcCCeEEEeccCccccCCCCCEEEecCCccccccChhhhhhhhccCCCcCcCCCCCCCcccccccCCCCCchh
Confidence            56664 89999999999999999999999999999999999999999999999999999888888889999999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      |+++.++|.||||+||+|+|||+|||+||||++|+||||||+||+++.+   .|++|++|||||+|||+||+++...+..
T Consensus       140 R~~I~~~l~tGVRaIDgllT~G~GQRiGIFAgsGVGKStLLgMiar~t~---aDv~ViaLIGERGREVrEFIE~~Lg~eg  216 (441)
T COG1157         140 RRPIEEPLDTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTLLGMIARNTE---ADVNVIALIGERGREVREFIEKDLGEEG  216 (441)
T ss_pred             cccccccccccceeeecccccccCceeEEEecCCCcHHHHHHHHhcccc---CCEEEEEEeeccchhHHHHHHHhcchhh
Confidence            9999999999999999999999999999999999999999999999875   5999999999999999999998777777


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      ++|||+|++|||+||.+|.+++++|++|||||||||||||++|||+||||+|+|||+++.||||+++|||||+|+.|++|
T Consensus       217 l~rsViVvATSD~s~l~R~~aa~~At~IAEyFRDqG~~VLL~mDSlTRfA~AqREI~LA~GEpP~~kGYppSVF~~LP~L  296 (441)
T COG1157         217 LKRSVVVVATSDESALMRLKAAFTATTIAEYFRDQGKRVLLIMDSLTRFAMAQREIGLAAGEPPATKGYPPSVFSELPRL  296 (441)
T ss_pred             ccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEeecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHH
Q psy210          819 QERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVAN  898 (915)
Q Consensus       819 ~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~  898 (915)
                      +||+|+..+||||+||||++++||++|||+|++++|+||||||||+||++||||||||++|+||+| +.+++++|++.|+
T Consensus       297 lERaG~~~~GsITafYTVLveGDD~~dPiaD~~RsILDGHIvLsR~LA~~ghyPaIdvl~SiSRvm-~~i~~~~h~~~a~  375 (441)
T COG1157         297 LERAGNGDKGSITAFYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAEAGHYPAIDVLASISRVM-PQIVSEEHRKAAR  375 (441)
T ss_pred             HhhcCCCCCCcEEEEEEEEeecCCCCCchhhhhhhhccceEEeeHhHHhcCCCCCcchHHHHHHHh-hhcCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999 6899999999999


Q ss_pred             HHHHHHHccHhhhhcc
Q psy210          899 EVKFYLQKYKELKDTS  914 (915)
Q Consensus       899 ~~r~~l~~~~e~~~~~  914 (915)
                      ++|++|+.|+|+|++.
T Consensus       376 ~~r~lls~y~e~edLi  391 (441)
T COG1157         376 RLRQLLSRYEENEDLI  391 (441)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999999985

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=100.00  E-value=1.4e-96  Score=839.63  Aligned_cols=427  Identities=23%  Similarity=0.322  Sum_probs=397.1

Q ss_pred             eeEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCc-ccccCccceeccccccc
Q psy210          121 AYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQK-CFCTEKIFEIPVGFELL  199 (915)
Q Consensus       121 g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~-V~~tg~~~~vpvg~~lL  199 (915)
                      |..++-.-..+..+++.++++..++....|+|.++++  +    .+.+++|+.+.+++.|+. |.+|++++++|+|+++|
T Consensus        10 g~iv~v~g~~~~~~ge~~~i~~~~~~~~~geVv~~~~--~----~~~l~~~~~t~gi~~g~~~V~~tg~~~~v~vg~~lL   83 (458)
T TIGR01041        10 GPLVFVEGVEPVAYNEIVEIETPDGEKRRGQVLDSSE--G----LAVVQVFEGTTGLDPTGTKVRFTGETLKLPVSEDML   83 (458)
T ss_pred             ccEEEEEccCCCCcCCEEEEEcCCCcEEEEEEEEEEC--C----EEEEEEecCCcCcCCCCcEEEECCCceEEEcChhhc
Confidence            3555555555778999999864467667899999998  3    347889999999998886 99999999999999999


Q ss_pred             eeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHH
Q psy210          200 GRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTII  279 (915)
Q Consensus       200 GrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~  279 (915)
                      |||+|++|+|||+++++.+..++++++.+|+|+.|.++++||+|||++||+|+|||+|||++|||++|+|||+| +.||+
T Consensus        84 GRViD~~G~plD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L-~~~ia  162 (458)
T TIGR01041        84 GRILNGSGEPIDGGPEIVPDERRDINGAPINPYAREYPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNEL-AAQIA  162 (458)
T ss_pred             cCEEccCCcccCCCCCCCccceeeccCCCCChhhcCCCCCcCCCCeEEEEccCccccCCEEEeeCCCCCCHHHH-HHHHH
Confidence            99999999999999888777789999999999999999999999999999999999999999999999999999 67799


Q ss_pred             hhcCC-----CeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH-hcCCcEEE
Q psy210          280 NQKNK-----NVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLI  353 (915)
Q Consensus       280 ~~~~~-----~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r-~~g~~Vlv  353 (915)
                      +|++.     +++|||++||||++|+.+|++++++.++|+|||+|++|||+||.+|+++||+|||+||||| ++|+|||+
T Consensus       163 ~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~d~G~~VLl  242 (458)
T TIGR01041       163 RQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAFEKDMHVLV  242 (458)
T ss_pred             HhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHccCCcEEE
Confidence            98754     4579999999999999999999999999999999999999999999999999999999999 79999999


Q ss_pred             EeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCc
Q psy210          354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF  433 (915)
Q Consensus       354 ~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~p  433 (915)
                      ++|||||||+|+||||+++||||+++|||||+|+.||+|+||||++++           ++||||+||+|++|+||++||
T Consensus       243 i~DslTR~A~A~REIsl~~gepP~~~GYP~svfs~l~~LlERaG~~~~-----------~~GSITai~tV~~~gdD~~dP  311 (458)
T TIGR01041       243 ILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVKG-----------KKGSITQMPILTMPGDDITHP  311 (458)
T ss_pred             EEcChhHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHhcccCCC-----------CCcceEEEEEEEcCCCCCCCc
Confidence            999999999999999999999999999999999999999999999752           279999999999999999999


Q ss_pred             cccccccccCcEEEeehhhhhcCCCCeeeecCCccccccc-----cccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCC
Q psy210          434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGA-----AQYKIVKKLSGDIRIMLAQYRELESFSKF-S-SDL  506 (915)
Q Consensus       434 i~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~-----~~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~l  506 (915)
                      |||+++|||||||+|||+||++||||||||+.|+||+|..     .+.++|++++.+++..|+++++++++.++ | +.+
T Consensus       312 I~d~~~sIlDGhivLsr~La~~G~yPAIDvl~SvSR~~~~~ig~~~~~~~~~~~a~~l~~~y~~~~~L~~i~~~~G~d~l  391 (458)
T TIGR01041       312 IPDLTGYITEGQIVLSRELHRKGIYPPINVLPSLSRLMKDGIGEGKTREDHKDVSDQLYAAYAEGRDLRGLVAIVGEEAL  391 (458)
T ss_pred             hHHhhhhhcceEEEEcHHHHhCCCCCccCCccchhhcccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcC
Confidence            9999999999999999999999999999999999999876     78899999999999999999999999998 7 589


Q ss_pred             CHHHHHHHHhHHHH-HHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHh
Q psy210          507 DIVTKTQLYNGEKI-SLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR  569 (915)
Q Consensus       507 d~~~~~~L~~~~~i-~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr  569 (915)
                      ++++.+.+.++++| ++||+|+.+++.+++++++.+|    ++|+.+|.+++..+++.+++...
T Consensus       392 ~d~~~~~~~~~~~i~~~fL~Q~~~~~~~~~~~~~~l~----~~l~~~~~~~~~~~~~~~~~~~~  451 (458)
T TIGR01041       392 SERDRKYLKFADLFERRFVRQGRNENRSIEETLDIGW----ELLSILPESELKRIDEEYIEKYH  451 (458)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHH----HHHhhCCHHHHHHHHHHHHHHhc
Confidence            99999999999995 8999999999999999999999    77899999999999999876443

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=1.8e-96  Score=841.60  Aligned_cols=428  Identities=22%  Similarity=0.314  Sum_probs=396.9

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhcccccccc-CCCcccccCccceeccccccce
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLT-QGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~-~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      ..++-.-..+..+++.+++...++....|+|.++++  +    .+.+++|+++.+++ .|++|.+||+++++|+|+++||
T Consensus        13 ~~v~v~g~~~~~~ge~~~i~~~~~~~~~geVi~~~~--~----~~~l~~~~~t~gl~i~G~~V~~tg~~~~V~vg~~lLG   86 (460)
T PRK04196         13 PLLFVEGVEGVAYGEIVEIELPNGEKRRGQVLEVSE--D----KAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLG   86 (460)
T ss_pred             cEEEEeccCCCCCCCEEEEEcCCCCEEEEEEEEEeC--C----eEEEEEccCCCCCCCCCCEEEeCCCccEEEcCccccc
Confidence            455555555678999999854456667899999998  3    34788999999999 8999999999999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+++++.+..+++++..+|+|++|.++++||+||||+||.|+|||+|||++|||++|+|||+| +.+|++
T Consensus        87 RVvD~~G~PlD~~~~i~~~~~~~i~~~ap~~l~R~~i~epl~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L-~~~ia~  165 (460)
T PRK04196         87 RIFDGLGRPIDGGPEIIPEKRLDINGAPINPVAREYPEEFIQTGISAIDGLNTLVRGQKLPIFSGSGLPHNEL-AAQIAR  165 (460)
T ss_pred             CEECccCCCccCCCCCCCCccCcccCCCCChhhcCCCCccccCCeEEEeccCcccCCCEEEeeCCCCCCccHH-HHHHHH
Confidence            9999999999999888777778999999999999999999999999999999999999999999999999999 677998


Q ss_pred             hcCC-----CeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH-hcCCcEEEE
Q psy210          281 QKNK-----NVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLII  354 (915)
Q Consensus       281 ~~~~-----~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r-~~g~~Vlv~  354 (915)
                      |++.     +++|||++||||++||.+|++++++.++|+|||+|++|||+||.+|+++||+|||+||||| |+|+|||++
T Consensus       166 ~~~~d~~~~~~v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfr~d~G~~VLli  245 (460)
T PRK04196        166 QAKVLGEEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALTAAEYLAFEKGMHVLVI  245 (460)
T ss_pred             hhhhccCCCceEEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEE
Confidence            8644     5679999999999999999999999999999999999999999999999999999999999 799999999


Q ss_pred             eccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcc
Q psy210          355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFI  434 (915)
Q Consensus       355 ~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi  434 (915)
                      +|||||||+|+||||+++||||+++|||||+|+.||+||||||++++           ++||||+||+|++|+||++|||
T Consensus       246 ~DslTR~A~A~REIsl~~gepP~~~gYP~~vf~~l~~LlERaG~~~~-----------~~GSITai~~V~~~gdD~~dpI  314 (460)
T PRK04196        246 LTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIKG-----------KKGSITQIPILTMPDDDITHPI  314 (460)
T ss_pred             EcChHHHHHHHHHHHHhcCCCCCCCCcCccHHHHhHHHHHHhhcCCC-----------CCeeeEEEEEEEcCCCCCCCch
Confidence            99999999999999999999999999999999999999999999752           2799999999999999999999


Q ss_pred             ccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc-----cHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCC
Q psy210          435 PTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ-----YKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLD  507 (915)
Q Consensus       435 ~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~-----~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld  507 (915)
                      ||+++|||||||+|||+||++||||||||+.|+||+|....     .++|++++.+++..|++|++++++.++ | +.++
T Consensus       315 ~d~~~sI~DG~ivLsr~La~~g~~PAIDvl~SvSR~~~~~~~~~~~~~~~~~~a~~l~~~y~~~~~l~~~~~~~G~~~l~  394 (460)
T PRK04196        315 PDLTGYITEGQIVLSRELHRKGIYPPIDVLPSLSRLMKDGIGEGKTREDHKDVANQLYAAYARGKDLRELAAIVGEEALS  394 (460)
T ss_pred             hhhhhhhcceEEEEcHHHHhCCCCCccCCccchhhhccccCCcccCcHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCC
Confidence            99999999999999999999999999999999999986544     499999999999999999999999998 6 6899


Q ss_pred             HHHHHHHHhHHHHH-HHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhh
Q psy210          508 IVTKTQLYNGEKIS-LLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRII  571 (915)
Q Consensus       508 ~~~~~~L~~~~~i~-~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~  571 (915)
                      +++.+.+.+++++. +||+|+.+++.+++++++.+|    ++|+.+|.+++..|+..+++..+.+
T Consensus       395 d~~~~~~~~~~~~~~~fL~Q~~~~~~~~~~~~~~l~----~~l~~~~~~~l~~~~~~l~~~~~~~  455 (460)
T PRK04196        395 ERDRKYLKFADAFEREFVNQGFDENRSIEETLDLGW----ELLSILPESELKRIKDEYIEKYHPK  455 (460)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHH----HHHhhCCHHHHHHHHHHHHHHhccc
Confidence            99999999999985 899999999999999999999    7899999999999999988654433

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=100.00  E-value=1.1e-96  Score=805.97  Aligned_cols=391  Identities=29%  Similarity=0.399  Sum_probs=371.7

Q ss_pred             hcccccccccCCCceE-eeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeec
Q psy210          133 CLNQTLNIKFANNTVL-SGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFID  211 (915)
Q Consensus       133 ~L~~~le~~~~~g~~~-aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD  211 (915)
                      .+++.+++....+-.. .++|.|+++      +.+...+|+...++..|++|..+++++.+++++.+||||+|++|+|||
T Consensus        44 ~iGelc~i~~~~~~~~~~aEVvgf~~------~~~~L~p~~~~~gv~~g~~V~~~~~~~~v~~g~~lLGRVld~~G~plD  117 (441)
T COG1157          44 RIGELCKIERSRGSEKVLAEVVGFNE------ERVLLMPFEPVEGVSPGAEVVPTGRPLSVPVGDALLGRVLDGLGRPLD  117 (441)
T ss_pred             cccceEEEEecCCCCceeEEEEEEcC------CeEEEeccCccccCCCCCEEEecCCccccccChhhhhhhhccCCCcCc
Confidence            5778887776543322 789999987      344778999999999999999999999999999999999999999999


Q ss_pred             CCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEE
Q psy210          212 NKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYV  291 (915)
Q Consensus       212 ~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~  291 (915)
                      +++......+.++..+||||+.|..+++||.||||+||+|+|||+|||+|||+++|+||||| |.||+++..+|+ +|.+
T Consensus       118 g~~~~~~~~~~~l~~~pp~pm~R~~I~~~l~tGVRaIDgllT~G~GQRiGIFAgsGVGKStL-LgMiar~t~aDv-~Via  195 (441)
T COG1157         118 GGGLPDGTERRPLDAPPPNPLKRRPIEEPLDTGVRAIDGLLTCGKGQRIGIFAGSGVGKSTL-LGMIARNTEADV-NVIA  195 (441)
T ss_pred             CCCCCCCcccccccCCCCCchhcccccccccccceeeecccccccCceeEEEecCCCcHHHH-HHHHhccccCCE-EEEE
Confidence            98888788889999999999999999999999999999999999999999999999999999 999999999998 6899


Q ss_pred             eeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhh
Q psy210          292 CIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLL  371 (915)
Q Consensus       292 ~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~  371 (915)
                      +||||+|||+||+++......++|+|+|++|||+||.+|..++++|++|||||||||+|||++|||+||||+|+|||+++
T Consensus       196 LIGERGREVrEFIE~~Lg~egl~rsViVvATSD~s~l~R~~aa~~At~IAEyFRDqG~~VLL~mDSlTRfA~AqREI~LA  275 (441)
T COG1157         196 LIGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTATTIAEYFRDQGKRVLLIMDSLTRFAMAQREIGLA  275 (441)
T ss_pred             EeeccchhHHHHHHHhcchhhccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCCeEEEEeecHHHHHHHHHHHHHh
Confidence            99999999999999877777799999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehh
Q psy210          372 LRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTN  451 (915)
Q Consensus       372 ~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~  451 (915)
                      .||||.++||||+||+.+++|+||||+..             +||||+||||++++||++|||+|++++|+||||||||+
T Consensus       276 ~GEpP~~kGYppSVF~~LP~LlERaG~~~-------------~GsITafYTVLveGDD~~dPiaD~~RsILDGHIvLsR~  342 (441)
T COG1157         276 AGEPPATKGYPPSVFSELPRLLERAGNGD-------------KGSITAFYTVLVEGDDMNDPIADEVRSILDGHIVLSRA  342 (441)
T ss_pred             cCCCCccCCCCchHHHHhHHHHhhcCCCC-------------CCcEEEEEEEEeecCCCCCchhhhhhhhccceEEeeHh
Confidence            99999999999999999999999999862             69999999999999999999999999999999999999


Q ss_pred             hhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhHHHHHHHhhcCC
Q psy210          452 LFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNGEKISLLMKQKP  528 (915)
Q Consensus       452 la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~~~i~~fL~Q~~  528 (915)
                      ||++|||||||++.|+||+|+++.+++|++.|.++|++|+.|+|+++|+++|   .+.|++.|+++++.+.|++||+|+.
T Consensus       343 LA~~ghyPaIdvl~SiSRvm~~i~~~~h~~~a~~~r~lls~y~e~edLi~iGaY~~G~D~~~D~Ai~~~p~i~~fL~Q~~  422 (441)
T COG1157         343 LAEAGHYPAIDVLASISRVMPQIVSEEHRKAARRLRQLLSRYEENEDLIRIGAYQKGSDPELDKAIKLYPKIEQFLKQGI  422 (441)
T ss_pred             HHhcCCCCCcchHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCccCCCCHHHHHHHHhhHHHHHHHcCCc
Confidence            9999999999999999999999999999999999999999999999999999   3999999999999999999999999


Q ss_pred             CCCccHHHHHHHHHHH
Q psy210          529 HENYSIVELIIILLII  544 (915)
Q Consensus       529 ~e~~s~ee~l~~L~ai  544 (915)
                      .|..++++++..|..+
T Consensus       423 ~e~~~~~~t~~~L~~~  438 (441)
T COG1157         423 DEKSSFEETLEQLEAI  438 (441)
T ss_pred             cccCCHHHHHHHHHHH
Confidence            9999999999998854

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=100.00  E-value=1.6e-93  Score=811.89  Aligned_cols=420  Identities=20%  Similarity=0.266  Sum_probs=379.5

Q ss_pred             eeEEEEeecC--hhhcccccccccCC--C--ceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecc
Q psy210          121 AYNIEYDYFD--PRCLNQTLNIKFAN--N--TVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPV  194 (915)
Q Consensus       121 g~~~~~~~~~--p~~L~~~le~~~~~--g--~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpv  194 (915)
                      |-.++..+.+  ...+++.+++....  +  ....++|.|..+  +   +.+.+.+++.+.+++.|++|.++++++++|+
T Consensus        24 G~viev~~~~~~iP~ig~~~~i~~~~~~~~~~~~~~EVvg~~~--~---~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpv   98 (494)
T CHL00060         24 GPVLDVAFPPGKMPNIYNALVVKGRDTAGQEINVTCEVQQLLG--N---NRVRAVAMSATDGLMRGMEVIDTGAPLSVPV   98 (494)
T ss_pred             ccEEEEEecCCCcCCcCCEEEEccCCCCCccceEEEEEEEEeC--C---CeEEEEeccCccCCCCCCEEEeCCCcceeec
Confidence            3444555542  22348888884323  3  136779999886  1   2357888999999999999999999999999


Q ss_pred             ccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHH
Q psy210          195 GFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIA  274 (915)
Q Consensus       195 g~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~  274 (915)
                      ++++||||+|++|+|||+++++...++++++..||+|++|.++++||+|||++||.|+|||||||++|||++|+|||+|+
T Consensus        99 g~~lLGRVid~~G~piDg~~~~~~~~~~pi~~~~p~~~~R~~i~e~L~TGIraID~l~pigkGQR~gIfgg~GvGKs~L~  178 (494)
T CHL00060         99 GGATLGRIFNVLGEPVDNLGPVDTRTTSPIHRSAPAFIQLDTKLSIFETGIKVVDLLAPYRRGGKIGLFGGAGVGKTVLI  178 (494)
T ss_pred             chhhcCCEEeecCcccCCCCCCCCCccccccCCCcCchhcccccceeecCceeeeccCCcccCCEEeeecCCCCChhHHH
Confidence            99999999999999999998877777789999999999999999999999999999999999999999999999999996


Q ss_pred             HHHHHhhcCC-CeEEEEEeeccchhhHHHHHHHHhccCC-------cceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh
Q psy210          275 IDTIINQKNK-NVICIYVCIGQKISSLINVINKLKYYNC-------MDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD  346 (915)
Q Consensus       275 l~~i~~~~~~-~~~~V~~~iGer~~ev~~~~~~l~~~~~-------~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~  346 (915)
                      .+++.|+++. +.+|||++||||+||+.+|++++.+.++       ++|+++|++++|+||.+|+++||+|+|+|||||+
T Consensus       179 ~~~~~~~~~~~~dv~V~~lIGERgrEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~~~R~~a~~~A~tiAEyfrd  258 (494)
T CHL00060        179 MELINNIAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRD  258 (494)
T ss_pred             HHHHHHHHHhcCCeEEEEEeccCchHHHHHHHHHHhcCccccCcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            6666665533 3459999999999999999999998665       4588999999999999999999999999999999


Q ss_pred             cCC-cEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEe
Q psy210          347 LGQ-DCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIET  425 (915)
Q Consensus       347 ~g~-~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~  425 (915)
                      +|+ |||+++|||||||+|+||||+++||||+++|||||||+.||+|+||||+.+             +||||+||+|++
T Consensus       259 ~g~~~VLll~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~l~~LlERaG~~~-------------~GSITai~tVl~  325 (494)
T CHL00060        259 VNKQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITSTK-------------EGSITSIQAVYV  325 (494)
T ss_pred             cCCCCEEEEcccchHHHHHHHHHHHhcCCCCCCCCcCCCHHHHhHHHHHhccCCC-------------CCCeeEEEEEEC
Confidence            886 999999999999999999999999999999999999999999999999752             699999999999


Q ss_pred             cCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccc-ccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc-
Q psy210          426 LEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV-GGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS-  503 (915)
Q Consensus       426 ~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~-~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG-  503 (915)
                      |+||++|||||+++|||||||||||+||++||||||||+.|+||+ +.....++|++++.++|+.|++|+|++++++++ 
T Consensus       326 ~gdD~tdPI~d~~~silDGhIvLsr~La~~G~yPAIDvl~SvSR~~~~~~v~~~h~~~a~~~r~~la~y~e~e~li~~~g  405 (494)
T CHL00060        326 PADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTMLQPRIVGEEHYETAQRVKQTLQRYKELQDIIAILG  405 (494)
T ss_pred             CCCCCCCcchHhhhhhcceEEEEcHHHHhCCCCCCcCCccchhhhcccccCCHHHHHHHHHHHHHHHHhHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999 778788999999999999999999999998865 


Q ss_pred             -CCCCHHHHHHHHhHHHHHHHhhcC----------CCCCccHHHHHHHHHHHhcccccccchhhHH
Q psy210          504 -SDLDIVTKTQLYNGEKISLLMKQK----------PHENYSIVELIIILLIIKNRFFFKIPIKQIE  558 (915)
Q Consensus       504 -~~ld~~~~~~L~~~~~i~~fL~Q~----------~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~  558 (915)
                       ..++++++++++++++|++||+|+          ..+..++++++..+..+.+|.+++++.++..
T Consensus       406 ~~~ls~~~~~~i~~~~~i~~fL~Q~~f~~e~ft~~~~~~~~~~~~~~~l~~i~~g~~~~~~~~~~~  471 (494)
T CHL00060        406 LDELSEEDRLTVARARKIERFLSQPFFVAEVFTGSPGKYVGLAETIRGFQLILSGELDGLPEQAFY  471 (494)
T ss_pred             cccCCHHHHHHHHhHHHHHHHhcCCcchhhcccCCCCcccCHHHHHHHHHHHhCCCccCCCHHHhh
Confidence             388899999999999999999999          5599999999999999999999999877653

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=100.00  E-value=2.2e-93  Score=807.92  Aligned_cols=414  Identities=20%  Similarity=0.267  Sum_probs=376.3

Q ss_pred             EEEEeecC-hhhcccccccccCCCceEeeEeec-cchhHHHhhcccchhhccccccccCCCcccccCccceeccccccce
Q psy210          123 NIEYDYFD-PRCLNQTLNIKFANNTVLSGQING-TTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       123 ~~~~~~~~-p~~L~~~le~~~~~g~~~aGQI~G-t~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      -++..|-+ ...+++.|.++.  +-...++|.+ +++      +.+.+++++.+.|++.|++|.+|++++++|+|+++||
T Consensus        10 vvdv~f~~~~p~i~~~l~~~~--~~~~~~EVv~~l~~------~~v~l~~l~~t~Gi~~G~~V~~tg~~~~VpVg~~lLG   81 (449)
T TIGR03305        10 IVDVRFDGELPAIHSVLRAGR--EGEVVVEVLSQLDA------HHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLS   81 (449)
T ss_pred             EEEEEeCCCCcchhheEEecC--CCcEEEeeeeEecC------CeEEEEEccCcccCCCCCEEEecCCceEEEcChhhcC
Confidence            44455533 334445666654  3345558887 665      2357889999999999999999999999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+++++.+..+++++.+||||++|.++++||+|||++||.|+|||||||++|||++|+|||+|+.+++.|
T Consensus        82 RVlD~~G~PiD~~~~~~~~~~~~i~~~ap~~~~R~~i~e~L~TGIr~ID~l~pigkGQr~~Ifg~~G~GKt~l~~~~~~~  161 (449)
T TIGR03305        82 RMFDVFGNTIDRREPPKDVEWRSVHQAPPTLTRRSSKSEVFETGIKAIDVLVPLERGGKAGLFGGAGVGKTVLLTEMIHN  161 (449)
T ss_pred             CEEccCccccCCCCCCCCccccchhcCCCCchhcccCCcccccCceeeccccccccCCEEEeecCCCCChhHHHHHHHHH
Confidence            99999999999998877777889999999999999999999999999999999999999999999999999996665666


Q ss_pred             hc-CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEEeccc
Q psy210          281 QK-NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLIIYDDL  358 (915)
Q Consensus       281 ~~-~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~~Ddl  358 (915)
                      ++ ..+..|||++||||++|+.+|++++++.++++||++|++++|+||.+|++++|+|||+|||||+ +|+|||+++|||
T Consensus       162 ~~~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~Dsl  241 (449)
T TIGR03305       162 MVGQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRDDEKQDVLLLIDNI  241 (449)
T ss_pred             HHhcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEecCh
Confidence            53 2234589999999999999999999999999999999999999999999999999999999998 999999999999


Q ss_pred             hhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccc
Q psy210          359 TKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNV  438 (915)
Q Consensus       359 tr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~  438 (915)
                      ||||+|+||||+++||||+++|||||+|+.||+|+||||+.+             +||||+||+|++|+||++|||||++
T Consensus       242 TR~A~A~REisl~~ge~P~~~GYP~~vfs~l~~L~ERag~~~-------------~GSIT~i~~V~~~~dD~~dPi~d~~  308 (449)
T TIGR03305       242 FRFIQAGSEVSGLLGQMPSRLGYQPTLGTELAELEERIATTS-------------DGAITSIQAVYVPADDFTDPAAVHT  308 (449)
T ss_pred             HHHHHHHHHHHHHcCCCCCccCcCchHHHHhHHHHHhhcCCC-------------CcCeeEEEEEEccCCCCCCchhHhh
Confidence            999999999999999999999999999999999999999741             7999999999999999999999999


Q ss_pred             ccccCcEEEeehhhhhcCCCCeeeecCCccccc-cccccHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCCHHHHHHHH
Q psy210          439 ISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG-GAAQYKIVKKLSGDIRIMLAQYRELESFSKFS--SDLDIVTKTQLY  515 (915)
Q Consensus       439 ~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~-~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld~~~~~~L~  515 (915)
                      +|||||||||||+||++||||||||+.|+||+| ...+.++|++++.++|+.|++|+|++++++++  .+++++++++++
T Consensus       309 ~silDG~IvLsr~La~~g~yPAIDvl~S~SR~~~~~i~~~~h~~~a~~~~~~l~~y~e~~~li~~~g~~~l~~~~~~~i~  388 (449)
T TIGR03305       309 FSHLSASLVLSRKRASEGLYPAIDPLQSTSKMATPGIVGERHYDLAREVRQTLAQYEELKDIIAMLGLEQLSREDRRVVN  388 (449)
T ss_pred             hhhcceEEEEcHHHHhCCCCCccCCCcchhhcCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccCCHHHHHHHH
Confidence            999999999999999999999999999999999 55567999999999999999999999998874  488888899999


Q ss_pred             hHHHHHHHhhcCCCCC----------ccHHHHHHHHHHHhcccccccchhhH
Q psy210          516 NGEKISLLMKQKPHEN----------YSIVELIIILLIIKNRFFFKIPIKQI  557 (915)
Q Consensus       516 ~~~~i~~fL~Q~~~e~----------~s~ee~l~~L~ai~~G~Ld~vp~~ev  557 (915)
                      ++++|++||+|+.++.          ++++++++..|.+..|-+++.|..+.
T Consensus       389 ~~~~i~~fL~Q~~~~~e~~t~~~g~~v~l~~tl~~~~~il~g~~~~~~~~~~  440 (449)
T TIGR03305       389 RARRLERFLTQPFFTTEQFTGMKGKTVSLEDALDGCERILNDEFQDYPERDL  440 (449)
T ss_pred             HHHHHHHHhCCCCcccccccCCCCceeEHHHHHHHHHHHhcCCcccCCHHHh
Confidence            9999999999999988          89999999999999999999886543

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.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=100.00  E-value=8.2e-94  Score=809.79  Aligned_cols=337  Identities=69%  Similarity=1.076  Sum_probs=328.6

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      .+.||+.+|+++.+++++|+++.||+.|+.|..+++++++|+|+++||||+|++|+|+|+.+++....+||++..+|+++
T Consensus        39 ~~~eVv~~~~~~~v~l~~l~~~~gi~~G~~V~~t~~~~~i~vg~~lLGRViD~~G~pid~~~~~~~~~~~pi~~~~p~~~  118 (461)
T TIGR01039        39 LTLEVAQHLGDDTVRTIAMGSTDGLVRGLEVIDTGAPISVPVGKETLGRIFNVLGEPIDEKGPIPAKERWPIHRKAPSFE  118 (461)
T ss_pred             EEEEeeeeeCCCeEEEEEccCcccCCCCCEEEeCCCceEEEcChhhcCCEEccCCcccCCCCCCCCCcccccccCCCChh
Confidence            56688877999999999999999999999999999999999999999999999999999988877667899999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++|+||||+||+|+|||||||+||||++|+|||+|++|+++|+++++++++||++||||+|||+||++++++++
T Consensus       119 ~R~~~~e~l~TGiraID~l~pig~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER~rEv~ef~~~~~~~~  198 (461)
T TIGR01039       119 EQSTKVEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESG  198 (461)
T ss_pred             HcCCcccccccCceeecccCCcccCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCCchHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999998877889999999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      +++|||+|+||||+||.+|++++|+|+++|||||| +|+||||+|||+||||+|+||||+++||||+++||||++|+.|+
T Consensus       199 ~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~  278 (461)
T TIGR01039       199 VIDKTALVYGQMNEPPGARMRVALTGLTMAEYFRDEQGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMG  278 (461)
T ss_pred             CcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeeEEEecchhHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHH
Confidence            99999999999999999999999999999999999 79999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHH
Q psy210          817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKV  896 (915)
Q Consensus       817 ~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~  896 (915)
                      +|+||+|+.++||||+||||++|+||++|||+|++++||||||+|||+||++||||||||+.|+||+|++.+++++|+++
T Consensus       279 ~L~ERag~~~~GSITai~tVl~~gdD~~dPi~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~~~~~~~~~h~~~  358 (461)
T TIGR01039       279 ELQERITSTKTGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRKIAELGIYPAVDPLDSTSRLLDPSVVGEEHYDV  358 (461)
T ss_pred             HHHHhcCCCCCCceeEEEEEEccCCCCCCccHHHHHHhcceEEEECHHHHhCCCCCCcCCccccccccCCccCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999778999999999


Q ss_pred             HHHHHHHHHccHhhhhcc
Q psy210          897 ANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       897 ~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++|++|++|+|+++|.
T Consensus       359 a~~~r~~la~y~e~~~li  376 (461)
T TIGR01039       359 ARGVQQILQRYKELQDII  376 (461)
T ss_pred             HHHHHHHHHhhhHHHHHH
Confidence            999999999999999975

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.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=100.00  E-value=1.2e-93  Score=811.61  Aligned_cols=337  Identities=69%  Similarity=1.092  Sum_probs=328.8

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...||+.+|+++.+++++|+++.||+.|+.|..+++++++|+|+++||||+|++|+|||+.+++...++||++.++|+++
T Consensus        40 ~~~EVv~~~~~~~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~lLGRViD~~G~pld~~~~~~~~~~~pi~~~~~~~~  119 (463)
T PRK09280         40 LVLEVAQHLGDGVVRTIAMGSTDGLVRGMEVIDTGAPISVPVGKATLGRIFNVLGEPIDEKGPIGAEERWPIHRKAPSFE  119 (463)
T ss_pred             EEEEeeEEecCCeEEEEEecCccCCCCCCEEEeCCCceEEEcChhhcCCEEeeeccccCCCCCcCccceecccCCCCChH
Confidence            55688877999999999999999999999999999999999999999999999999999998887778899999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++|.||||+||+|+|||||||+||||++|+|||+|++|+++|+++++++++||++||||+|||+||++++.+.+
T Consensus       120 ~R~~~~~~l~TGiraID~l~pigkGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGER~rEv~efi~~~~~~~  199 (463)
T PRK09280        120 ELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESG  199 (463)
T ss_pred             HhCCccceeccCCeeecccCCcccCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999877889999999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      .++|||+|++|||+||.+|++++|+|+++|||||| +||||||+|||+||||+|+||||+++||||+++||||++|+.|+
T Consensus       200 ~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLll~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~  279 (463)
T PRK09280        200 VLDKTALVFGQMNEPPGARLRVALTGLTMAEYFRDVEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMG  279 (463)
T ss_pred             CcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHH
Confidence            99999999999999999999999999999999999 99999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHH
Q psy210          817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKV  896 (915)
Q Consensus       817 ~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~  896 (915)
                      +|+||+|+.++||||+||||++|+||++|||+|++++||||||+|||+||++||||||||+.|+||+|++.+++++|+++
T Consensus       280 ~L~ERag~~~~GSITai~tVl~~gdD~~dPI~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~~  359 (463)
T PRK09280        280 QLQERITSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAELGIYPAVDPLDSTSRILDPLIVGEEHYDV  359 (463)
T ss_pred             HHHHHhcCCCCCceeEEEEEECcCCCCCCcchHhhhhhcceEEEEcHHHHhCCCCCccCCccccccccccccCCHHHHHH
Confidence            99999999889999999999999999999999999999999999999999999999999999999999778899999999


Q ss_pred             HHHHHHHHHccHhhhhcc
Q psy210          897 ANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       897 ~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++|++|++|+|+|++.
T Consensus       360 a~~~r~~la~y~e~e~li  377 (463)
T PRK09280        360 AREVQQILQRYKELQDII  377 (463)
T ss_pred             HHHHHHHHHHhHHHHHHH
Confidence            999999999999999974

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=100.00  E-value=5.2e-93  Score=803.22  Aligned_cols=416  Identities=22%  Similarity=0.305  Sum_probs=378.0

Q ss_pred             eEEEEeecChhhccccc---ccccCCCceEeeEeec-cchhHHHhhcccchhhccccccccCCCcccccCccceeccccc
Q psy210          122 YNIEYDYFDPRCLNQTL---NIKFANNTVLSGQING-TTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFE  197 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~l---e~~~~~g~~~aGQI~G-t~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~  197 (915)
                      -.++-.+.. ..+++.+   ++....+....++|.+ +++      +.+.+++++.+.+++.|++|.++++++++|++++
T Consensus        11 ~~ie~~~~~-~~ig~~~~~l~i~~~~~~~~~~eVv~~~~~------~~v~l~~l~~~~gi~~G~~V~~t~~~~~i~vg~~   83 (461)
T TIGR01039        11 PVVDVEFEQ-GELPRIYNALKVQNRAESELTLEVAQHLGD------DTVRTIAMGSTDGLVRGLEVIDTGAPISVPVGKE   83 (461)
T ss_pred             eEEEEEECC-CCCcchheEEEEecCCCceEEEEeeeeeCC------CeEEEEEccCcccCCCCCEEEeCCCceEEEcChh
Confidence            444544432 3456655   6633234235668888 776      3457889999999999999999999999999999


Q ss_pred             cceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHH
Q psy210          198 LLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDT  277 (915)
Q Consensus       198 lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~  277 (915)
                      +||||+|++|+|||+++++....+||++.++|+|++|.++++||+||||+||.|+|||+|||++|||++|+|||+| +.+
T Consensus        84 lLGRViD~~G~pid~~~~~~~~~~~pi~~~~p~~~~R~~~~e~l~TGiraID~l~pig~GQr~~If~~~G~GKt~L-~~~  162 (461)
T TIGR01039        84 TLGRIFNVLGEPIDEKGPIPAKERWPIHRKAPSFEEQSTKVEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVL-IQE  162 (461)
T ss_pred             hcCCEEccCCcccCCCCCCCCCcccccccCCCChhHcCCcccccccCceeecccCCcccCCEEEeecCCCCChHHH-HHH
Confidence            9999999999999999887777789999999999999999999999999999999999999999999999999999 455


Q ss_pred             HHh-h-cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEE
Q psy210          278 IIN-Q-KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLII  354 (915)
Q Consensus       278 i~~-~-~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~  354 (915)
                      +++ + ++.+.+|||++||||+|||.||++++++.++++||++|++++|+||.+|+++||+|+|+|||||+ +|+|||++
T Consensus       163 ~~~~~~~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfrd~~G~~VLll  242 (461)
T TIGR01039       163 LINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALTGLTMAEYFRDEQGQDVLLF  242 (461)
T ss_pred             HHHHHHhcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeeEEE
Confidence            544 3 23345689999999999999999999999999999999999999999999999999999999998 89999999


Q ss_pred             eccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcc
Q psy210          355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFI  434 (915)
Q Consensus       355 ~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi  434 (915)
                      +|||||||+|+||||+++||||+++||||++|+.||+|+||||+.+             +||||+||+|++|+||++|||
T Consensus       243 ~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~L~ERag~~~-------------~GSITai~tVl~~gdD~~dPi  309 (461)
T TIGR01039       243 IDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGELQERITSTK-------------TGSITSVQAVYVPADDLTDPA  309 (461)
T ss_pred             ecchhHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHHHHHHhcCCCC-------------CCceeEEEEEEccCCCCCCcc
Confidence            9999999999999999999999999999999999999999999741             799999999999999999999


Q ss_pred             ccccccccCcEEEeehhhhhcCCCCeeeecCCccccc-cccccHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCCHHHH
Q psy210          435 PTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG-GAAQYKIVKKLSGDIRIMLAQYRELESFSKFS--SDLDIVTK  511 (915)
Q Consensus       435 ~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~-~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld~~~~  511 (915)
                      ||++++|+||||+|||+||++||||||||+.|+||+| +..+.++|++++.++|+.|++|+|++++++++  ..+++.++
T Consensus       310 ~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~~~~~~~~~h~~~a~~~r~~la~y~e~~~li~i~g~~~lsd~~~  389 (461)
T TIGR01039       310 PATTFAHLDATTVLSRKIAELGIYPAVDPLDSTSRLLDPSVVGEEHYDVARGVQQILQRYKELQDIIAILGMDELSEEDK  389 (461)
T ss_pred             HHHHHHhcceEEEECHHHHhCCCCCCcCCccccccccCCccCCHHHHHHHHHHHHHHHhhhHHHHHHHHhCCccCCHHHH
Confidence            9999999999999999999999999999999999999 77778999999999999999999999999875  36888899


Q ss_pred             HHHHhHHHHHHHhhcCC----------CCCccHHHHHHHHHHHhcccccccchhhHH
Q psy210          512 TQLYNGEKISLLMKQKP----------HENYSIVELIIILLIIKNRFFFKIPIKQIE  558 (915)
Q Consensus       512 ~~L~~~~~i~~fL~Q~~----------~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~  558 (915)
                      ++++++++|++||+|+.          .++.++++++..|..+..|-++++|.++..
T Consensus       390 ~~l~~~~~i~~fL~Q~~~~~~~~t~~~~~~~~~~~~~~~l~~i~~g~~~~~~~~~~~  446 (461)
T TIGR01039       390 LTVERARRIQRFLSQPFFVAEVFTGQPGKYVPLKDTIRGFKEILEGKYDHLPEQAFY  446 (461)
T ss_pred             HHHHhHHHHHHHhCCCCchhccccCCCCcccCHHHHHHHHHHHhCCCccCCCHHHHh
Confidence            99999999999999999          899999999999999999999999877653

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=3e-93  Score=801.79  Aligned_cols=421  Identities=24%  Similarity=0.341  Sum_probs=375.3

Q ss_pred             EEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccC-CCcccccCccceeccccccceeE
Q psy210          124 IEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQ-GQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       124 ~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~-G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      ++-.-+....+++.++++..+|....|||.|+++  +    -+.+++|+.+.|++. |++|.++++++++|+|+++||||
T Consensus        13 i~~~g~~~~~~Ge~~~i~~~~~~~~~geVi~~~~--~----~~~l~~~~~~~gi~~~g~~V~~t~~~~~v~vg~~lLGRV   86 (466)
T TIGR01040        13 VILDNVKFPRFAEIVNLTLPDGTVRSGQVLEVSG--N----KAVVQVFEGTSGIDAKKTTCEFTGDILRTPVSEDMLGRV   86 (466)
T ss_pred             EEEECCCCCCcCCEEEEEeCCCCEEEEEEEEEeC--C----eEEEEEcCCCCCcccCCCEEEECCCccEEEcCcccccCE
Confidence            3333333467889999864467667889999998  3    347889999999997 99999999999999999999999


Q ss_pred             eCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          203 VNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       203 iD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +|++|+|||+++++.+..+++++.++|||+.|..+++||+|||++||+|+|||+|||+||||++|+|||+| +.||++|+
T Consensus        87 id~~G~piD~~~~~~~~~~~~i~~~~~~~~~R~~i~e~l~TGI~aID~l~~ig~GQRigIfagsGvGKs~L-~~~i~~~~  165 (466)
T TIGR01040        87 FNGSGKPIDKGPPVLAEDYLDINGQPINPYARIYPEEMIQTGISAIDVMNSIARGQKIPIFSAAGLPHNEI-AAQICRQA  165 (466)
T ss_pred             ECccccccCCCCCCCCCceeeccCCCCChhHcCCCCCeeecCcEEEeccCccccCCeeeeecCCCCCHHHH-HHHHHHhh
Confidence            99999999999888777778999999999999999999999999999999999999999999999999999 67888876


Q ss_pred             C--------------CCeEEEEEeeccchhhHHH-HHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH-h
Q psy210          283 N--------------KNVICIYVCIGQKISSLIN-VINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-D  346 (915)
Q Consensus       283 ~--------------~~~~~V~~~iGer~~ev~~-~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r-~  346 (915)
                      +              .+++|||++|||| +|+.+ +.+.|.+.++++||++|++++|+||.+|+++||+|||+||||| +
T Consensus       166 ~~~~~~~aD~~~~~~~~~v~V~a~IGer-re~~efi~~~l~~~g~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~~  244 (466)
T TIGR01040       166 GLVKLPTKDVHDGHEDNFAIVFAAMGVN-METARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEYLAYQ  244 (466)
T ss_pred             ccccccccccccccCCceEEEEEEeeee-hHHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHhhhHHHHHHHHHh
Confidence            4              3457999999999 55555 5557999999999999999999999999999999999999999 7


Q ss_pred             cCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEec
Q psy210          347 LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL  426 (915)
Q Consensus       347 ~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~  426 (915)
                      +|+|||+++|||||||+|+||||+++||||+++|||||||+.||+|+||||++++           ++||||+||+|++|
T Consensus       245 ~G~~VLl~~DslTr~A~A~REisl~~gepP~~~GYP~svfs~l~~L~ERaG~~~~-----------~~GSITai~tV~~~  313 (466)
T TIGR01040       245 CEKHVLVILTDMSSYADALREVSAAREEVPGRRGFPGYMYTDLATIYERAGRVEG-----------RNGSITQIPILTMP  313 (466)
T ss_pred             cCCcEEEeccChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHHHHHhhccccCCC-----------CCcceEEEEEEECC
Confidence            9999999999999999999999999999999999999999999999999998742           26999999999999


Q ss_pred             CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccccc-----HHHHHHHHHHHHHHHhhHHHHhhhh
Q psy210          427 EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQY-----KIVKKLSGDIRIMLAQYRELESFSK  501 (915)
Q Consensus       427 ~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~-----~~~~~~a~~lr~~la~~~e~e~l~~  501 (915)
                      +||++|||||+++|||||||||||+||++||||||||+.|+||+|+.++.     ++|.+++.++...|++++++.++..
T Consensus       314 ~dD~~~pI~d~~~sIlDGhIvLsr~La~~g~yPAIDvl~SvSRl~~~v~~~~~~~~~h~~~a~~l~~~y~~~~~L~~ig~  393 (466)
T TIGR01040       314 NDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEGMTRKDHSDVSNQLYACYAIGKDVQAMKA  393 (466)
T ss_pred             CCCCCCcchhhhhhhcceEEEECHHHHhCCCCCccCCccchhhccccccccCcCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998877     7999999886555555555555544


Q ss_pred             c-c-CCCCHHHHHHHHhHHHH-HHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHH
Q psy210          502 F-S-SDLDIVTKTQLYNGEKI-SLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKY  567 (915)
Q Consensus       502 l-G-~~ld~~~~~~L~~~~~i-~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~  567 (915)
                      + | +.+++++.+.+.+++.| ++||+|+.+++.++++++...|    ++|..+|.+++.++...+++.
T Consensus       394 y~G~d~l~d~a~~~l~~~~~i~~~FL~Q~~~~~~~~~~~l~~~w----~ll~~~~~~~~~r~~~~~~~~  458 (466)
T TIGR01040       394 VVGEEALSSEDLLYLEFLDKFEKNFIAQGPYENRTIFESLDIAW----QLLRIFPKEMLKRIPAKILEE  458 (466)
T ss_pred             hcCCCcCCHHHHHHHHHHHHHHHHHhccCcCCCcCHHHHHHHHH----HHHHhCCHHHhccCCHHHHHH
Confidence            3 3 26777777777799999 7899999999999999999999    678888999998888887763

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=100.00  E-value=1.7e-93  Score=808.86  Aligned_cols=338  Identities=50%  Similarity=0.855  Sum_probs=329.1

Q ss_pred             chhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCc
Q psy210          577 ISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKF  656 (915)
Q Consensus       577 ~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~  656 (915)
                      +.+.||+.+|+++.+++++|+++.||+.|+.|..+|+++++|||+++||||+|++|+|+|+++++...+++|+++.+|++
T Consensus        33 ~~~~EVv~~l~~~~v~l~~l~~t~Gi~~G~~V~~tg~~~~VpVg~~lLGRVlD~~G~PiD~~~~~~~~~~~~i~~~ap~~  112 (449)
T TIGR03305        33 EVVVEVLSQLDAHHVRGIALTPTQGLARGMPVRDSGGPLKAPVGKPTLSRMFDVFGNTIDRREPPKDVEWRSVHQAPPTL  112 (449)
T ss_pred             cEEEeeeeEecCCeEEEEEccCcccCCCCCEEEecCCceEEEcChhhcCCEEccCccccCCCCCCCCccccchhcCCCCc
Confidence            45678988899999999999999999999999999999999999999999999999999999887777788999999999


Q ss_pred             cccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       657 ~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      ++|.+++++|+||||+||+|+|||||||+||||++|+|||+|+.|+++|++++|++++||++||||+||++||++++++.
T Consensus       113 ~~R~~i~e~L~TGIr~ID~l~pigkGQr~~Ifg~~G~GKt~l~~~~~~~~~~~~~~v~V~~~iGeR~rEv~e~~~~~~~~  192 (449)
T TIGR03305       113 TRRSSKSEVFETGIKAIDVLVPLERGGKAGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCGIGERCREGEELYREMKEA  192 (449)
T ss_pred             hhcccCCcccccCceeeccccccccCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHhhc
Confidence            99999999999999999999999999999999999999999999999999877789999999999999999999999999


Q ss_pred             CccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHH
Q psy210          737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM  815 (915)
Q Consensus       737 ~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l  815 (915)
                      ++|+||++|++|||+||.+|++++++|+|+|||||| +|+|||+++||+||||+|+||||+++||||+++||||++|+.|
T Consensus       193 ~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REisl~~ge~P~~~GYP~~vfs~l  272 (449)
T TIGR03305       193 GVLDNTVMVFGQMNEPPGARFRVGHTALTMAEYFRDDEKQDVLLLIDNIFRFIQAGSEVSGLLGQMPSRLGYQPTLGTEL  272 (449)
T ss_pred             cccceEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEecChHHHHHHHHHHHHHcCCCCCccCcCchHHHHh
Confidence            999999999999999999999999999999999999 8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       816 ~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      ++|+||+|+.++||||+||||++|+||++|||+|++++||||||||||+||++||||||||+.|+||+|++.+++++|++
T Consensus       273 ~~L~ERag~~~~GSIT~i~~V~~~~dD~~dPi~d~~~silDG~IvLsr~La~~g~yPAIDvl~S~SR~~~~~i~~~~h~~  352 (449)
T TIGR03305       273 AELEERIATTSDGAITSIQAVYVPADDFTDPAAVHTFSHLSASLVLSRKRASEGLYPAIDPLQSTSKMATPGIVGERHYD  352 (449)
T ss_pred             HHHHHhhcCCCCcCeeEEEEEEccCCCCCCchhHhhhhhcceEEEEcHHHHhCCCCCccCCCcchhhcCCcccCCHHHHH
Confidence            99999999989999999999999999999999999999999999999999999999999999999999977889999999


Q ss_pred             HHHHHHHHHHccHhhhhcc
Q psy210          896 VANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++++|++|++|+|++++.
T Consensus       353 ~a~~~~~~l~~y~e~~~li  371 (449)
T TIGR03305       353 LAREVRQTLAQYEELKDII  371 (449)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999963

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.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=100.00  E-value=7.1e-93  Score=805.24  Aligned_cols=417  Identities=22%  Similarity=0.297  Sum_probs=380.0

Q ss_pred             eeEEEEeec--ChhhcccccccccCCCceEeeEeec-cchhHHHhhcccchhhccccccccCCCcccccCccceeccccc
Q psy210          121 AYNIEYDYF--DPRCLNQTLNIKFANNTVLSGQING-TTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFE  197 (915)
Q Consensus       121 g~~~~~~~~--~p~~L~~~le~~~~~g~~~aGQI~G-t~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~  197 (915)
                      |-.++-.+.  .+..+++.+.+....+....++|.+ .++  +    .+.+++++.+.+++.|++|.++++++++|++++
T Consensus        11 g~~v~~~~~~~~~~~ige~~~i~~~~~~~~~~EVv~~~~~--~----~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~   84 (463)
T PRK09280         11 GPVVDVEFPRGELPKIYNALEVEKGDGKKLVLEVAQHLGD--G----VVRTIAMGSTDGLVRGMEVIDTGAPISVPVGKA   84 (463)
T ss_pred             ccEEEEEeCCCCCccccCEEEEEeCCCCeEEEEeeEEecC--C----eEEEEEecCccCCCCCCEEEeCCCceEEEcChh
Confidence            344555554  2448899998831212236679998 765  2    346789999999999999999999999999999


Q ss_pred             cceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHH
Q psy210          198 LLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDT  277 (915)
Q Consensus       198 lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~  277 (915)
                      +|||++|++|+|||+++++....+||++.++|+|++|..+++||.||||+||.|+|||+|||++|||++|+|||+| +.+
T Consensus        85 lLGRViD~~G~pld~~~~~~~~~~~pi~~~~~~~~~R~~~~~~l~TGiraID~l~pigkGQR~gIfa~~GvGKt~L-l~~  163 (463)
T PRK09280         85 TLGRIFNVLGEPIDEKGPIGAEERWPIHRKAPSFEELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVL-IQE  163 (463)
T ss_pred             hcCCEEeeeccccCCCCCcCccceecccCCCCChHHhCCccceeccCCeeecccCCcccCCEEEeecCCCCChhHH-HHH
Confidence            9999999999999999888777789999999999999999999999999999999999999999999999999999 555


Q ss_pred             HHh-hc-CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEE
Q psy210          278 IIN-QK-NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLII  354 (915)
Q Consensus       278 i~~-~~-~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~  354 (915)
                      |++ ++ +.+.+|||++||||++||.+|++++.+.++++||++|++|+|+||.+|++++|+|+|+|||||+ +|+|||++
T Consensus       164 i~~~~~~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLll  243 (463)
T PRK09280        164 LINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVALTGLTMAEYFRDVEGQDVLLF  243 (463)
T ss_pred             HHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEE
Confidence            554 42 3345589999999999999999999999999999999999999999999999999999999999 99999999


Q ss_pred             eccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcc
Q psy210          355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFI  434 (915)
Q Consensus       355 ~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi  434 (915)
                      +|||||||+|+||||+++||||+++|||||+|+.||+|+||||+..             +||||+||+|++|+||++|||
T Consensus       244 ~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~L~ERag~~~-------------~GSITai~tVl~~gdD~~dPI  310 (463)
T PRK09280        244 IDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERITSTK-------------KGSITSVQAVYVPADDLTDPA  310 (463)
T ss_pred             ecchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHHHHHHHhcCCC-------------CCceeEEEEEECcCCCCCCcc
Confidence            9999999999999999999999999999999999999999999741             799999999999999999999


Q ss_pred             ccccccccCcEEEeehhhhhcCCCCeeeecCCccccc-cccccHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCCHHHH
Q psy210          435 PTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG-GAAQYKIVKKLSGDIRIMLAQYRELESFSKFS--SDLDIVTK  511 (915)
Q Consensus       435 ~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~-~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld~~~~  511 (915)
                      +|++++|+||||+|||+||++||||||||+.|+||+| ...+.++|++++.++|+.|++|+|++++++++  ..+++.++
T Consensus       311 ~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~~a~~~r~~la~y~e~e~li~i~gy~~~sd~~d  390 (463)
T PRK09280        311 PATTFAHLDATTVLSRQIAELGIYPAVDPLDSTSRILDPLIVGEEHYDVAREVQQILQRYKELQDIIAILGMDELSEEDK  390 (463)
T ss_pred             hHhhhhhcceEEEEcHHHHhCCCCCccCCccccccccccccCCHHHHHHHHHHHHHHHHhHHHHHHHHhhCCccCCHHHH
Confidence            9999999999999999999999999999999999999 45667999999999999999999999999875  36777799


Q ss_pred             HHHHhHHHHHHHhhcCC----------CCCccHHHHHHHHHHHhcccccccchhhH
Q psy210          512 TQLYNGEKISLLMKQKP----------HENYSIVELIIILLIIKNRFFFKIPIKQI  557 (915)
Q Consensus       512 ~~L~~~~~i~~fL~Q~~----------~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev  557 (915)
                      ++++++++|++||+|+.          .+..++++++..|..+.+|-++++|..+.
T Consensus       391 ~ai~~~~~i~~fL~Q~~~~~~~ft~~~~~~~~~~~~~~~l~~i~~g~~~~~~~~~~  446 (463)
T PRK09280        391 LTVARARKIQRFLSQPFFVAEQFTGSPGKYVPLKDTIRGFKEILEGEYDHLPEQAF  446 (463)
T ss_pred             HHHHhhHHHHHhccCCcchhhcccCCCCcccCHHHHHHHHHHHhCCCccCCCHHHH
Confidence            99999999999999999          99999999999999999999999987654

>PRK06936 type III secretion system ATPase; Provisional

Probab=100.00  E-value=2.4e-92  Score=797.53  Aligned_cols=394  Identities=26%  Similarity=0.365  Sum_probs=373.6

Q ss_pred             ChhhcccccccccC-CCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCce
Q psy210          130 DPRCLNQTLNIKFA-NNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGE  208 (915)
Q Consensus       130 ~p~~L~~~le~~~~-~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~  208 (915)
                      ....+++.+++... .+.-..|+|.|+++  +.    +.+++++.+.+++.|++|.+||+++++|+|+++||||+|++|+
T Consensus        40 ~~~~~ge~~~i~~~~~~~~~~~eVv~~~~--~~----~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~lLGRV~d~~G~  113 (439)
T PRK06936         40 PGVRIGELCYLRNPDNSLSLQAEVIGFAQ--HQ----ALLTPLGEMYGISSNTEVSPTGTMHQVGVGEHLLGRVLDGLGQ  113 (439)
T ss_pred             CCCCCCCEEEEecCCCCcceEEEEEEEEC--Ce----EEEEecCCCCCCCCCCEEEeCCCceEEEeCccccCCEECCCCC
Confidence            35689999998643 23247889999998  33    3788999999999999999999999999999999999999999


Q ss_pred             eecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEE
Q psy210          209 FIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC  288 (915)
Q Consensus       209 PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~  288 (915)
                      |||+++++....+++++.++|||++|..+++||+|||++||.++|+++|||++|||++|+|||+| +.+|+++.++++ |
T Consensus       114 plD~~~~~~~~~~~pi~~~~p~p~~R~~i~~~l~TGi~vid~l~~i~~Gq~~~I~G~sG~GKStL-l~~Ia~~~~~dv-~  191 (439)
T PRK06936        114 PFDGGHPPEPAAWYPVYADAPAPMSRRLIETPLSLGVRVIDGLLTCGEGQRMGIFAAAGGGKSTL-LASLIRSAEVDV-T  191 (439)
T ss_pred             ccCCCCCCCccceeeccCCCCChHHccccCCCCcCCcceeeeeEEecCCCEEEEECCCCCChHHH-HHHHhcCCCCCE-E
Confidence            99999888777778999999999999999999999999999999999999999999999999999 899999999997 8


Q ss_pred             EEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHH
Q psy210          289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI  368 (915)
Q Consensus       289 V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~rei  368 (915)
                      ||++||||+||+.+|++...+...++||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++|||||||+|+|||
T Consensus       192 V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfrd~G~~Vll~~DslTR~A~A~REi  271 (439)
T PRK06936        192 VLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMDSVTRFARAQREI  271 (439)
T ss_pred             EEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHH
Confidence            99999999999999998866666699999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEe
Q psy210          369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFL  448 (915)
Q Consensus       369 s~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~L  448 (915)
                      |+++||||+++||||++|+.||+|+||||+.+             +||||+||+|++|+||++|||||+++||+||||+|
T Consensus       272 sl~~gepP~~~gyp~svfs~l~~l~ERaG~~~-------------~GSIT~i~tVl~~gdD~~dpI~d~~~silDGhIvL  338 (439)
T PRK06936        272 GLAAGEPPTRRGYPPSVFAALPRLMERAGQSD-------------KGSITALYTVLVEGDDMTEPVADETRSILDGHIIL  338 (439)
T ss_pred             HHhcCCCCccccCCccHHHHHHHHHHhhccCC-------------CcceeeeEEEEccCCCCCcchHHHhhhhcceEEEE
Confidence            99999999999999999999999999999741             79999999999999999999999999999999999


Q ss_pred             ehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHhHHHHHHHhh
Q psy210          449 DTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYNGEKISLLMK  525 (915)
Q Consensus       449 sr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~~~~i~~fL~  525 (915)
                      ||+||++||||||||+.|+||+|+.++.++|++++.++|+.|++|+|+++++++|.   ++|+++|+++.++++|++||+
T Consensus       339 sr~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~la~y~e~e~li~iG~y~~g~d~~~d~ai~~~~~i~~fL~  418 (439)
T PRK06936        339 SRKLAAANHYPAIDVLRSASRVMNQIVSKEHKTWAGRLRELLAKYEEVELLLQIGEYQKGQDKEADQAIERIGAIRGFLR  418 (439)
T ss_pred             CHHHHhCCCCCccCCcccccccchhhCCHHHHHHHHHHHHHHHcchHHHHHHHhcCccCCCCHHHHHHHHhHHHHHHHcC
Confidence            99999999999999999999999999999999999999999999999999999995   899999999999999999999


Q ss_pred             cCCCCCccHHHHHHHHHHH
Q psy210          526 QKPHENYSIVELIIILLII  544 (915)
Q Consensus       526 Q~~~e~~s~ee~l~~L~ai  544 (915)
                      |+.+++.++++++..|..+
T Consensus       419 Q~~~~~~~~~~~~~~l~~~  437 (439)
T PRK06936        419 QGTHELSHFNETLNLLETL  437 (439)
T ss_pred             CCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999854

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=100.00  E-value=1.7e-92  Score=805.55  Aligned_cols=415  Identities=21%  Similarity=0.279  Sum_probs=382.8

Q ss_pred             eeEEEEeecCh--hhcccccccccCCCceEeeEeecc-chhHHHhhcccchhhccccccccCCCcccccCccceeccccc
Q psy210          121 AYNIEYDYFDP--RCLNQTLNIKFANNTVLSGQINGT-TGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFE  197 (915)
Q Consensus       121 g~~~~~~~~~p--~~L~~~le~~~~~g~~~aGQI~Gt-~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~  197 (915)
                      |..++......  ..+++.+.++..++. ..++|.+. .+  +    -+.+++++.+.+++.|++|.+|++++++|+|++
T Consensus        11 g~vi~v~g~~~~~~~ige~~~i~~~~~~-~~~eVv~~l~~--~----~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~   83 (461)
T PRK12597         11 GDVVDVEFEEGALPPINQALTVHDDGGP-TLLEVKQHLDE--T----TVRAIALGSTSGLARGDEVRNTGGPIEVPVGEA   83 (461)
T ss_pred             CcEEEEEECCCCCcCccCEEEEecCCCc-EEEEEEEEcCC--C----eEEEEEecCccCCCCCCEEEeCCCceEEEcChh
Confidence            45666666643  789999998643444 67799998 54  2    246788999999999999999999999999999


Q ss_pred             cceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHH
Q psy210          198 LLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDT  277 (915)
Q Consensus       198 lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~  277 (915)
                      +||||+|++|+|||+.+++....+++++.++|||++|.++++||+||||+||.|+|||+|||+||||++|+|||+| +.+
T Consensus        84 llGRVid~~G~plD~~~~~~~~~~~~i~~~~p~~~~R~~~~e~l~TGir~ID~l~pigkGQR~gIfa~~G~GKt~L-l~~  162 (461)
T PRK12597         84 VLGRLLDVLGEPLDGGPPLPAEERRPIHSTIPPLAEQDTSTEILETGIKVIDLLCPIAKGGKTGLFGGAGVGKTVL-MME  162 (461)
T ss_pred             hcCCEEeeccccccCCCCCCCcceeeccCCCcChhhcCCcCcceecCCeeecccCccccCCEEEeecCCCCChhHH-HHH
Confidence            9999999999999999887776789999999999999999999999999999999999999999999999999999 556


Q ss_pred             HHhhc---CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhc-CCcEEE
Q psy210          278 IINQK---NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL-GQDCLI  353 (915)
Q Consensus       278 i~~~~---~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~-g~~Vlv  353 (915)
                      |+++.   +++ +|||++||||+|||.+|++++++.++++||++|++++|+||.+|++++|+|+|+|||||++ |+|||+
T Consensus       163 ~~~~~~~~~~d-v~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyfrd~~G~~VLl  241 (461)
T PRK12597        163 LIFNISKQHSG-SSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRDEEKEDVLL  241 (461)
T ss_pred             HHHHHHhhCCC-EEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEE
Confidence            55542   255 4899999999999999999999999999999999999999999999999999999999997 999999


Q ss_pred             EeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCc
Q psy210          354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF  433 (915)
Q Consensus       354 ~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~p  433 (915)
                      ++|||||||+|+||||+++||||+++||||++|+.+++|+||||+.             ++||||+||+|++|+||++||
T Consensus       242 ~~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~~l~ERag~~-------------~~GSIT~i~tVl~~~dD~~dP  308 (461)
T PRK12597        242 FIDNIFRFVQAGSEVSGLLGRMPSRVGYQPTLASEVAELQERIAST-------------KNGSITSIQAVYVPADDLTDP  308 (461)
T ss_pred             EeccchHHHHHHHHHHHhcCCCCCcCCcCchhHHHHHHHHHhhcCC-------------CCccccEEEEEEecCCCCCCc
Confidence            9999999999999999999999999999999999999999999863             179999999999999999999


Q ss_pred             cccccccccCcEEEeehhhhhcCCCCeeeecCCccccc-cccccHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCCHHH
Q psy210          434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG-GAAQYKIVKKLSGDIRIMLAQYRELESFSKFS--SDLDIVT  510 (915)
Q Consensus       434 i~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~-~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld~~~  510 (915)
                      |||++++|+||||+|||+||++||||||||+.|+||++ .....++|++++.++|+.|++|+|++++++++  ..+|+++
T Consensus       309 I~d~~~~ilDG~IvLsr~La~~g~yPAIDvl~S~SR~~~~~i~~~~h~~~a~~~r~~la~y~e~e~li~i~gy~~l~~~~  388 (461)
T PRK12597        309 AAVAIFSHLDSTVVLSRAQAAKGIYPAIDPLASSSNLLDPLVVGERHYDAAIEVKRILQRYKELEDVIAILGIDELSAED  388 (461)
T ss_pred             cHHHHHhhcceEEEEcHHHHhCCCCCccCCccccccccccccCCHHHHHHHHHHHHHHHhhhhHHHHHHHcCCccCCHHH
Confidence            99999999999999999999999999999999999999 66778999999999999999999999999965  3799999


Q ss_pred             HHHHHhHHHHHHHhhcCC----------CCCccHHHHHHHHHHHhcccccccchhhH
Q psy210          511 KTQLYNGEKISLLMKQKP----------HENYSIVELIIILLIIKNRFFFKIPIKQI  557 (915)
Q Consensus       511 ~~~L~~~~~i~~fL~Q~~----------~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev  557 (915)
                      +++++++++|++||+|+.          .++.++++++..++.+.+|-++.+|..+.
T Consensus       389 d~~i~~~~~i~~fL~Q~~~~~~~~t~~~~~~~~~~~~~~~l~~i~~g~~~~~~~~~~  445 (461)
T PRK12597        389 KIIVKRARQLQRFLTQPFFVTEAFTGEPGVSVPLEETLDSCERILNGEYDDWSEESF  445 (461)
T ss_pred             HHHHHhHHHHHHHhCCCcchhhcccCCCCcccCHHHHHHHHHHHhCCCccCCCHHHH
Confidence            999999999999999999          78999999999999999999999987654

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.9e-92  Score=794.02  Aligned_cols=394  Identities=24%  Similarity=0.346  Sum_probs=372.5

Q ss_pred             hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceee
Q psy210          131 PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFI  210 (915)
Q Consensus       131 p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~Pi  210 (915)
                      +..+++.+.+...++. ..+||.|++|  +    .+.+++++.+.+++.|++|.++|+++++|+|+++||||+|++|+||
T Consensus        43 ~~~ige~~~i~~~~~~-~~~EVv~~~~--~----~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRVid~~G~pl  115 (444)
T PRK08972         43 RAPVGSLCSIETMAGE-LEAEVVGFDG--D----LLYLMPIEELRGVLPGARVTPLGEQSGLPVGMSLLGRVIDGVGNPL  115 (444)
T ss_pred             CCCCCCEEEEecCCCc-EEEEEEEecC--C----EEEEEECCCcCCCCCCCEEEECCCccEEEcChhhcCCeECCCCCCc
Confidence            3678999988432343 6779999998  2    3478899999999999999999999999999999999999999999


Q ss_pred             cCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEE
Q psy210          211 DNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIY  290 (915)
Q Consensus       211 D~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~  290 (915)
                      |+++++....+++++.++|||++|.++++||+|||++||.++|+++|||++|||++|+||||| +.+|+++...++ +|+
T Consensus       116 D~~~~~~~~~~~~i~~~~~~p~~R~~i~e~l~TGi~aID~ll~i~~GqrigI~G~sG~GKSTL-L~~I~~~~~~dv-~Vi  193 (444)
T PRK08972        116 DGLGPIYTDQRASRHSPPINPLSRRPITEPLDVGVRAINAMLTVGKGQRMGLFAGSGVGKSVL-LGMMTRGTTADV-IVV  193 (444)
T ss_pred             CCCCCCCCCccccccCCCCChhhcCCCCCcccccceeecceEEEcCCCEEEEECCCCCChhHH-HHHhccCCCCCE-EEE
Confidence            999888777788999999999999999999999999999999999999999999999999999 799998888887 456


Q ss_pred             EeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHh
Q psy210          291 VCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISL  370 (915)
Q Consensus       291 ~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~  370 (915)
                      ++||||++||.+|++++.+.+.++|||+|++|+|+||.+|+++||+|+|+||||||+|+|||+++|||||||+|+||||+
T Consensus       194 ~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~G~~VLl~~DslTR~A~A~REIsl  273 (444)
T PRK08972        194 GLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREIAL  273 (444)
T ss_pred             EEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChHHHHHHHHHHHH
Confidence            99999999999999998888889999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeeh
Q psy210          371 LLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDT  450 (915)
Q Consensus       371 ~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr  450 (915)
                      ++||||+++||||++|+.||+|+||||+...           ++||||+||+|++|+||++|||||+++||+||||||||
T Consensus       274 ~~gepP~~~GYPpsvfs~l~~L~ERAg~~~~-----------~~GSITai~tVl~~gdD~~dpI~d~~~silDGhIvLsr  342 (444)
T PRK08972        274 AVGEPPATKGYPPSVFAKLPALVERAGNGGP-----------GQGSITAFYTVLTEGDDLQDPIADASRAILDGHIVLSR  342 (444)
T ss_pred             hcCCCCccccCCchHHHHhHHHHHHhcCCCC-----------CCceeeeEEEEEEeCCCCCcchHHhhhhhcceEEEEcH
Confidence            9999999999999999999999999998632           27999999999999999999999999999999999999


Q ss_pred             hhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhHHHHHHHhhcC
Q psy210          451 NLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNGEKISLLMKQK  527 (915)
Q Consensus       451 ~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~~~i~~fL~Q~  527 (915)
                      +||++||||||||+.|+||+|+.++.++|+++|.++|+.|++|+|+++++++|   .++|+++|++|+++++|++||+|+
T Consensus       343 ~La~~g~yPAIDvl~S~SR~~~~i~~~~h~~~a~~~r~~ls~y~~~e~li~~g~y~~g~d~~~d~ai~~~~~i~~fl~Q~  422 (444)
T PRK08972        343 ELADSGHYPAIDIEASISRVMPMVISEEHLEAMRRVKQVYSLYQQNRDLISIGAYKQGSDPRIDNAIRLQPAMNAFLQQT  422 (444)
T ss_pred             HHHhCCCCCeeCCccccccCchhcCcHHHHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCHHHHHHHHhhHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999987   599999999999999999999999


Q ss_pred             CCCCccHHHHHHHHHHH
Q psy210          528 PHENYSIVELIIILLII  544 (915)
Q Consensus       528 ~~e~~s~ee~l~~L~ai  544 (915)
                      .+++.++++++..|..+
T Consensus       423 ~~~~~~~~~~~~~l~~~  439 (444)
T PRK08972        423 MKEAVPYDMSVNMLKQL  439 (444)
T ss_pred             CCCCCCHHHHHHHHHHH
Confidence            99999999999999854

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=100.00  E-value=5.6e-93  Score=809.45  Aligned_cols=337  Identities=62%  Similarity=0.993  Sum_probs=327.7

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...||+..++++.+++++++++.||+.|+.|..+++++++|+|+++||||+|++|+|||+.+++...++||++..+||++
T Consensus        39 ~~~eVv~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~llGRVid~~G~plD~~~~~~~~~~~~i~~~~p~~~  118 (461)
T PRK12597         39 TLLEVKQHLDETTVRAIALGSTSGLARGDEVRNTGGPIEVPVGEAVLGRLLDVLGEPLDGGPPLPAEERRPIHSTIPPLA  118 (461)
T ss_pred             EEEEEEEEcCCCeEEEEEecCccCCCCCCEEEeCCCceEEEcChhhcCCEEeeccccccCCCCCCCcceeeccCCCcChh
Confidence            44577755599999999999999999999999999999999999999999999999999998877777899999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++|+||||+||+|+|||||||+||||++|+|||+|+.|+++|++++|+|++||++||||+|||+||++++++++
T Consensus       119 ~R~~~~e~l~TGir~ID~l~pigkGQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGER~rEv~ef~~~~~~~~  198 (461)
T PRK12597        119 EQDTSTEILETGIKVIDLLCPIAKGGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGERSREGHELYHEMKESG  198 (461)
T ss_pred             hcCCcCcceecCCeeecccCccccCCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCcchHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999888999999999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      +++||++|++|||+||.+|++++|+|+++||||||+ |+||||++||+||||+|+||||+++||||+++||||++|++|+
T Consensus       199 ~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEyfrd~~G~~VLl~~DslTR~A~A~REisl~~gepP~~~GYPpsvfs~l~  278 (461)
T PRK12597        199 VLDKTVMVYGQMNEPPGARMRVVLTGLTIAEYLRDEEKEDVLLFIDNIFRFVQAGSEVSGLLGRMPSRVGYQPTLASEVA  278 (461)
T ss_pred             CcceeEEEecCCCCCHHHHHHHHHHHHHHHHHHHHhcCCceEEEeccchHHHHHHHHHHHhcCCCCCcCCcCchhHHHHH
Confidence            999999999999999999999999999999999998 9999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHH
Q psy210          817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKV  896 (915)
Q Consensus       817 ~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~  896 (915)
                      +|+||+++.++||||+||||++|+||++|||+|++++||||||+|||+||++||||||||++|+||+|++.+++++|+++
T Consensus       279 ~l~ERag~~~~GSIT~i~tVl~~~dD~~dPI~d~~~~ilDG~IvLsr~La~~g~yPAIDvl~S~SR~~~~~i~~~~h~~~  358 (461)
T PRK12597        279 ELQERIASTKNGSITSIQAVYVPADDLTDPAAVAIFSHLDSTVVLSRAQAAKGIYPAIDPLASSSNLLDPLVVGERHYDA  358 (461)
T ss_pred             HHHHhhcCCCCccccEEEEEEecCCCCCCccHHHHHhhcceEEEEcHHHHhCCCCCccCCccccccccccccCCHHHHHH
Confidence            99999999889999999999999999999999999999999999999999999999999999999999778999999999


Q ss_pred             HHHHHHHHHccHhhhhcc
Q psy210          897 ANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       897 ~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++|++|++|+|+|+|.
T Consensus       359 a~~~r~~la~y~e~e~li  376 (461)
T PRK12597        359 AIEVKRILQRYKELEDVI  376 (461)
T ss_pred             HHHHHHHHHhhhhHHHHH
Confidence            999999999999999975

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=6.2e-92  Score=794.78  Aligned_cols=406  Identities=23%  Similarity=0.301  Sum_probs=378.6

Q ss_pred             eeEEEEeecC-hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccc
Q psy210          121 AYNIEYDYFD-PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELL  199 (915)
Q Consensus       121 g~~~~~~~~~-p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lL  199 (915)
                      |..++..... ...+++.++++..++....|||.+.++  +    .+.+++++.+.|++.|++|.++++++++|+++++|
T Consensus        26 g~~i~v~g~~~~~~~ge~~~i~~~~~~~~~~eVv~~~~--~----~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~ll   99 (442)
T PRK08927         26 GLLVEVAGPIHALSVGARIVVETRGGRPVPCEVVGFRG--D----RALLMPFGPLEGVRRGCRAVIANAAAAVRPSRAWL   99 (442)
T ss_pred             ccEEEEEecCCCCCcCCEEEEEcCCCCEEEEEEEEEcC--C----eEEEEEccCccCCCCCCEEEeCCCccEEECChhhC
Confidence            4566666663 458999999976455347889999998  3    24788999999999999999999999999999999


Q ss_pred             eeEeCCCceeecCCCccccc-ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHH
Q psy210          200 GRIVNSKGEFIDNKKKFLIK-NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTI  278 (915)
Q Consensus       200 GrviD~lG~PiD~~~~~~~~-~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i  278 (915)
                      |||+|++|+|||+++++... .+++++.+||||++|..+++||+||||+||.|+|+++|||++|||++|+|||+| +++|
T Consensus       100 GRVid~~G~piDg~~~~~~~~~~~~i~~~~p~~~~R~~~~~~l~TGir~ID~l~~i~~Gqri~I~G~sG~GKTtL-L~~I  178 (442)
T PRK08927        100 GRVVNALGEPIDGKGPLPQGPVPYPLRAPPPPAHSRARVGEPLDLGVRALNTFLTCCRGQRMGIFAGSGVGKSVL-LSML  178 (442)
T ss_pred             CCEEccCCCCccCCCCCCCCcccccccCCCcChHHcCCcccccccceEEEeeeeEEcCCCEEEEECCCCCCHHHH-HHHH
Confidence            99999999999999877664 578999999999999999999999999999999999999999999999999999 7999


Q ss_pred             HhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccc
Q psy210          279 INQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDL  358 (915)
Q Consensus       279 ~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddl  358 (915)
                      +++.+.++ +||++||||+||+.+|+++..+...++|||+|++++|+||.+|+++||+|+|+||||||+|+|||+++|||
T Consensus       179 ~~~~~~d~-~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~Vll~~Dsl  257 (442)
T PRK08927        179 ARNADADV-SVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSV  257 (442)
T ss_pred             HhccCCCE-EEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCc
Confidence            99988887 56899999999999999865555559999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccc
Q psy210          359 TKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNV  438 (915)
Q Consensus       359 tr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~  438 (915)
                      ||||+|+||||+++||||+++||||++|+.||+|+||||+...           ++||||+||+|++|+||++|||||++
T Consensus       258 Tr~A~A~REisl~~ge~P~~~Gyp~~~f~~l~~l~ERaG~~~~-----------~~GSIT~i~tVlv~gdD~~dpi~d~~  326 (442)
T PRK08927        258 TRFAMAQREIGLSAGEPPTTKGYTPTVFAELPRLLERAGPGPI-----------GEGTITGLFTVLVDGDDHNEPVADAV  326 (442)
T ss_pred             HHHHhhhhHHHHhcCCCCcccCCCcchHHHhhHHHHHhcCCCC-----------CCeeeeeeeeeEccCCCCCCchhhhh
Confidence            9999999999999999999999999999999999999998632           27999999999999999999999999


Q ss_pred             ccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHH
Q psy210          439 ISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLY  515 (915)
Q Consensus       439 ~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~  515 (915)
                      ++|+||||+|||+||++||||||||+.|+||+|++++.++|++++..+|++|++|+|+++++++|.   +.|+++|++++
T Consensus       327 ~~i~Dg~ivLsr~La~~g~~PAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~edli~lg~y~~g~d~~~d~ai~  406 (442)
T PRK08927        327 RGILDGHIVMERAIAERGRYPAINVLKSVSRTMPGCNDPEENPLVRRARQLMATYADMEELIRLGAYRAGSDPEVDEAIR  406 (442)
T ss_pred             hccccEEEEEcHHHHhCCCCCccCCcccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhCCcCCCCHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999984   99999999999


Q ss_pred             hHHHHHHHhhcCCCCCccHHHHHHHHHHHh
Q psy210          516 NGEKISLLMKQKPHENYSIVELIIILLIIK  545 (915)
Q Consensus       516 ~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~  545 (915)
                      ++++|++||+|+.+++.++++++..||.+.
T Consensus       407 ~~~~i~~fL~Q~~~e~~~~~~~~~~l~~l~  436 (442)
T PRK08927        407 LNPALEAFLRQGKDEATSLAEGYARLAQIL  436 (442)
T ss_pred             ccHHHHHhcCCCCCCCCCHHHHHHHHHHHh
Confidence            999999999999999999999999999754

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=6.8e-92  Score=790.73  Aligned_cols=409  Identities=18%  Similarity=0.202  Sum_probs=379.7

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.++..+ ....+++.+++...++ ...|||.++++  +    -+.+++|+.+.|++.|++|.+||+++++|+|+++|||
T Consensus        14 ~~v~v~~-~~~~~ge~~~i~~~~~-~~~geVi~~~~--~----~v~~~~~~~t~Gl~~g~~V~~tg~~~~vpvg~~lLGR   85 (436)
T PRK02118         14 NVITVEA-EGVGYGELATVERKDG-SSLAQVIRLDG--D----KVTLQVFGGTRGISTGDEVVFLGRPMQVTYSESLLGR   85 (436)
T ss_pred             cEEEEEe-CCCCCCCEEEEEcCCC-CEEEEEEEEcC--C----EEEEEEecCCcCCCCCCEEEeCCCceEEEcCccccCC
Confidence            3444555 2357889998865455 47889999987  3    3578899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+|++|+|||+++++.. ..++++++||||++|.++++||+|||++||.|+|||||||+||||++|+|||+| +.+|++|
T Consensus        86 V~d~~G~PiD~~~~~~~-~~~~i~~~~~~p~~R~~~~e~l~TGIkaID~l~pl~rGQkigIF~gaGvgk~~L-~~~ia~~  163 (436)
T PRK02118         86 RFNGSGKPIDGGPELEG-EPIEIGGPSVNPVKRIVPREMIRTGIPMIDVFNTLVESQKIPIFSVSGEPYNAL-LARIALQ  163 (436)
T ss_pred             EEccCCcccCCCCCCCc-ceeecCCCCCChHHcCCcccccccCcEEeecccccccCCEEEEEeCCCCCHHHH-HHHHHHh
Confidence            99999999999877654 348999999999999999999999999999999999999999999999999999 8999999


Q ss_pred             cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcC-CcEEEEeccchh
Q psy210          282 KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG-QDCLIIYDDLTK  360 (915)
Q Consensus       282 ~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g-~~Vlv~~Ddltr  360 (915)
                      ++.++ +||++||||.+|+.+|++++++.++++||++|++++|+||.+|+++|++|+|+|||||++| +|||+++|||||
T Consensus       164 ~~~~v-~Vfa~iGeR~rE~~ef~~~~~~~~~l~rtvlv~~~adep~~~R~~~~~~AltiAEyfrd~g~~~VLli~DdlTr  242 (436)
T PRK02118        164 AEADI-IILGGMGLTFDDYLFFKDTFENAGALDRTVMFIHTASDPPVECLLVPDMALAVAEKFALEGKKKVLVLLTDMTN  242 (436)
T ss_pred             hCCCe-EEEEEeccchhHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCCEEEeccCchH
Confidence            99897 7899999999999999999999999999999999999999999999999999999999987 999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccc
Q psy210          361 HAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVIS  440 (915)
Q Consensus       361 ~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~  440 (915)
                      ||+|+||||+++||||+++|||||||+.+++|+||||++++            +||||++|+|++|+||++|||||+++|
T Consensus       243 ~a~A~REIsl~~ge~P~r~GYpp~lfs~L~~l~ERag~~~~------------~GSITai~~V~~p~DD~tdPi~d~~~s  310 (436)
T PRK02118        243 FADALKEISITMDQIPSNRGYPGSLYSDLASRYEKAVDFED------------GGSITIIAVTTMPGDDVTHPVPDNTGY  310 (436)
T ss_pred             HHHHHHHHHHhcCCCCCCCCcCCcHHHHHHHHHHhcCCCCC------------CeeEEEEEEEEcCCCCcCccHHHHHHH
Confidence            99999999999999999999999999999999999998742            699999999999999999999999999


Q ss_pred             ccCcEEEeehhhhhcCCCCeeeecCCcccccccccc----HHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHh
Q psy210          441 ITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQY----KIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYN  516 (915)
Q Consensus       441 i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~----~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~  516 (915)
                      ||||||||||+|        |||+.|+||+|+.++.    ++|+++|.++|+.|++|+|+++++++|.+|+++|++++++
T Consensus       311 ilDGqIvLsR~l--------ID~l~S~SRl~~~v~g~~t~~~h~~~a~~l~~~~a~y~e~~dli~iG~eLs~~d~~~l~~  382 (436)
T PRK02118        311 ITEGQFYLRRGR--------IDPFGSLSRLKQLVIGKKTREDHGDLMNAMIRLYADSREAKEKMAMGFKLSNWDEKLLKF  382 (436)
T ss_pred             hcCcEEEecccc--------ccCccccccccccccCccccHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCHHHHHHHHH
Confidence            999999999999        9999999999987766    7999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Q psy210          517 GEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIK  566 (915)
Q Consensus       517 ~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~  566 (915)
                      +++|++||-|.+ +.++++++++..|    .+|+.+|.+++..+..++++
T Consensus       383 ~~~~e~~~~~~g-~~~~~~etl~~~~----~~l~~~~~~~~~~~~~~~~~  427 (436)
T PRK02118        383 SELFESRLMDLE-VNIPLEEALDLGW----KILAQCFHPEEVGIKEQLID  427 (436)
T ss_pred             HHHHHHHhhcCC-CcccHHHHHHHHH----HHHHHCCHHHHhcCCHHHHH
Confidence            999987555544 8899999999999    56899999999999988775

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=100.00  E-value=3e-92  Score=801.46  Aligned_cols=337  Identities=64%  Similarity=1.004  Sum_probs=321.4

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...||+...+.+.+++++|++++||+.|++|..+++++++|+|+++||||+|++|+|||+++++...+++|++..+|+++
T Consensus        57 ~~~EVvg~~~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVid~~G~piDg~~~~~~~~~~pi~~~~p~~~  136 (494)
T CHL00060         57 VTCEVQQLLGNNRVRAVAMSATDGLMRGMEVIDTGAPLSVPVGGATLGRIFNVLGEPVDNLGPVDTRTTSPIHRSAPAFI  136 (494)
T ss_pred             EEEEEEEEeCCCeEEEEeccCccCCCCCCEEEeCCCcceeecchhhcCCEEeecCcccCCCCCCCCCccccccCCCcCch
Confidence            34577655555999999999999999999999999999999999999999999999999998877777889999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++|+||||+||+|+|||||||+||||++|+|||+|+.|+++|+++.++|++||++||||+|||+||++++++.+
T Consensus       137 ~R~~i~e~L~TGIraID~l~pigkGQR~gIfgg~GvGKs~L~~~~~~~~~~~~~dv~V~~lIGERgrEv~efi~~~~~~~  216 (494)
T CHL00060        137 QLDTKLSIFETGIKVVDLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGERTREGNDLYMEMKESG  216 (494)
T ss_pred             hcccccceeecCceeeeccCCcccCCEEeeecCCCCChhHHHHHHHHHHHHhcCCeEEEEEeccCchHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999987666799999999999999999999998855


Q ss_pred             c-------cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCC-cEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcc
Q psy210          738 V-------LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGK-DVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP  809 (915)
Q Consensus       738 ~-------~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~-~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~  809 (915)
                      +       ++||++|++|||+||.+|+++||+|+++||||||+|+ ||||+|||+||||+|+||||+++||||+++||||
T Consensus       217 ~~~~~~~~~~rsvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~A~A~REIsl~~gepP~~~GYPp  296 (494)
T CHL00060        217 VINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQP  296 (494)
T ss_pred             ccccCcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHHHHHHHHHHHhcCCCCCCCCcCC
Confidence            4       5589999999999999999999999999999999976 9999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCC
Q psy210          810 TLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIV  889 (915)
Q Consensus       810 ~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~  889 (915)
                      |+|+.|++|+||+|+.++||||+||||++++||++|||+|++++||||||||||+||++||||||||+.|+||++.+.++
T Consensus       297 svfs~l~~LlERaG~~~~GSITai~tVl~~gdD~tdPI~d~~~silDGhIvLsr~La~~G~yPAIDvl~SvSR~~~~~~v  376 (494)
T CHL00060        297 TLSTEMGSLQERITSTKEGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTMLQPRIV  376 (494)
T ss_pred             CHHHHhHHHHHhccCCCCCCeeEEEEEECCCCCCCCcchHhhhhhcceEEEEcHHHHhCCCCCCcCCccchhhhcccccC
Confidence            99999999999999988999999999999999999999999999999999999999999999999999999999557899


Q ss_pred             CHHHHHHHHHHHHHHHccHhhhhcc
Q psy210          890 GEEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       890 ~~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++|+++++++|++|++|+|+|++.
T Consensus       377 ~~~h~~~a~~~r~~la~y~e~e~li  401 (494)
T CHL00060        377 GEEHYETAQRVKQTLQRYKELQDII  401 (494)
T ss_pred             CHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            9999999999999999999999974

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=100.00  E-value=2e-90  Score=788.48  Aligned_cols=331  Identities=25%  Similarity=0.404  Sum_probs=317.4

Q ss_pred             hhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccc
Q psy210          581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQI  660 (915)
Q Consensus       581 ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~  660 (915)
                      ..+.+|+++.+.+++|+++.||+.|+.|..||+++++|||+++||||+|++|+|+|+++++...++||++.++|++++|.
T Consensus        61 g~Vi~l~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVvd~lG~PiDg~~~~~~~~~~~i~~~~p~~~~R~  140 (497)
T TIGR03324        61 GIAFNVDEDEVGVVLLGEYSHLQAGDEVERTGRVMDVPVGDGLLGRVVDPLGRPLDGGGPLASSPRLPIERPAPPIMDRA  140 (497)
T ss_pred             EEEEEEcCCeEEEEEecCCcCCcCCCEEEECCCCCeEECCHhhCcCEECCCCCCcCCCCCCCCCceeehhccCcCccccC
Confidence            35579999999999999999999999999999999999999999999999999999999887778899999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhH-HHHHHHHHHhcCCcE-EEEEEecCCCchHHHHHHHhhhcCc
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVN-MMELIRNIAIEHKGC-SVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~L-l~~i~~~~~~~~~~~-~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      ++++|++||||+||+|+|||||||+||||++|+|||+| +.+|+++.   +.|+ |||++||||++||.+|+++++++++
T Consensus       141 ~v~epl~TGI~aID~l~pigrGQR~~Ifg~~g~GKT~Lal~~I~~q~---~~dv~~V~~~IGeR~rev~e~i~~l~~~~~  217 (497)
T TIGR03324       141 PVTVPLQTGLKVIDALIPIGRGQRELILGDRQTGKTAIAIDTILNQK---GRNVLCIYCAIGQRASAVAKVVANLREHGA  217 (497)
T ss_pred             CCCchhhcCCEEEeccCCcccCCEEEeecCCCCCHHHHHHHHHHHhc---CCCcEEEEEEeccCcHHHHHHHHHhhhcCC
Confidence            99999999999999999999999999999999999999 45666653   2465 9999999999999999999999999


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      |+||++|++|+|+||.+|+++||+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       218 l~~tvvV~atsd~p~~~r~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL~lgepPgr~gYPg~vF~~~srL  297 (497)
T TIGR03324       218 MDYTIVVVTEGNDPPGLQYIAPYAATSIGEHFMEQGRDVLIVYDDLTQHARAYRELSLLLRRPPGREAFPGDIFYVHSRL  297 (497)
T ss_pred             cceeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhCCCCEEEEEcChhHHHHHHHHHHhhccCCCccCcCCccHHHHhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcC--C--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHH
Q psy210          819 QERISS--T--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHY  894 (915)
Q Consensus       819 ~ERag~--~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~  894 (915)
                      +||+|+  .  ++||||+||+|++++||++|||||++++||||||||||+||++||||||||+.|+||+|. .++.++|+
T Consensus       298 lERag~~~~~~~~GSITal~~V~~~~dD~s~pI~d~v~sItDGqIvLsr~La~~G~~PAIDv~~SvSRv~~-~~~~~~~~  376 (497)
T TIGR03324       298 LERSTHLNEELGGGSLTALPIIETEAQNISAYIPTNLISITDGQIYLSPTLFELGVLPAVDVGKSVSRVGG-KAQLAAYR  376 (497)
T ss_pred             HHhhhhccCCCCCcceeEEEEEEcCCCCCCCcchHhheeccceEEEEcHHHHhCCCCCcCCCccccccCCc-cccCHHHH
Confidence            999997  3  589999999999999999999999999999999999999999999999999999999994 77899999


Q ss_pred             HHHHHHHHHHHccHhhhhccC
Q psy210          895 KVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       895 ~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +++.++|+.|++|+|++++++
T Consensus       377 ~~a~~lr~~la~y~e~e~~~~  397 (497)
T TIGR03324       377 AVAGDLKLAYAQFEELETFAR  397 (497)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999863

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.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=100.00  E-value=2.9e-90  Score=787.80  Aligned_cols=333  Identities=26%  Similarity=0.418  Sum_probs=317.9

Q ss_pred             hhhccccceeeeccccCccCcccCCe-EEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKRNTI-VVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQI  660 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~G~~-V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~  660 (915)
                      .+..|+++.+.+++|+++.||+.|+. |..||+++++|+|+++||||+|++|+|||+++++....++|+++.+|++++|.
T Consensus        40 eVv~~~~~~~~l~~~~~t~gi~~g~~~V~~tg~~~~v~vg~~lLGRViD~~G~plD~~~~~~~~~~~~i~~~~~~~~~R~  119 (458)
T TIGR01041        40 QVLDSSEGLAVVQVFEGTTGLDPTGTKVRFTGETLKLPVSEDMLGRILNGSGEPIDGGPEIVPDERRDINGAPINPYARE  119 (458)
T ss_pred             EEEEEECCEEEEEEecCCcCcCCCCcEEEECCCceEEEcChhhccCEEccCCcccCCCCCCCccceeeccCCCCChhhcC
Confidence            44689999999999999999999997 99999999999999999999999999999988887777899999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhc---CCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE---HKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~---~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +++++++||||+||+|+|||||||+||||++|+|||+|+.||+++...+   +..+|||++||||+|||+||++++++++
T Consensus       120 ~~~~~l~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~  199 (458)
T TIGR01041       120 YPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETG  199 (458)
T ss_pred             CCCCcCCCCeEEEEccCccccCCEEEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999987542   2238999999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHH-HCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~-~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      +|+|||+|++|||+||.+|+++||+|+|+||||| |+|+|||+++||+||||+|+||||+++||||+++|||||+|+.|+
T Consensus       200 ~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~GYP~svfs~l~  279 (458)
T TIGR01041       200 ALERAVVFLNLADDPAVERIVTPRMALTAAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLA  279 (458)
T ss_pred             CcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHccCCcEEEEEcChhHHHHHHHHHHHhcCCCCCCCCcCccHHHHhH
Confidence            9999999999999999999999999999999999 699999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCC----CCCC
Q psy210          817 KLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDP----YIVG  890 (915)
Q Consensus       817 ~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~----~~~~  890 (915)
                      +|+||||+.  ++||||+||||++|+||++|||+|++++||||||+|||+||++||||||||+.|+||+|+.    .+++
T Consensus       280 ~LlERaG~~~~~~GSITai~tV~~~gdD~~dPI~d~~~sIlDGhivLsr~La~~G~yPAIDvl~SvSR~~~~~ig~~~~~  359 (458)
T TIGR01041       280 TIYERAGRVKGKKGSITQMPILTMPGDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPINVLPSLSRLMKDGIGEGKTR  359 (458)
T ss_pred             HHHHhcccCCCCCcceEEEEEEEcCCCCCCCchHHhhhhhcceEEEEcHHHHhCCCCCccCCccchhhcccccccccccC
Confidence            999999986  6899999999999999999999999999999999999999999999999999999999964    2688


Q ss_pred             HHHHHHHHHHHHHHHccHhhhhcc
Q psy210          891 EEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       891 ~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      ++|++++++++..|+++++|+++.
T Consensus       360 ~~~~~~a~~l~~~y~~~~~L~~i~  383 (458)
T TIGR01041       360 EDHKDVSDQLYAAYAEGRDLRGLV  383 (458)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999874

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.3e-89  Score=775.67  Aligned_cols=395  Identities=22%  Similarity=0.354  Sum_probs=373.6

Q ss_pred             hhhcccccccccCCCc---eEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCc
Q psy210          131 PRCLNQTLNIKFANNT---VLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKG  207 (915)
Q Consensus       131 p~~L~~~le~~~~~g~---~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG  207 (915)
                      +..+++.+.+...++.   ...|+|.+.++  +    .+.+++++.+.+++.|++|.++++++++|+|+++||||+|++|
T Consensus        45 ~~~~ge~c~i~~~~~~~~~~~~~eVv~~~~--~----~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRV~d~~G  118 (451)
T PRK05688         45 RAAVGSRCLVINDDSYHPVQVEAEVMGFSG--D----KVFLMPVGSVAGIAPGARVVPLADTGRLPMGMSMLGRVLDGAG  118 (451)
T ss_pred             CCCCCCEEEEecCCCccccceEEEEEEEcC--C----EEEEEEccCccCCCCCCEEEECCCccEEEecccccCCEEeccC
Confidence            4789999998443441   36779999987  3    3588899999999999999999999999999999999999999


Q ss_pred             eeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeE
Q psy210          208 EFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI  287 (915)
Q Consensus       208 ~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~  287 (915)
                      +|||+++++....+++++.+||||+.|.++++||+|||++||.|+|+++|||++|||++|+|||+| +++|+++.+.++ 
T Consensus       119 ~plD~~~~~~~~~~~~i~~~~~~p~~R~~i~~~l~TGi~aID~l~~I~~GqrigI~G~sG~GKSTL-l~~I~g~~~~dv-  196 (451)
T PRK05688        119 RALDGKGPMKAEDWVPMDGPTINPLNRHPISEPLDVGIRSINGLLTVGRGQRLGLFAGTGVGKSVL-LGMMTRFTEADI-  196 (451)
T ss_pred             ceecCCCCCCccceecccCCCCCHHHcccccCCcccceeeecceEEecCCcEEEEECCCCCCHHHH-HHHHhCCCCCCE-
Confidence            999999888777778999999999999999999999999999999999999999999999999999 799998887776 


Q ss_pred             EEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHH
Q psy210          288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQ  367 (915)
Q Consensus       288 ~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~re  367 (915)
                      +|+++||+|++|+.+|++.+.+.+.++|+|+|++++|+||.+|++++++|+|+||||||+|+|||++||||||||+|+||
T Consensus       197 ~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~~a~aiAEyfrd~G~~VLl~~DslTR~A~A~RE  276 (451)
T PRK05688        197 IVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQRE  276 (451)
T ss_pred             EEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecchhHHHHHHHH
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEE
Q psy210          368 ISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIF  447 (915)
Q Consensus       368 is~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~  447 (915)
                      ||+++||||+++|||||+|+.||+|+||||+.++           ++||||+||+|++|+||++|||||+++||+|||||
T Consensus       277 isl~~gepP~~~GYp~svfs~l~~l~ERag~~~~-----------~~GSITai~tVl~~gdD~~dpI~d~~~silDGhIv  345 (451)
T PRK05688        277 IALAIGEPPATKGYPPSVFAKLPKLVERAGNAEP-----------GGGSITAFYTVLSEGDDQQDPIADSARGVLDGHIV  345 (451)
T ss_pred             HHHhcCCCCcccCCCchHHHHhHHHHHHhcCCCC-----------CCceeeEEEEEEecCCCCCCchHHHHHhhccEEEE
Confidence            9999999999999999999999999999998632           16999999999999999999999999999999999


Q ss_pred             eehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhHHHHHHHh
Q psy210          448 LDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNGEKISLLM  524 (915)
Q Consensus       448 Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~~~i~~fL  524 (915)
                      |||+||++||||||||+.|+||+|+.++.++|++++.++|++|++|+++++++++|   .++|+++|+++++++++++||
T Consensus       346 Lsr~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~la~y~~~~dli~~g~y~~g~d~~~d~ai~~~~~i~~fL  425 (451)
T PRK05688        346 LSRRLAEEGHYPAIDIEASISRVMPQVVDPEHLRRAQRFKQLWSRYQQSRDLISVGAYVAGGDPETDLAIARFPHLVQFL  425 (451)
T ss_pred             EcHHHHhCCCCCccCCccccCccchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCccCCCCHHHHHHHHhhHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999987   499999999999999999999


Q ss_pred             hcCCCCCccHHHHHHHHHHH
Q psy210          525 KQKPHENYSIVELIIILLII  544 (915)
Q Consensus       525 ~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +|+.+|+.++++++..|..+
T Consensus       426 ~Q~~~e~~~~~~~~~~l~~~  445 (451)
T PRK05688        426 RQGLRENVSLAQSREQLAAI  445 (451)
T ss_pred             CCCCCCCCCHHHHHHHHHHH
Confidence            99999999999999999864

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=8.1e-90  Score=786.72  Aligned_cols=332  Identities=29%  Similarity=0.458  Sum_probs=318.4

Q ss_pred             hhhccccceeeeccccCccCcc-cCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQI  660 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~-~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~  660 (915)
                      .+..|+++.+.+++|+++.||+ .|++|..||+++++|+|+++||||+|++|+|+|+++++....++|+++.+|++++|.
T Consensus        42 eVi~~~~~~~~l~~~~~t~gl~i~G~~V~~tg~~~~V~vg~~lLGRVvD~~G~PlD~~~~i~~~~~~~i~~~ap~~l~R~  121 (460)
T PRK04196         42 QVLEVSEDKAVVQVFEGTTGLDLKDTKVRFTGEPLKLPVSEDMLGRIFDGLGRPIDGGPEIIPEKRLDINGAPINPVARE  121 (460)
T ss_pred             EEEEEeCCeEEEEEccCCCCCCCCCCEEEeCCCccEEEcCcccccCEECccCCCccCCCCCCCCccCcccCCCCChhhcC
Confidence            4468999999999999999999 899999999999999999999999999999999998887777889999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcC---CcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH---KGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~---~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +++++++||||+||+|+|||||||+||||++|+|||+|+.||+++...++   ..+|||++||||+|||+||++++++.+
T Consensus       122 ~i~epl~TGi~~ID~l~pig~GQR~gIfgg~G~GKs~L~~~ia~~~~~d~~~~~~v~V~~~iGeRgrEv~e~~~~~~~~~  201 (460)
T PRK04196        122 YPEEFIQTGISAIDGLNTLVRGQKLPIFSGSGLPHNELAAQIARQAKVLGEEENFAVVFAAMGITFEEANFFMEDFEETG  201 (460)
T ss_pred             CCCccccCCeEEEeccCcccCCCEEEeeCCCCCCccHHHHHHHHhhhhccCCCceEEEEEEeccccHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999875421   238999999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHH-HCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~-~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      +|+|||+|++|||+||.+|+++||+|+|+||||| |+|+||||++||+||||+|+||||+++||||+++|||||+|+.|+
T Consensus       202 ~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEyfr~d~G~~VLli~DslTR~A~A~REIsl~~gepP~~~gYP~~vf~~l~  281 (460)
T PRK04196        202 ALERSVVFLNLADDPAIERILTPRMALTAAEYLAFEKGMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLA  281 (460)
T ss_pred             CcceEEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEEcChHHHHHHHHHHHHhcCCCCCCCCcCccHHHHhH
Confidence            9999999999999999999999999999999999 699999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCC----
Q psy210          817 KLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVG----  890 (915)
Q Consensus       817 ~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~----  890 (915)
                      +|+||||+.  ++||||+||||++++||++|||+|++++||||||+|||+||++||||||||+.|+||+|+ .+++    
T Consensus       282 ~LlERaG~~~~~~GSITai~~V~~~gdD~~dpI~d~~~sI~DG~ivLsr~La~~g~~PAIDvl~SvSR~~~-~~~~~~~~  360 (460)
T PRK04196        282 TIYERAGRIKGKKGSITQIPILTMPDDDITHPIPDLTGYITEGQIVLSRELHRKGIYPPIDVLPSLSRLMK-DGIGEGKT  360 (460)
T ss_pred             HHHHHhhcCCCCCeeeEEEEEEEcCCCCCCCchhhhhhhhcceEEEEcHHHHhCCCCCccCCccchhhhcc-ccCCcccC
Confidence            999999986  689999999999999999999999999999999999999999999999999999999995 5678    


Q ss_pred             -HHHHHHHHHHHHHHHccHhhhhcc
Q psy210          891 -EEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       891 -~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                       ++|++++++++..|++|+|++++.
T Consensus       361 ~~~~~~~a~~l~~~y~~~~~l~~~~  385 (460)
T PRK04196        361 REDHKDVANQLYAAYARGKDLRELA  385 (460)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             999999999999999999999875

>PTZ00185 ATPase alpha subunit; Provisional

Probab=100.00  E-value=2.2e-89  Score=769.96  Aligned_cols=335  Identities=21%  Similarity=0.319  Sum_probs=315.7

Q ss_pred             hhhhhccccc-eeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCC------CCCCCC-CCCccCC
Q psy210          580 NKVQQQIGEN-IVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNK------GEINSK-KKSPIHT  651 (915)
Q Consensus       580 ~ev~~~l~~~-~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~------~~~~~~-~~~pi~~  651 (915)
                      ..++.+++++ .+.+++|+++.||+.|+.|+.||+++++|||+++||||+|++|+|||++      +++... .++|++.
T Consensus        79 ~G~vlnl~~d~~v~~v~lg~~~gI~~G~~V~~tg~~~~VpVG~~lLGRVvD~lG~PIDg~~~~~~~g~i~~~~~~~pIe~  158 (574)
T PTZ00185         79 AGLVFNLEKDGRIGIILMDNITEVQSGQKVMATGKLLYIPVGAGVLGKVVNPLGHEVPVGLLTRSRALLESEQTLGKVDA  158 (574)
T ss_pred             EEEEEEecCCCeEEEEEecCccCCCCCCEEEECCCccEEECCcccccCEECCCCcccCCCCccccCCCCCcccccccccC
Confidence            4677899999 6999999999999999999999999999999999999999999999987      444444 4679999


Q ss_pred             CCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHH-HHHHHHHHh------cCCcEEEEEEecCCCc
Q psy210          652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNM-MELIRNIAI------EHKGCSVFIGVGERSR  724 (915)
Q Consensus       652 ~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll-~~i~~~~~~------~~~~~~v~~~iGer~~  724 (915)
                      .+|++++|.++++|++||||+||+|+|||||||+||||++|+|||+|+ .+|+++...      ++.++|||++||||++
T Consensus       159 ~ap~~~~R~~v~epL~TGIkaID~LiPIGRGQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~r  238 (574)
T PTZ00185        159 GAPNIVSRSPVNYNLLTGFKAVDTMIPIGRGQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCS  238 (574)
T ss_pred             CCcChhhcCCCCCcCcCCceeeeccccccCCCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchH
Confidence            999999999999999999999999999999999999999999999995 555554311      2458999999999999


Q ss_pred             hHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCC
Q psy210          725 EGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSA  804 (915)
Q Consensus       725 ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~  804 (915)
                      ||.+++++|+++|+|+||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||++
T Consensus       239 EV~ei~~~L~e~GaL~~TvVV~AtAdep~~~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr~A~A~REISLllgrpPgR  318 (574)
T PTZ00185        239 NVARIHRLLRSYGALRYTTVMAATAAEPAGLQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSKQAVAYRQISLLLRRPPGR  318 (574)
T ss_pred             HHHHHHHHHHhcCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCchHHHHHHHHHHHhcCCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHhcC----CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCc
Q psy210          805 VGYQPTLAEEMGKLQERISS----TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY  880 (915)
Q Consensus       805 ~gyp~~l~~~l~~l~ERag~----~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~  880 (915)
                      +||||++|+.|++|+||||+    .++||||+||+|++++||++|||||+++|||||||+|||+||++|+||||||+.|+
T Consensus       319 egYPgdVF~lhsrLlERAg~l~~~~G~GSITAlpiV~t~adDis~pIptnviSItDGqIvLsr~Lf~~GiyPAIDVl~Sv  398 (574)
T PTZ00185        319 EAYPGDVFYLHSRLLERAAMLSPGKGGGSVTALPIVETLSNDVTAYIVTNVISITDGQIYLDTKLFTGGQRPAVNIGLSV  398 (574)
T ss_pred             CCcCccHHHHhHHHHHhcccccCCCCCcceEEEEEEEccCCCCCCcchHhhhhhcCeEEEEcHHHHhCCCCCCcCCcccc
Confidence            99999999999999999998    34799999999999999999999999999999999999999999999999999999


Q ss_pred             ccccCCCCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       881 SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ||+++ .++.+.|+++|.++|..|++|+|++.++|
T Consensus       399 SRvg~-~aq~~~~k~vAg~lr~~LaqY~El~~fa~  432 (574)
T PTZ00185        399 SRVGS-SAQNVAMKAVAGKLKGILAEYRKLAADSV  432 (574)
T ss_pred             cccCC-ccCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99995 67889999999999999999999999875

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=100.00  E-value=4.8e-89  Score=772.05  Aligned_cols=404  Identities=27%  Similarity=0.376  Sum_probs=374.6

Q ss_pred             eEEEEeecCh-hhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccce
Q psy210          122 YNIEYDYFDP-RCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       122 ~~~~~~~~~p-~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      ..++..-... ..+++.+++...++....|+|.++++  +.    +.+++++.+.+++.|++|.+|++++++|+++++||
T Consensus         9 ~~~~v~g~~~~~~~ge~~~i~~~~~~~~~~eVv~~~~--~~----v~l~~~~~~~gi~~G~~V~~tg~~~~i~vg~~lLG   82 (418)
T TIGR03498         9 LLIEVRGLSRAVRLGDRCAIRARDGRPVLAEVVGFNG--DR----VLLMPFEPLEGVGLGCAVFAREGPLAVRPHPSWLG   82 (418)
T ss_pred             cEEEEEcCCCccCCCCEEEEEcCCCCEEEEEEEEEcC--Ce----EEEEEccCCcCCCCCCEEEECCCccEEEeChhhcC
Confidence            4444444443 27999999965456457889999997  33    47889999999999999999999999999999999


Q ss_pred             eEeCCCceeecCCCccccc-ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHH
Q psy210          201 RIVNSKGEFIDNKKKFLIK-NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTII  279 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~-~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~  279 (915)
                      ||+|++|+|||+++++... .+++++..||+|++|.++++||+||+++||.++|+++|||++|||++|+|||+| +++|+
T Consensus        83 RViD~lG~plD~~~~~~~~~~~~~i~~~~p~~~~R~~i~~~l~tGi~aiD~~~~i~~Gq~i~I~G~sG~GKTtL-l~~I~  161 (418)
T TIGR03498        83 RVINALGEPIDGKGPLPQGERRYPLRASPPPAMSRARVGEPLDTGVRVIDTFLPLCRGQRLGIFAGSGVGKSTL-LSMLA  161 (418)
T ss_pred             CEECCCCCccCCCCCCCCCcceechhhcCCChhhccCcccccCCccEEEeeeccccCCcEEEEECCCCCChHHH-HHHHh
Confidence            9999999999998877555 458999999999999999999999999999999999999999999999999999 78999


Q ss_pred             hhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccch
Q psy210          280 NQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLT  359 (915)
Q Consensus       280 ~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddlt  359 (915)
                      ++...+. .+++++|+|++|+.+|+++..+.+.++||++|++++|+||.+|+++||+|||+|||||++|+|||+++||||
T Consensus       162 ~~~~~~~-gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~a~~iAEyfrd~G~~Vll~~DslT  240 (418)
T TIGR03498       162 RNTDADV-VVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYTATAIAEYFRDQGKDVLLLMDSVT  240 (418)
T ss_pred             CCCCCCE-EEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchh
Confidence            8877776 578999999999999999876666799999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccc
Q psy210          360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVI  439 (915)
Q Consensus       360 r~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~  439 (915)
                      |||+|+||||+++||||+++||||++|+.||+|+||||+...           ++||||+||+|++|+||++|||||+++
T Consensus       241 r~A~A~REisl~~gepP~~~gyp~~vf~~l~~L~ERag~~~~-----------~~GSIT~~~tVl~~gdd~~dpi~d~~~  309 (418)
T TIGR03498       241 RFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLERAGPGAE-----------GKGSITGIFTVLVDGDDHNEPVADAVR  309 (418)
T ss_pred             HHHHHHHHHHHhcCCCCccccCCchhhhhhhHHHHHhccCCC-----------CCcceeeeEEEeccCCCCCCcchhhhh
Confidence            999999999999999999999999999999999999998521           279999999999999999999999999


Q ss_pred             cccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHh
Q psy210          440 SITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYN  516 (915)
Q Consensus       440 ~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~  516 (915)
                      |||||||+|||+||++||||||||+.|+||+|+.++.++|++++.++|++|++|+|+++++++|.   ++|+++|+++++
T Consensus       310 si~DG~ivLsr~la~~g~~PAIDv~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~~~~~g~y~~g~d~~~d~ai~~  389 (418)
T TIGR03498       310 GILDGHIVLDRAIAERGRYPAINVLASVSRLAPRVWSPEERKLVRRLRALLARYEETEDLIRLGAYRKGSDPELDEAIRL  389 (418)
T ss_pred             eeeeeEEEECHHHHhCCCCCccCCcccccccchhhcCHHHHHHHHHHHHHHHhhHHHHHHHHhhCCcCCCCHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999984   899999999999


Q ss_pred             HHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          517 GEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       517 ~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +++|++||+|+.+++.++++++..|..+
T Consensus       390 ~~~i~~fl~Q~~~~~~~~~~~~~~l~~~  417 (418)
T TIGR03498       390 VPKIYEFLTQGPDEPTSLQDPFADLAAI  417 (418)
T ss_pred             HHHHHHHhCCCCCCCCCHHHHHHHHHhh
Confidence            9999999999999999999999988753

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.

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=100.00  E-value=1.6e-89  Score=777.79  Aligned_cols=334  Identities=24%  Similarity=0.348  Sum_probs=317.0

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      ...+.+++++.+.+++|+++.||+.|++|+.||+++++|+|+++||||+|++|+|+|+++++....++|++.++|++++|
T Consensus        39 ~g~vi~~~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVvd~lG~piDg~~~~~~~~~~~i~~~ap~~~~R  118 (485)
T CHL00059         39 IGIALNLESNNVGVVLMGDGLMIQEGSSVKATGKIAQIPVSEAYLGRVVNALAKPIDGKGEISASESRLIESPAPGIISR  118 (485)
T ss_pred             EEEEEEEcCCEEEEEEeeCCCCCCCCCEEEECCCcceEEcCHhhcCCEECCCCCeeCCCCCcCCCccccccCCCCCchhc
Confidence            34668999999999999999999999999999999999999999999999999999999888777788999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      .++++||+||||+||+|+|||||||+||||++|+|||+|+.+++.|++ ++..+|||++||||++||++|+++++++++|
T Consensus       119 ~~v~epl~TGI~aID~l~pigrGQR~~I~g~~g~GKt~Lal~~I~~q~-~~dv~cV~~~IGer~rev~e~~~~l~~~~~l  197 (485)
T CHL00059        119 RSVYEPLQTGLIAIDSMIPIGRGQRELIIGDRQTGKTAVATDTILNQK-GQNVICVYVAIGQKASSVAQVVTTLQERGAM  197 (485)
T ss_pred             cCCCcccccCceeeccccccccCCEEEeecCCCCCHHHHHHHHHHhcc-cCCeEEEEEEecCCchHHHHHHHHhhcccch
Confidence            999999999999999999999999999999999999999444444443 2223569999999999999999999999999


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                      +||++|++|+|+||.+|+++||+|+++|||||++|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+
T Consensus       198 ~~tvvV~atad~~~~~r~~ap~~a~aiAEyfr~~G~~VLlv~DdlTr~A~A~REisl~l~epPgr~gYP~~vF~~~srLl  277 (485)
T CHL00059        198 EYTIVVAETADSPATLQYLAPYTGAALAEYFMYRGRHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLL  277 (485)
T ss_pred             hceEEEEeCCCCCHHHHHHHHHHHhhHHHHHHHcCCCEEEEEcChhHHHHHHHHHHHhcCCCCCcCCcCchHHHHhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          820 ERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       820 ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      ||+|+.    ++||||+||+|++++||++|||||++++||||||+|||+||++||||||||+.|+||+| +.++.++|++
T Consensus       278 ERag~~~~~~~~GSITal~~V~~~~dD~s~pI~~~v~sItDGqIvLsr~La~~G~~PAIDv~~SvSRvg-~~aq~~~~~~  356 (485)
T CHL00059        278 ERAAKLSSQLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVG-SAAQIKAMKQ  356 (485)
T ss_pred             HhhhcccCCCCCcceEEEEEEEccCCCCCCcchHhhhhhcceEEEEcHHHHhCCCCCCcCcccchhcCC-chhhcHHHHH
Confidence            999976    58999999999999999999999999999999999999999999999999999999999 4788899999


Q ss_pred             HHHHHHHHHHccHhhhhccC
Q psy210          896 VANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ++.++|..|++|+|++++++
T Consensus       357 ~a~~lr~~la~y~e~e~~~~  376 (485)
T CHL00059        357 VAGKLKLELAQFAELEAFAQ  376 (485)
T ss_pred             HHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999864

>PRK06936 type III secretion system ATPase; Provisional

Probab=100.00  E-value=1.5e-89  Score=774.87  Aligned_cols=331  Identities=32%  Similarity=0.483  Sum_probs=318.8

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~  658 (915)
                      ..|+ ..|.++.+.+++|++++||+.|++|+.||+++++|+|++|||||+|++|+|+|+++++....++|+++.+|+|++
T Consensus        60 ~~eV-v~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~lLGRV~d~~G~plD~~~~~~~~~~~pi~~~~p~p~~  138 (439)
T PRK06936         60 QAEV-IGFAQHQALLTPLGEMYGISSNTEVSPTGTMHQVGVGEHLLGRVLDGLGQPFDGGHPPEPAAWYPVYADAPAPMS  138 (439)
T ss_pred             EEEE-EEEECCeEEEEecCCCCCCCCCCEEEeCCCceEEEeCccccCCEECCCCCccCCCCCCCccceeeccCCCCChHH
Confidence            3455 589999999999999999999999999999999999999999999999999999988877778899999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      |.+++++++|||++||.++|+++|||++|||++|+|||+|+.+|+++..   ++++||++||||+|||+||+++..+++.
T Consensus       139 R~~i~~~l~TGi~vid~l~~i~~Gq~~~I~G~sG~GKStLl~~Ia~~~~---~dv~V~~liGERgrEv~ef~~~~l~~~~  215 (439)
T PRK06936        139 RRLIETPLSLGVRVIDGLLTCGEGQRMGIFAAAGGGKSTLLASLIRSAE---VDVTVLALIGERGREVREFIESDLGEEG  215 (439)
T ss_pred             ccccCCCCcCCcceeeeeEEecCCCEEEEECCCCCChHHHHHHHhcCCC---CCEEEEEEEccCcHHHHHHHHHHhcccc
Confidence            9999999999999999999999999999999999999999999998754   5899999999999999999987666666


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      |+|||+|++|||+||.+|++++|+|+++||||||+|||||+++||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       216 l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfrd~G~~Vll~~DslTR~A~A~REisl~~gepP~~~gyp~svfs~l~~l  295 (439)
T PRK06936        216 LRKAVLVVATSDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMDSVTRFARAQREIGLAAGEPPTRRGYPPSVFAALPRL  295 (439)
T ss_pred             cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHH
Q psy210          819 QERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVAN  898 (915)
Q Consensus       819 ~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~  898 (915)
                      +||+|+.++||||+||||++|+||++|||+|++++|+||||+|||+||++||||||||+.|+||+|+ .+++++|+++++
T Consensus       296 ~ERaG~~~~GSIT~i~tVl~~gdD~~dpI~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~~-~~~~~~~~~~a~  374 (439)
T PRK06936        296 MERAGQSDKGSITALYTVLVEGDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMN-QIVSKEHKTWAG  374 (439)
T ss_pred             HHhhccCCCcceeeeEEEEccCCCCCcchHHHhhhhcceEEEECHHHHhCCCCCccCCcccccccch-hhCCHHHHHHHH
Confidence            9999998999999999999999999999999999999999999999999999999999999999995 889999999999


Q ss_pred             HHHHHHHccHhhhhcc
Q psy210          899 EVKFYLQKYKELKDTS  914 (915)
Q Consensus       899 ~~r~~l~~~~e~~~~~  914 (915)
                      ++|++|++|+|+|++.
T Consensus       375 ~~r~~la~y~e~e~li  390 (439)
T PRK06936        375 RLRELLAKYEEVELLL  390 (439)
T ss_pred             HHHHHHHcchHHHHHH
Confidence            9999999999999986

>PRK06820 type III secretion system ATPase; Validated

Probab=100.00  E-value=9.3e-89  Score=770.91  Aligned_cols=391  Identities=26%  Similarity=0.361  Sum_probs=372.7

Q ss_pred             cChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCce
Q psy210          129 FDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGE  208 (915)
Q Consensus       129 ~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~  208 (915)
                      .....+++.+++.. ++  ..|+|.++++  +.    +.+++++.+.+++.|++|.++|+++++++++++||||+|++|+
T Consensus        45 ~~~~~~ge~~~i~~-~~--~~~eVv~~~~--~~----~~l~~~~~~~gi~~g~~v~~tg~~~~v~vg~~llGrv~d~~G~  115 (440)
T PRK06820         45 LPGVAQGELCRIEP-QG--MLAEVVSIEQ--EM----ALLSPFASSDGLRCGQWVTPLGHMHQVQVGADLAGRILDGLGA  115 (440)
T ss_pred             ECCCCcCCEEEEec-CC--eEEEEEEEeC--Ce----EEEEEccCccCCCCCCEEEECCCCcEEEechhhcCCEECccCC
Confidence            45678999999854 45  6789999998  32    4788999999999999999999999999999999999999999


Q ss_pred             eecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEE
Q psy210          209 FIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC  288 (915)
Q Consensus       209 PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~  288 (915)
                      |||++++. ...+++++..+|||+.|.++++||.|||++||.|+|+++|||++|||++|+|||+| +++|+++.+.++ +
T Consensus       116 pld~~~~~-~~~~~~i~~~~p~p~~R~~~~~~l~TGi~aID~l~~i~~Gqri~I~G~sG~GKStL-l~~I~~~~~~dv-~  192 (440)
T PRK06820        116 PIDGGPPL-TGQWRELDCPPPSPLTRQPIEQMLTTGIRAIDGILSCGEGQRIGIFAAAGVGKSTL-LGMLCADSAADV-M  192 (440)
T ss_pred             ccCCCCCC-CcccccccCCCCChhhcCCchhhccCCCceecceEEecCCCEEEEECCCCCChHHH-HHHHhccCCCCE-E
Confidence            99998765 45677999999999999999999999999999999999999999999999999999 789999988887 6


Q ss_pred             EEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHH
Q psy210          289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI  368 (915)
Q Consensus       289 V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~rei  368 (915)
                      ||++||||++|+.+|++.+.+.+.+.++++|++++|+||.+|++++|+|+|+||||||+|+|||+++|||||||+|+|||
T Consensus       193 V~~~iGergrEv~ef~e~~l~~~~~~rtvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REi  272 (440)
T PRK06820        193 VLALIGERGREVREFLEQVLTPEARARTVVVVATSDRPALERLKGLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREI  272 (440)
T ss_pred             EEEEEccChHHHHHHHHHhhccCCceeEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEccchhHHHHHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEe
Q psy210          369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFL  448 (915)
Q Consensus       369 s~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~L  448 (915)
                      |+++||||+++||||++|+.||+|+||||+..             +||||+||+|++|+||++|||||++++|+||||+|
T Consensus       273 sl~~gepP~~~GYP~~vf~~l~~L~ERag~~~-------------~GSIT~i~tVl~~gdD~~dpI~d~~~~ilDg~ivL  339 (440)
T PRK06820        273 GLAAGEPPAAGSFPPSVFANLPRLLERTGNSD-------------RGSITAFYTVLVEGDDMNEPVADEVRSLLDGHIVL  339 (440)
T ss_pred             HHhcCCCCccccCCccHHHHHHHHHHhhccCC-------------CcceeEEEEEEccCCCCCCcchhhhccccceEEEE
Confidence            99999999999999999999999999999852             79999999999999999999999999999999999


Q ss_pred             ehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHhHHHHHHHhh
Q psy210          449 DTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYNGEKISLLMK  525 (915)
Q Consensus       449 sr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~~~~i~~fL~  525 (915)
                      ||+||++||||||||+.|+||+++.++.++|++++..+|++|++|+|+++|+++|+   ++|+++|+++.+++++++||+
T Consensus       340 sr~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~li~~G~y~~g~d~~~d~~i~~~~~i~~fL~  419 (440)
T PRK06820        340 SRRLAGAGHYPAIDIAASVSRIMPQIVSAGQLAMAQKLRRMLACYQEIELLVRVGEYQAGEDLQADEALQRYPAICAFLQ  419 (440)
T ss_pred             CHHHHhCCCCCccCCcccccccchhhCCHHHHHHHHHHHHHHHhhhHHHHHHHhhCccCCCCHHHHHHHHhhHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999995   899999999999999999999


Q ss_pred             cCCCCCccHHHHHHHHHHH
Q psy210          526 QKPHENYSIVELIIILLII  544 (915)
Q Consensus       526 Q~~~e~~s~ee~l~~L~ai  544 (915)
                      |+.+|+++++++++.||.+
T Consensus       420 Q~~~e~~~~~~~~~~l~~~  438 (440)
T PRK06820        420 QDHSETAHLETTLEHLAQV  438 (440)
T ss_pred             CCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999965

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=100.00  E-value=1.1e-88  Score=769.62  Aligned_cols=401  Identities=25%  Similarity=0.385  Sum_probs=377.2

Q ss_pred             eeEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccce
Q psy210          121 AYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       121 g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      |..++-... ...+++.++++..+|....|+|.++++  +    -+.+++++.+.+++.|+.|.+||+++++|+++.+||
T Consensus         8 g~~v~v~g~-~~~~ge~~~i~~~~~~~~~~eVv~~~~--~----~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llG   80 (411)
T TIGR03496         8 GLVLEAVGL-RAPVGSRCEIESSDGDPIEAEVVGFRG--D----RVLLMPLEDVEGLRPGARVFPLEGPLRLPVGDSLLG   80 (411)
T ss_pred             CcEEEEEeC-CCCcCCEEEEEcCCCCeEEEEEEEecC--C----EEEEEEccCccCCCCCCEEEECCCccEEEcchhhcC
Confidence            345555555 568899999864456567889999987  3    347889999999999999999999999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+.+++....+|+++.+||||++|..+++++.||+++||.++|+++|||++|||++|+|||+| +++|++
T Consensus        81 rVid~~G~pld~~~~~~~~~~~~i~~~~~~~~~R~~~~~~~~tGi~~id~l~~i~~Gq~~~I~G~sG~GKTtL-l~~I~~  159 (411)
T TIGR03496        81 RVIDGLGRPLDGKGPLDAGERVPLYAPPINPLKRAPIDEPLDVGVRAINGLLTVGRGQRMGIFAGSGVGKSTL-LGMMAR  159 (411)
T ss_pred             CEECCCCCCcCCCCCCCcccccccccCCCCHHhccCcceEeeeeEEeecceEEEecCcEEEEECCCCCCHHHH-HHHHhc
Confidence            9999999999999887777789999999999999999999999999999999999999999999999999999 799999


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchh
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTK  360 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr  360 (915)
                      +...++ +||++||+|++|+.+|++++.+.++++||++|++|+|+||.+|+++||+|||+|||||++|+|||+++|||||
T Consensus       160 ~~~~~~-~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~~a~tiAEyfr~~G~~Vll~~Dsltr  238 (411)
T TIGR03496       160 YTEADV-VVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAFYATAIAEYFRDQGKDVLLLMDSLTR  238 (411)
T ss_pred             CCCCCE-EEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEeChHH
Confidence            888886 5689999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccc
Q psy210          361 HAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVIS  440 (915)
Q Consensus       361 ~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~  440 (915)
                      ||+|+||||+++||||+++||||++|+.||+|+||||+++.           ++||||+||+|++|+||++|||||++++
T Consensus       239 ~A~A~REisl~~ge~P~~~gyp~~~f~~l~~l~ERag~~~~-----------~~GSIT~~~tv~~~~dd~~dpi~~~~~~  307 (411)
T TIGR03496       239 FAMAQREIALAIGEPPATKGYPPSVFAKLPQLVERAGNGEE-----------GKGSITAFYTVLVEGDDQQDPIADAARA  307 (411)
T ss_pred             HHHHHHHHHHhcCCCCCccCcCHHHHHHhHHHHHHhcccCC-----------CCcceeEEEEEEccCCCCCCcchhhhcc
Confidence            99999999999999999999999999999999999999732           2799999999999999999999999999


Q ss_pred             ccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhH
Q psy210          441 ITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNG  517 (915)
Q Consensus       441 i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~  517 (915)
                      |+||||+|||+||++||||||||+.|+||+++.++.++|++++.++|++|++|+|+++++++|   .++|+++|++++++
T Consensus       308 i~dg~ivLsr~la~~g~~PAId~~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~l~~~g~y~~g~d~~~d~~i~~~  387 (411)
T TIGR03496       308 ILDGHIVLSRELAEQGHYPAIDILASISRVMPDVVSPEHRQAARRFKQLLSRYQENRDLISIGAYQAGSDPELDQAIALY  387 (411)
T ss_pred             cccEEEEEchhHHhCCCCCccCCCcccccchhhhCCHHHHHHHHHHHHHHHHhHHHHHHHHhcCCcCCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999998   48999999999999


Q ss_pred             HHHHHHhhcCCCCCccHHHHHHHH
Q psy210          518 EKISLLMKQKPHENYSIVELIIIL  541 (915)
Q Consensus       518 ~~i~~fL~Q~~~e~~s~ee~l~~L  541 (915)
                      ++|++||+|+.+++.+++++++.|
T Consensus       388 ~~i~~fl~Q~~~~~~~~~~~~~~l  411 (411)
T TIGR03496       388 PRIEAFLQQGMRERASFEESLEAL  411 (411)
T ss_pred             HHHHHHhCCCCCCCCCHHHHHhhC
Confidence            999999999999999999998653

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=1.9e-88  Score=769.76  Aligned_cols=393  Identities=27%  Similarity=0.385  Sum_probs=373.7

Q ss_pred             hhhcccccccccCCCce-EeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCcee
Q psy210          131 PRCLNQTLNIKFANNTV-LSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEF  209 (915)
Q Consensus       131 p~~L~~~le~~~~~g~~-~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~P  209 (915)
                      ...+++.+++...+|.. ..|+|.++++  +    .+.+++|+.+.+++.|++|.+||+++++|+|+++||||+|++|+|
T Consensus        42 ~~~~ge~~~i~~~~g~~~~~~eVv~~~~--~----~~~l~~~~~t~gi~~g~~V~~tg~~~~v~vg~~lLGrV~d~~G~p  115 (441)
T PRK09099         42 DVTLGELCELRQRDGTLLQRAEVVGFSR--D----VALLSPFGELGGLSRGTRVIGLGRPLSVPVGPALLGRVIDGLGEP  115 (441)
T ss_pred             CCCCCCEEEEecCCCCeeeEEEEEEEEC--C----EEEEEEccCCcCCCCCCEEEeCCCccEEEeccccccCEEcccCCc
Confidence            37899999985445553 6789999998  3    347889999999999999999999999999999999999999999


Q ss_pred             ecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEE
Q psy210          210 IDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICI  289 (915)
Q Consensus       210 iD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V  289 (915)
                      ||+++++....+++++..||||++|..+++||+||+++||.++|+++|||++|||++|+|||+| +++|+.+...+. +|
T Consensus       116 iD~~~~~~~~~~~~i~~~~p~p~~R~~i~e~l~TGi~~ID~l~~i~~Gq~~~I~G~sG~GKTtL-l~~ia~~~~~d~-~v  193 (441)
T PRK09099        116 IDGGGPLDCDELVPVIAAPPDPMSRRMVEAPLPTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTL-MGMFARGTQCDV-NV  193 (441)
T ss_pred             cCCCCCCccccccccccCCCChhhcCCcccccCCCceeccceeeecCCCEEEEECCCCCCHHHH-HHHHhCCCCCCe-EE
Confidence            9999887766778999999999999999999999999999999999999999999999999999 799998877776 78


Q ss_pred             EEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHH
Q psy210          290 YVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQIS  369 (915)
Q Consensus       290 ~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis  369 (915)
                      |++||||++|+.+|++.+.+.+.++|+++|++++|+||.+|++++|+|+|+||||||+|+|||+++|||||||+|+||||
T Consensus       194 i~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTr~A~A~REis  273 (441)
T PRK09099        194 IALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREIG  273 (441)
T ss_pred             EEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEee
Q psy210          370 LLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLD  449 (915)
Q Consensus       370 ~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Ls  449 (915)
                      +++||||+++||||++|+.||+|+||||..+             +||||+||+|++++||++|||||++++|+||||+||
T Consensus       274 l~~gepP~~~gyP~~vf~~l~~l~ERag~~~-------------~GSIT~i~tVl~~~dd~~dpI~d~~~~i~DG~ivLs  340 (441)
T PRK09099        274 LAAGEPPARRGFPPSVFAELPRLLERAGMGE-------------TGSITALYTVLAEDESGSDPIAEEVRGILDGHMILS  340 (441)
T ss_pred             HhcCCCCccccCCccHHHHhHHHHHhhcCCC-------------CcchheeEEEEecCCCcCCcchhhhheecceEEEEc
Confidence            9999999999999999999999999999531             799999999999999999999999999999999999


Q ss_pred             hhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhHHHHHHHhhc
Q psy210          450 TNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNGEKISLLMKQ  526 (915)
Q Consensus       450 r~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~~~i~~fL~Q  526 (915)
                      |+||++||||||||+.|+||+|+.++.++|++++.++|+.|++|+|+++++++|   .++|++.+++++++++|++||+|
T Consensus       341 r~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~a~~lr~~la~y~e~e~li~iG~y~~g~d~~~d~~i~~~~~i~~fL~Q  420 (441)
T PRK09099        341 REIAARNQYPAIDVLGSLSRVMPQVVPREHVQAAGRLRQLLAKHREVETLLQVGEYRAGSDPVADEAIAKIDAIRDFLSQ  420 (441)
T ss_pred             HHHHhCCCCCccCCccccCccchhcCCHHHHHHHHHHHHHHHhhHHHHHHHHhcCccCCCChhHHHHHHHHHHHHHHhCC
Confidence            999999999999999999999999999999999999999999999999999998   49999999999999999999999


Q ss_pred             CCCCCccHHHHHHHHHHH
Q psy210          527 KPHENYSIVELIIILLII  544 (915)
Q Consensus       527 ~~~e~~s~ee~l~~L~ai  544 (915)
                      +.+++.++++++..|..+
T Consensus       421 ~~~~~~~~~~t~~~l~~~  438 (441)
T PRK09099        421 RTDEYSDPDATLAALAEL  438 (441)
T ss_pred             CCCCCCCHHHHHHHHHHH
Confidence            999999999999998864

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=100.00  E-value=1e-88  Score=781.82  Aligned_cols=404  Identities=23%  Similarity=0.287  Sum_probs=365.8

Q ss_pred             EEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeE
Q psy210          123 NIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      .++-...+...+++.+++.   +..+.|+|.+++|  +    ...+++++++.|++.|++|.+||+++++++|+++||||
T Consensus        11 vv~a~g~~~~~~gE~v~v~---~~~l~gEVi~~~~--d----~a~iqvye~t~Gl~~G~~V~~tg~plsV~lGpglLGrV   81 (578)
T TIGR01043        11 LVVADGMKGAQMYEVVKVG---EEGLIGEIIRIEG--D----KAFIQVYEETSGIKPGEPVVGTGAPLSVELGPGLLGSI   81 (578)
T ss_pred             EEEEecCCCCCcCCEEEEC---CCcEEEEEEEEcC--C----eEEEEECCCCCCCCCCCEEEECCCccEEEcCHHHhcce
Confidence            3444444446788888884   2236899999998  3    33788999999999999999999999999999999999


Q ss_pred             eCCCceeecCCCc----c----------cc--------------------------------------------------
Q psy210          203 VNSKGEFIDNKKK----F----------LI--------------------------------------------------  218 (915)
Q Consensus       203 iD~lG~PiD~~~~----~----------~~--------------------------------------------------  218 (915)
                      +|++|+|||+.++    .          ..                                                  
T Consensus        82 ~DgigrPLd~~~~~~g~~i~rg~~~~~l~~~~~w~f~p~~~~gd~v~~g~i~g~v~e~~~i~h~im~pp~~~g~v~~i~~  161 (578)
T TIGR01043        82 YDGVQRPLDVLKEKTGDFIARGVDAPGLDRDKKWHFKPTVKEGDKVEGGDIIGVVPETSLIEHKILVPPNVEGEIVEIAE  161 (578)
T ss_pred             eccCCccccCcccccccccccCccCCCcCcccccccccccccCccccCCceEEEEecccceeeeeecCCCCcceEEEecc
Confidence            9999999998631    1          10                                                  


Q ss_pred             -----------------------cccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHH
Q psy210          219 -----------------------KNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAI  275 (915)
Q Consensus       219 -----------------------~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l  275 (915)
                                             .++||+.. |+++++|.++++||.||||+||+|+|||||||++|||++|||||+| +
T Consensus       162 ~g~~~~~~~v~~~~~~g~~~~~~~~~wPvr~-p~p~~~R~~~~~pL~TGiRvID~l~Pi~kGqr~~I~gg~G~GKT~l-~  239 (578)
T TIGR01043       162 EGDYTVEDTIAVVDTDGDEEIKMYQKWPVRI-PRPYKEKLPPEVPLITGQRILDTFFPIAKGGTAAIPGPFGSGKTVT-Q  239 (578)
T ss_pred             CCCceeeeeEEEEecCCceeeeeeeeccccc-CCCchhcCCCCcchhccchhhhccccccCCCEEEEecCCCCCHHHH-H
Confidence                                   12568866 7789999999999999999999999999999999999999999999 8


Q ss_pred             HHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcC
Q psy210          276 DTIINQKNKNVICIYVCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG  348 (915)
Q Consensus       276 ~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g  348 (915)
                      ++|+++.++|+ |||++||||++|+++|++++.+       .++|+|||+|+||||+|+++|++++|+|+|+||||||+|
T Consensus       240 ~~lak~~~adi-vVyvg~GERG~E~~e~le~f~~l~dp~~g~~~m~RTvlVanTSn~p~~aR~~s~ytg~TiAEYfRD~G  318 (578)
T TIGR01043       240 HQLAKWSDADI-VVYIGCGERGNEMTDVLEEFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMG  318 (578)
T ss_pred             HHHHhcCCCCE-EEEEEeccChHHHHHHHHHhHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCC
Confidence            99999998886 8999999999999999999954       668999999999999999999999999999999999999


Q ss_pred             CcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCC
Q psy210          349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEG  428 (915)
Q Consensus       349 ~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~  428 (915)
                      +|||+++||+||||+|+||||+++||||+++|||+|+|+.++++|||||+++...|      .+++||||++++|++|+|
T Consensus       319 ~~Vllm~DS~sR~AeAlREIs~~lgE~P~~eGYP~yl~SrLa~~yERAG~~~~~~~------~~r~GSIT~i~aVs~~gg  392 (578)
T TIGR01043       319 YDVALMADSTSRWAEAMREISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGG------EERVGSVTVIGAVSPPGG  392 (578)
T ss_pred             CCEEEEecChhHHHHHHHHHHHhcCCCCCCCCcCccHHHHHHHHHHhhccccccCC------CCCCccEeEEEEEECCCC
Confidence            99999999999999999999999999999999999999999999999999864222      134799999999999999


Q ss_pred             CCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc-------ccHHHHHHHHHHHHHHHhhHHHHhhhh
Q psy210          429 DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-------QYKIVKKLSGDIRIMLAQYRELESFSK  501 (915)
Q Consensus       429 d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-------~~~~~~~~a~~lr~~la~~~e~e~l~~  501 (915)
                      |++|||++++++|+||||+|||+||++||||||||+.|+||++...       ..++|.+++.+++.+|++|+|++++++
T Consensus       393 D~sdPVt~~t~~i~dg~i~Ldr~LA~~ghyPAId~l~S~Sr~~~~~~~~~~~~v~~~~~~~~~~~~~lL~~~~el~~iv~  472 (578)
T TIGR01043       393 DFSEPVTQNTLRIVKVFWALDADLAQRRHFPAINWLQSYSLYVDLVQDWWHENVDPDWREMRDEAMDLLQKESELQEIVQ  472 (578)
T ss_pred             CCCccHHHHHHHHhCcEEEeCHHHHhcCCCCCcCcccchhhhccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999887       789999999999999999999999999


Q ss_pred             c-cC-CCCHHHHHHHHhHHHHH-HHhhcCCCCCc----cHHHHHHHHHHH
Q psy210          502 F-SS-DLDIVTKTQLYNGEKIS-LLMKQKPHENY----SIVELIIILLII  544 (915)
Q Consensus       502 l-G~-~ld~~~~~~L~~~~~i~-~fL~Q~~~e~~----s~ee~l~~L~ai  544 (915)
                      + |. .+++.++..+++++.++ .||+|+.++++    ++++++..|..+
T Consensus       473 lvG~d~L~~~d~~il~~a~~i~e~FLqQ~~~~~~d~~~~~~k~~~~L~~i  522 (578)
T TIGR01043       473 LVGPDALPERQKLILEVARMIREAFLQQNAFDPVDTYCPPQKQYRILRAI  522 (578)
T ss_pred             ccCCCCCCHHHHHHHHHhHHHHHhhCCCCCCCCccCCCCHHHHHHHHHHH
Confidence            9 75 59999999999999985 89999997777    999999988874

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=6.3e-89  Score=784.53  Aligned_cols=333  Identities=25%  Similarity=0.413  Sum_probs=317.6

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~  658 (915)
                      +...+.+++++.+.+++|+++.||+.|+.|..+|+++++|+|+++||||+|++|+|+|+++++...+++|++..+|++++
T Consensus        59 ~~g~Vi~~~~~~~~~~~~~~~~gi~~g~~V~~~~~~~~v~vg~~llGrv~d~~G~pid~~~~~~~~~~~~i~~~~p~~~~  138 (502)
T PRK09281         59 VYGIALNLEEDNVGAVILGDYEDIKEGDTVKRTGRILEVPVGEALLGRVVNPLGQPIDGKGPIEATETRPVERKAPGVID  138 (502)
T ss_pred             cEEEEEEEcCCeEEEEEecCcccccCCCeeeecCCceEEecCHHhcCCEEccCCCCcCCCCCCCCCceecccCCCcCccc
Confidence            34466799999999999999999999999999999999999999999999999999999988888888999999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhH-HHHHHHHHHhcCCcE-EEEEEecCCCchHHHHHHHhhhc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVN-MMELIRNIAIEHKGC-SVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~L-l~~i~~~~~~~~~~~-~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      |.+++++++||||+||+|+|||||||++|||++|+|||+| +.+|++ ++  +.|+ |||++||||++|++||+++++++
T Consensus       139 R~~~~~~l~TGi~~ID~l~pigrGQr~~Ifg~~g~GKt~lal~~i~~-~~--~~dv~~V~~~IGer~~ev~e~~~~~~~~  215 (502)
T PRK09281        139 RKSVHEPLQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAIAIDTIIN-QK--GKDVICIYVAIGQKASTVAQVVRKLEEH  215 (502)
T ss_pred             cCCccceeecCCeeeecccccccCcEEEeecCCCCCchHHHHHHHHH-hc--CCCeEEEEEEecCChHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999 555554 43  2455 79999999999999999999999


Q ss_pred             CccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       737 ~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      ++|+||++|++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|+
T Consensus       216 ~~l~~tvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLli~DdlTr~A~A~REisl~~gepPgr~gyP~~vf~~~s  295 (502)
T PRK09281        216 GAMEYTIVVAATASDPAPLQYLAPYAGCAMGEYFMDNGKDALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHS  295 (502)
T ss_pred             CCccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecCchHHHHHHHHHHHhcCCCCCCCCcCccHHHHhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHH
Q psy210          817 KLQERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEE  892 (915)
Q Consensus       817 ~l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~  892 (915)
                      +|+||+|+.    ++||||+||+|++|+||++|||||++++||||||||||+||++||||||||+.|+||+|+ .++.++
T Consensus       296 ~LlERag~~~~~~~~GSITal~~V~~~~dD~s~pI~d~~~sItDGqIvLsr~La~~G~~PAIdv~~SvSRv~~-~~~~~~  374 (502)
T PRK09281        296 RLLERAAKLSDELGGGSLTALPIIETQAGDVSAYIPTNVISITDGQIFLESDLFNAGIRPAINVGISVSRVGG-AAQIKA  374 (502)
T ss_pred             HHHHHhhhccCCCCCccEEEEEEEECCCCCCCCcchHhhhcccceEEEEcHHHHhCCCCCccCCcccccccCC-ccCCHH
Confidence            999999975    689999999999999999999999999999999999999999999999999999999995 677899


Q ss_pred             HHHHHHHHHHHHHccHhhhhccC
Q psy210          893 HYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       893 ~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      |+++++++|++|++|+|++++++
T Consensus       375 ~~~~a~~lr~~la~y~e~~~l~~  397 (502)
T PRK09281        375 MKKVAGTLRLDLAQYRELEAFAQ  397 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999863

>PRK13343 F0F1 ATP synthase subunit alpha; Provisional

Probab=100.00  E-value=5.2e-89  Score=780.32  Aligned_cols=332  Identities=25%  Similarity=0.409  Sum_probs=318.1

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      ...+.+|+++.+.+++|+++.||+.|+.|+.||+++++|+|+++||||+|++|+|||+++++...+++|++..+|++++|
T Consensus        60 ~g~V~~l~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~llGRVid~lG~piDg~~~i~~~~~~~i~~~ap~~~~R  139 (502)
T PRK13343         60 RGFAFNLEEELVGAVLLDDTADILAGTEVRRTGRVLEVPVGDGLLGRVIDPLGRPLDGGGPLQATARRPLERPAPAIIER  139 (502)
T ss_pred             EEEEEEecCCeEEEEEeeCCCCCCCCCEeEecCCcceeecCHHhcCCEECCCCCcccCCCCCCCCceecccCCCcChhhc
Confidence            44668999999999999999999999999999999999999999999999999999999998888889999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhH-HHHHHHHHHhcCCcE-EEEEEecCCCchHHHHHHHhhhcC
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVN-MMELIRNIAIEHKGC-SVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~L-l~~i~~~~~~~~~~~-~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      .++++|++||||+||+|+|||||||++|||++|+|||+| +.+|+++ +  +.|+ |||++||||++||+||++++++++
T Consensus       140 ~~v~epl~TGIkaID~l~pigrGQR~~I~g~~g~GKt~Lal~~i~~~-~--~~dv~~V~~~IGer~rev~e~~~~l~~~~  216 (502)
T PRK13343        140 DFVTEPLQTGIKVVDALIPIGRGQRELIIGDRQTGKTAIAIDAIINQ-K--DSDVICVYVAIGQKASAVARVIETLREHG  216 (502)
T ss_pred             CCCCcccccCCceeccccccccCCEEEeeCCCCCCccHHHHHHHHhh-c--CCCEEEEEEEeccChHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999 5666654 3  2465 699999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      +|+||+||++|+|+||.+|+++||+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++
T Consensus       217 ~l~~tvvV~atsd~~~~~r~~ap~~a~aiAEyfrd~G~~VLlv~DdlTr~A~A~REisL~l~epPgr~gYP~~vf~~~sr  296 (502)
T PRK13343        217 ALEYTTVVVAEASDPPGLQYLAPFAGCAIAEYFRDQGQDALIVYDDLSKHAAAYRELSLLLRRPPGREAYPGDIFYLHSR  296 (502)
T ss_pred             ccceeEEEEecccccHHHHHHHHHHHHHHHHHHHhCCCCEEEEecchHHHHHHHHHHHHhcCCCCCcCCcCcchHhhhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHH
Q psy210          818 LQERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEH  893 (915)
Q Consensus       818 l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~  893 (915)
                      |+||||+.    ++||||+||+|++++||++|||||++++||||||+|||+||++||||||||+.|+||+|. .++.++|
T Consensus       297 LlERAg~~~~~~~gGSITal~~V~~~~dD~s~pI~~~v~sItDGqIvLsr~La~~G~~PAIDv~~SvSRv~~-~~~~~~~  375 (502)
T PRK13343        297 LLERAAKLSPELGGGSLTALPIIETLAGELSAYIPTNLISITDGQIYLDSDLFAAGQRPAVDVGLSVSRVGG-KAQHPAI  375 (502)
T ss_pred             HHHhhccCCCCCCCcceEEEEEEEcCCCCCCCcchhhhhcccceEEEECHHHHhCCCCCccCCccchhccCc-cccCHHH
Confidence            99999975    689999999999999999999999999999999999999999999999999999999994 6789999


Q ss_pred             HHHHHHHHHHHHccHhhhhccC
Q psy210          894 YKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       894 ~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ++++.++|..|++|+|+|++++
T Consensus       376 ~~~a~~lr~~la~y~e~e~~~~  397 (502)
T PRK13343        376 RKESGRLRLDYAQFLELEAFTR  397 (502)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999863

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=100.00  E-value=2.7e-88  Score=765.85  Aligned_cols=404  Identities=26%  Similarity=0.345  Sum_probs=377.1

Q ss_pred             eeeecc-eeEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceec
Q psy210          115 SSIIRF-AYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIP  193 (915)
Q Consensus       115 a~~~r~-g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vp  193 (915)
                      -++.+. |-.++-. .....+++.+++.. .+  ..|||.++++  +.    +.+++|+.+.+++.|++|.+||+++++|
T Consensus        23 G~v~~v~g~~~~~~-~~~~~~ge~~~i~~-~~--~~~eVv~~~~--~~----~~l~~~~~~~gi~~g~~V~~tg~~~~v~   92 (433)
T PRK07594         23 GRIQDVSATLLNAW-LPGVFMGELCCIKP-GE--ELAEVVGING--SK----ALLSPFTSTIGLHCGQQVMALRRRHQVP   92 (433)
T ss_pred             eEEEEEECCEEEEE-ECCcCCCCEEEEec-CC--eEEEEEEEcC--Ce----EEEEEccCCcCCCCCCEEEeCCCccEEE
Confidence            344444 3334443 45678999999854 45  5789999998  33    4788999999999999999999999999


Q ss_pred             cccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHH
Q psy210          194 VGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI  273 (915)
Q Consensus       194 vg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l  273 (915)
                      +++.+||||+|++|+|||++++. ...+++++..+|||++|..+++|+.||+++||.++|+++|||++|||++|+|||+|
T Consensus        93 vg~~llGrVid~~G~pld~~~~~-~~~~~~i~~~~p~~~~r~~v~~~l~tGi~aID~ll~i~~GqrigI~G~sG~GKSTL  171 (433)
T PRK07594         93 VGEALLGRVIDGFGRPLDGRELP-DVCWKDYDAMPPPAMVRQPITQPLMTGIRAIDSVATCGEGQRVGIFSAPGVGKSTL  171 (433)
T ss_pred             eChhhccCEEcccCCCcCCCCCC-cccccccccCCCCceeccCHhheeCCCceeeeeeeecCCCCEEEEECCCCCCccHH
Confidence            99999999999999999998763 44567999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEE
Q psy210          274 AIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLI  353 (915)
Q Consensus       274 ~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv  353 (915)
                       +++|+++...+. +||++||||++|+.+|++.+.+.+.++++++|++++|+|+.+|++++|+|+|+||||||+|+|||+
T Consensus       172 -L~~I~~~~~~d~-~vi~~iGeRgrEv~efl~~~~~~~~~~rtv~vv~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl  249 (433)
T PRK07594        172 -LAMLCNAPDADS-NVLVLIGERGREVREFIDFTLSEETRKRCVIVVATSDRPALERVRALFVATTIAEFFRDNGKRVVL  249 (433)
T ss_pred             -HHHhcCCCCCCE-EEEEEECCCchHHHHHHHHhhccCCcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEE
Confidence             799999888887 789999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCc
Q psy210          354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF  433 (915)
Q Consensus       354 ~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~p  433 (915)
                      ++|||||||+|+||||+++||||+++||||++|+.||+|+||||..     .        +||||+||+|++|+||++||
T Consensus       250 ~~Dsltr~A~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ERag~~-----~--------~GSIT~~~tVl~~gdD~~dp  316 (433)
T PRK07594        250 LADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLERTGMG-----E--------KGSITAFYTVLVEGDDMNEP  316 (433)
T ss_pred             EEeCHHHHHHHHHHHHHhcCCCCCCCCcCchhHHHhHHHHHhhcCC-----C--------CcchheeeeeeecCCCCCCc
Confidence            9999999999999999999999999999999999999999999953     1        79999999999999999999


Q ss_pred             cccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHH
Q psy210          434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVT  510 (915)
Q Consensus       434 i~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~  510 (915)
                      |||+++||+||||||||+||++||||||||+.|+||+|+.++.++|+++|.++|+.|++|+|+|+|+++|.   ++|+++
T Consensus       317 i~d~~~~ilDG~IvLsr~la~~g~yPAIDvl~S~SR~~~~~~~~~h~~~a~~~r~~la~y~e~e~li~~G~y~~g~d~~~  396 (433)
T PRK07594        317 LADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVFPVVTSHEHRQLAAILRRCLALYQEVELLIRIGEYQRGVDTDT  396 (433)
T ss_pred             hHHHhhhhcceEEEEcHHHHhCCCCCccCCcccccccchhhCCHHHHHHHHHHHHHHHcchHHHHHHHhcCCCCCCCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999995   999999


Q ss_pred             HHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          511 KTQLYNGEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       511 ~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      |++|+++++|++||+|+..|+.++++++..|..+
T Consensus       397 d~ai~~~~~i~~fl~Q~~~~~~~~~~~~~~l~~~  430 (433)
T PRK07594        397 DKAIDTYPDICTFLRQSKDEVCGPELLIEKLHQI  430 (433)
T ss_pred             HHHHHhhHHHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999999999998854

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.2e-88  Score=762.48  Aligned_cols=332  Identities=29%  Similarity=0.469  Sum_probs=318.8

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...|| ..|.++.+.+++|+++.||+.|++|..+|+++++|+|+++||||+|++|+|+|+.+++...++||++..+|+|+
T Consensus        59 ~~~EV-v~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRVid~~G~plD~~~~~~~~~~~~i~~~~~~p~  137 (444)
T PRK08972         59 LEAEV-VGFDGDLLYLMPIEELRGVLPGARVTPLGEQSGLPVGMSLLGRVIDGVGNPLDGLGPIYTDQRASRHSPPINPL  137 (444)
T ss_pred             EEEEE-EEecCCEEEEEECCCcCCCCCCCEEEECCCccEEEcChhhcCCeECCCCCCcCCCCCCCCCccccccCCCCChh
Confidence            34466 48999999999999999999999999999999999999999999999999999998887777899999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++++|||++||.++|+++|||++|||++|+|||||+.+|+++.   +++++||++||||+|||+||++++.+++
T Consensus       138 ~R~~i~e~l~TGi~aID~ll~i~~GqrigI~G~sG~GKSTLL~~I~~~~---~~dv~Vi~lIGER~rEv~efi~~~l~~~  214 (444)
T PRK08972        138 SRRPITEPLDVGVRAINAMLTVGKGQRMGLFAGSGVGKSVLLGMMTRGT---TADVIVVGLVGERGREVKEFIEEILGEE  214 (444)
T ss_pred             hcCCCCCcccccceeecceEEEcCCCEEEEECCCCCChhHHHHHhccCC---CCCEEEEEEEcCChHHHHHHHHHhhccC
Confidence            9999999999999999999999999999999999999999999998754   3589999999999999999999988888


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      .++|||+|++|||+||.+|++++|+|+++||||||+|+|||++|||+||||+|+||||+++||||+++||||++|+.|++
T Consensus       215 ~l~rtvvv~atsd~p~~~R~~a~~~A~tiAEyfrd~G~~VLl~~DslTR~A~A~REIsl~~gepP~~~GYPpsvfs~l~~  294 (444)
T PRK08972        215 GRARSVVVAAPADTSPLMRLKGCETATTIAEYFRDQGLNVLLLMDSLTRYAQAQREIALAVGEPPATKGYPPSVFAKLPA  294 (444)
T ss_pred             CcccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHHHhHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          818 LQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       818 l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      |+||||+.  ++||||+||||++++||++|||+|++++||||||||||+||++||||||||+.|+||+| +.+++++|++
T Consensus       295 L~ERAg~~~~~~GSITai~tVl~~gdD~~dpI~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~-~~i~~~~h~~  373 (444)
T PRK08972        295 LVERAGNGGPGQGSITAFYTVLTEGDDLQDPIADASRAILDGHIVLSRELADSGHYPAIDIEASISRVM-PMVISEEHLE  373 (444)
T ss_pred             HHHHhcCCCCCCceeeeEEEEEEeCCCCCcchHHhhhhhcceEEEEcHHHHhCCCCCeeCCccccccCc-hhcCcHHHHH
Confidence            99999975  47999999999999999999999999999999999999999999999999999999999 5789999999


Q ss_pred             HHHHHHHHHHccHhhhhcc
Q psy210          896 VANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++++|++|++|+|+|+|.
T Consensus       374 ~a~~~r~~ls~y~~~e~li  392 (444)
T PRK08972        374 AMRRVKQVYSLYQQNRDLI  392 (444)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999874

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=100.00  E-value=2.7e-88  Score=761.70  Aligned_cols=330  Identities=26%  Similarity=0.427  Sum_probs=308.9

Q ss_pred             hhhccccceeeeccccCccCccc-CCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKR-NTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQI  660 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~-G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~  660 (915)
                      .+..|+++.+.+++|++++||+. |+.|..+++++++|||+++||||+|++|+|+|+.+++....++|++..+|++++|.
T Consensus        40 eVi~~~~~~~~l~~~~~~~gi~~~g~~V~~t~~~~~v~vg~~lLGRVid~~G~piD~~~~~~~~~~~~i~~~~~~~~~R~  119 (466)
T TIGR01040        40 QVLEVSGNKAVVQVFEGTSGIDAKKTTCEFTGDILRTPVSEDMLGRVFNGSGKPIDKGPPVLAEDYLDINGQPINPYARI  119 (466)
T ss_pred             EEEEEeCCeEEEEEcCCCCCcccCCCEEEECCCccEEEcCcccccCEECccccccCCCCCCCCCceeeccCCCCChhHcC
Confidence            44699999999999999999997 99999999999999999999999999999999998877777789999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcC---Cc---------EEEEEEecCCCchHHH
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH---KG---------CSVFIGVGERSREGND  728 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~---~~---------~~v~~~iGer~~ev~e  728 (915)
                      +++++|+||||+||+|+|||||||+||||++|+|||+|+.||+++....+   +|         +|||++|||| +|+.+
T Consensus       120 ~i~e~l~TGI~aID~l~~ig~GQRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGer-re~~e  198 (466)
T TIGR01040       120 YPEEMIQTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVN-METAR  198 (466)
T ss_pred             CCCCeeecCcEEEeccCccccCCeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeee-hHHHH
Confidence            99999999999999999999999999999999999999999999864211   23         8999999999 88888


Q ss_pred             HHH-HhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHH-HCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCC
Q psy210          729 FYH-EMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVG  806 (915)
Q Consensus       729 ~~~-~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~-~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~g  806 (915)
                      |+. ++.++++++|||+|++|||+||.+|+++||+|+|+||||| ++|+||||++||+||||+|+||||+++||||+++|
T Consensus       199 fi~~~l~~~g~l~rtvvv~atsd~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr~A~A~REisl~~gepP~~~G  278 (466)
T TIGR01040       199 FFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRG  278 (466)
T ss_pred             HHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHHHHHHHHHHHHhcCCCCCCcC
Confidence            766 6888899999999999999999999999999999999999 68999999999999999999999999999999999


Q ss_pred             CcchhhHHHHHHHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCccccc
Q psy210          807 YQPTLAEEMGKLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQL  884 (915)
Q Consensus       807 yp~~l~~~l~~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~  884 (915)
                      |||++|++|++|+||+|+.  ++||||+||||++|+||++|||+|++++||||||||||+||++||||||||+.|+||+|
T Consensus       279 YP~svfs~l~~L~ERaG~~~~~~GSITai~tV~~~~dD~~~pI~d~~~sIlDGhIvLsr~La~~g~yPAIDvl~SvSRl~  358 (466)
T TIGR01040       279 FPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLM  358 (466)
T ss_pred             cCchHHHHHHHHhhccccCCCCCcceEEEEEEECCCCCCCCcchhhhhhhcceEEEECHHHHhCCCCCccCCccchhhcc
Confidence            9999999999999999986  57999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCC-----HHHHHHHHHHHHHHHccHhhhhc
Q psy210          885 DPYIVG-----EEHYKVANEVKFYLQKYKELKDT  913 (915)
Q Consensus       885 ~~~~~~-----~~~~~~~~~~r~~l~~~~e~~~~  913 (915)
                      + .+++     ++|+++++++.+.|++++++.++
T Consensus       359 ~-~v~~~~~~~~~h~~~a~~l~~~y~~~~~L~~i  391 (466)
T TIGR01040       359 K-SAIGEGMTRKDHSDVSNQLYACYAIGKDVQAM  391 (466)
T ss_pred             c-cccccCcCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5 6677     89999999977777777776664

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit

Probab=100.00  E-value=2.6e-88  Score=779.32  Aligned_cols=331  Identities=26%  Similarity=0.432  Sum_probs=316.3

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      ..++.+++++.+.+++|+++.||+.|+.|..+|+++++|+|+++||||+|++|+|+|+++++....++|++..+|++++|
T Consensus        59 ~g~Vi~~~~~~~~~~~~~~~~gi~~G~~V~~tg~~~~v~vg~~llGRV~d~~G~pld~~~~~~~~~~~~i~~~~p~~~~R  138 (501)
T TIGR00962        59 QGIALNLEEDSVGAVIMGDYSNIREGSTVKRTGRILKVPVGDGLLGRVVNALGQPIDGKGPIDSDEFRPIEKIAPGVMER  138 (501)
T ss_pred             EEEEEEecCCeEEEEEecCCcCCCCCCeeEecCCccEEecChHhcCCEeCCCCCeeCCCCCcCCCCceeeecCCCChhhc
Confidence            44667999999999999999999999999999999999999999999999999999999888777788999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhH-HHHHHHHHHhcCCcE-EEEEEecCCCchHHHHHHHhhhcC
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVN-MMELIRNIAIEHKGC-SVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~L-l~~i~~~~~~~~~~~-~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      .++++||+||||+||+|+|||||||+||||++|+|||+| +.+|+++ +  +.|+ |||++||||++||+||++++++.+
T Consensus       139 ~~i~~pl~TGi~aID~l~pigrGQr~~I~g~~g~GKt~Lal~~i~~~-~--~~dv~~V~~~IGer~rev~e~~~~~~~~~  215 (501)
T TIGR00962       139 KSVHEPLQTGIKAIDAMIPIGRGQRELIIGDRQTGKTAVAIDTIINQ-K--DSDVYCVYVAIGQKASTVAQVVRKLEEHG  215 (501)
T ss_pred             CCcCceeccCCceeeccCCcccCCEEEeecCCCCCccHHHHHHHHhh-c--CCCeEEEEEEccCChHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999 5666654 3  2466 699999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      +|+||++|++|+|+||.+|+++||+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++
T Consensus       216 ~l~~tvvV~atsd~p~~~r~~a~~~a~aiAEyfrd~G~~VLlv~Ddltr~A~A~REisl~lgepP~~~gYP~~vf~~~sr  295 (501)
T TIGR00962       216 AMDYTIVVAATASDSASLQYLAPYTGCTMAEYFRDNGKHALIIYDDLSKHAVAYRQISLLLRRPPGREAYPGDVFYLHSR  295 (501)
T ss_pred             ccceeEEEEecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHHhcCCCCcccCcCchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHH
Q psy210          818 LQERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEH  893 (915)
Q Consensus       818 l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~  893 (915)
                      |+||+|+.    ++||||++|+|++++||++|||||++++||||||+|||+||++||||||||+.|+||+|+ .++.++|
T Consensus       296 LlERag~~~~~~g~GSITal~~V~~~~dD~s~pI~~~~~sItDGqIvLsr~La~~G~~PAIdv~~SvSRv~~-~~~~~~~  374 (501)
T TIGR00962       296 LLERAAKLNDEKGGGSLTALPIIETQAGDVSAYIPTNVISITDGQIFLESDLFNSGIRPAINVGLSVSRVGG-AAQIKAM  374 (501)
T ss_pred             HHHHHhhccCCCCCcceEEEEEEECCCCCCCCcchHhhhhhcceEEEEcHhHHhCCCCCccCCccchhccCc-cccCHHH
Confidence            99999974    379999999999999999999999999999999999999999999999999999999995 6788999


Q ss_pred             HHHHHHHHHHHHccHhhhhcc
Q psy210          894 YKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       894 ~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++.++|.+|++|+|+++++
T Consensus       375 ~~~a~~lr~~la~y~e~~~l~  395 (501)
T TIGR00962       375 KQVAGSLRLELAQYRELEAFS  395 (501)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999986

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.

>PRK07165 F0F1 ATP synthase subunit alpha; Validated

Probab=100.00  E-value=7.9e-88  Score=765.98  Aligned_cols=329  Identities=21%  Similarity=0.256  Sum_probs=312.4

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCC-----CCCCccCCCCC
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINS-----KKKSPIHTLPP  654 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~-----~~~~pi~~~~p  654 (915)
                      ...+.+++++.+.+++|+++.||+.|++|+.||+++++|||+++||||+|++|+|+|+++++..     ...+|++..+|
T Consensus        36 ~g~V~~~~~~~v~~~~l~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVvd~lG~piDg~g~i~~~~~~~~~~~~i~~~ap  115 (507)
T PRK07165         36 KAFVISATEDKAYLLINNEKGKIKINDELIELNNTNKVKTSKEYFGKIIDIDGNIIYPEAQNPLSKKFLPNTSSIFNLAH  115 (507)
T ss_pred             EEEEEEEeCCeEEEEEccCccCCCCCCEEEECCCccEEECCccccCCEECCCCcccCCCCCCCcccccccccccccCCCC
Confidence            3466799999999999999999999999999999999999999999999999999999987654     45679999999


Q ss_pred             CccccccccccccccceeeecccccccCCeeeeccCCCCChhhH-HHHHHHHHHhcCCc-EEEEEEecCCCchHHHHHHH
Q psy210          655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVN-MMELIRNIAIEHKG-CSVFIGVGERSREGNDFYHE  732 (915)
Q Consensus       655 ~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~L-l~~i~~~~~~~~~~-~~v~~~iGer~~ev~e~~~~  732 (915)
                      ++++|.++++|++||||+||+|+|||||||+||||++|||||+| +.+|++ ++ + .| +|||++||||++||++|+++
T Consensus       116 ~~~~R~~v~epL~TGIkaID~l~pigrGQR~~Ifg~~gtGKT~lal~~I~~-q~-~-~dv~~V~~~IGer~~ev~~~~~~  192 (507)
T PRK07165        116 GLMTVKTLNEQLYTGIIAIDLLIPIGKGQRELIIGDRQTGKTHIALNTIIN-QK-N-TNVKCIYVAIGQKRENLSRIYET  192 (507)
T ss_pred             CchhhCCCCceeecCchhhhhcCCcccCCEEEeecCCCCCccHHHHHHHHH-hc-C-CCeEEEEEEccCChHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999 556554 43 2 35 47999999999999999999


Q ss_pred             hhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhh
Q psy210          733 MKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLA  812 (915)
Q Consensus       733 ~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~  812 (915)
                      ++++++|+||++|++|+| ||.+|+++||+|+|+|||||++ +|||+++||+||||+|+||||+++||||+++||||++|
T Consensus       193 l~~~gal~~tvvV~atsd-~~~~r~~ap~~a~tiAEyfrd~-~dVLlv~DdLTr~A~A~REisLllgepPgregYPg~vF  270 (507)
T PRK07165        193 LKEHDALKNTIIIDAPST-SPYEQYLAPYVAMAHAENISYN-DDVLIVFDDLTKHANIYREIALLTNKPVGKEAFPGDMF  270 (507)
T ss_pred             hhhcCceeeeEEEEeCCC-CHHHHHHHHHHHHHHHHHHHhc-CceEEEEcChHHHHHHHHHHHhhccCCCCccCCCchHH
Confidence            999999999999999985 9999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCC-CCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCH
Q psy210          813 EEMGKLQERISSTK-NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGE  891 (915)
Q Consensus       813 ~~l~~l~ERag~~~-~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~  891 (915)
                      +.|++|+||||+.. +||||++|+|++++||++|||||+++|||||||||||+||++||||||||+.|+||+|+ .++++
T Consensus       271 ~~~srLlERAg~~~g~GSITalpiV~t~~dDis~pIpdnv~sItDGqIvLsr~L~~~G~~PAIDvl~SvSRv~~-~~q~~  349 (507)
T PRK07165        271 FAHSKLLERAGKFKNRKTITALPILQTVDNDITSLISSNIISITDGQIVTSSDLFASGKLPAIDIDLSVSRTGS-SVQSK  349 (507)
T ss_pred             HHhHHHHHhccCCCCCCceEEEEEEECCCCCCCCcchhhhccccCeEEEEcHHHHhCCCCCCcCCccchhhccc-cccCH
Confidence            99999999999875 79999999999999999999999999999999999999999999999999999999995 78999


Q ss_pred             HHHHHHHHHHHHHHccHhhhhcc
Q psy210          892 EHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       892 ~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      .|++++..+|.+|++|+|+++++
T Consensus       350 ~~~~~a~~~r~~la~Y~e~e~~~  372 (507)
T PRK07165        350 TITKVAGEISKIYRAYKRQLKLS  372 (507)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999986

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=100.00  E-value=4.1e-87  Score=757.21  Aligned_cols=402  Identities=28%  Similarity=0.412  Sum_probs=374.9

Q ss_pred             eeEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccce
Q psy210          121 AYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       121 g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      |..++..+. +..+++.+.++..++....|+|.+.++  +    .+.+++++.+.+++.|++|.++|+++++|+++++||
T Consensus         8 G~~i~v~~~-~~~ige~~~i~~~~~~~~~~eVi~~~~--~----~v~l~~~~~t~gl~~G~~V~~tg~~~~vpvg~~lLG   80 (413)
T TIGR03497         8 GLTIESKGP-KAKIGELCSILTKGGKPVLAEVVGFKE--E----NVLLMPLGEVEGIGPGSLVIATGRPLAIKVGKGLLG   80 (413)
T ss_pred             CCEEEEEeC-CCCcCCEEEEEeCCCCeEEEEEEEEcC--C----eEEEEEccCccCCCCCCEEEEcCCeeEEEcchhhcC
Confidence            455666655 467888888864334447889999997  3    358889999999999999999999999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+++++....+++++..||+|++|..+++++.||+++||.++|+++|||++|||++|+|||+| +++|++
T Consensus        81 RVid~~G~plD~~~~~~~~~~~~i~~~~p~~~~R~~~~~~~~tGi~~iD~l~~i~~Gqri~I~G~sG~GKTtL-l~~i~~  159 (413)
T TIGR03497        81 RVLDGLGRPLDGEGPIIGEEPYPLDNPPPNPLKRPRIRDPLETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTL-LGMIAR  159 (413)
T ss_pred             CEEcCCCCcccCCCCCCCCccccccCCCcChHHccchhhhccccceeeeeEEEEcCCCEEEEECCCCCCHHHH-HHHHhC
Confidence            9999999999998887777788999999999999999999999999999999999999999999999999999 799999


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchh
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTK  360 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr  360 (915)
                      +.+.+. .++++||||++|+.+|+++..+...++|+++|++++|+||.+|+++|++|||+|||||++|+|||+++|||||
T Consensus       160 ~~~~~~-gvi~~~Ger~~ev~e~~~~~l~~~~~~~~v~v~~tsd~~~~~r~~~~~~a~tiAEyfr~~G~~Vll~~Dsltr  238 (413)
T TIGR03497       160 NAKADI-NVIALIGERGREVRDFIEKDLGEEGLKRSVVVVATSDQPALMRLKAAFTATAIAEYFRDQGKDVLLMMDSVTR  238 (413)
T ss_pred             CCCCCe-EEEEEEccchHHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEcCcHH
Confidence            888776 5789999999999999998555556999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccc
Q psy210          361 HAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVIS  440 (915)
Q Consensus       361 ~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~  440 (915)
                      ||+|+||||+++||||+++||||++|+.||+|+||||+.    +         +||||+||+|++|+||++|||||+++|
T Consensus       239 ~A~A~rEisl~~ge~P~~~gyp~~~f~~l~~l~ERag~~----~---------~GSIT~~~tVl~~gdD~~dpi~~~~~s  305 (413)
T TIGR03497       239 FAMAQREIGLAVGEPPTTRGYTPSVFSLLPKLLERSGNS----Q---------KGSITGFYTVLVDGDDMNEPIADAVRG  305 (413)
T ss_pred             HHHHHHHHHHhcCCCCCCCCcCchHHHHhHHHHHHhcCC----C---------CcceeEEEEEEccCCCCCCcchhhccc
Confidence            999999999999999999999999999999999999982    1         799999999999999999999999999


Q ss_pred             ccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhH
Q psy210          441 ITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNG  517 (915)
Q Consensus       441 i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~  517 (915)
                      |+||||+|||+||++||||||||+.|+||+++.++.++|++++.++|+.|++|+|+++++++|   .+.|++++++++++
T Consensus       306 i~dg~ivLsr~la~~g~~PAId~~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~li~~g~~~~g~d~~~~~~i~~~  385 (413)
T TIGR03497       306 ILDGHIVLSRELAAKNHYPAIDVLASVSRVMNEIVSEEHKELAGKLRELLAVYKEAEDLINIGAYKRGSNPKIDEAIRYI  385 (413)
T ss_pred             cccEEEEECHHHHhCCCCCccCCccccccCccccCCHHHHHHHHHHHHHHHhhHHHHHHHHhcCcccCCCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999997   37899999999999


Q ss_pred             HHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          518 EKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       518 ~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +++++||+|+.+|++++++++..|..+
T Consensus       386 ~~i~~fl~Q~~~~~~~~~~~~~~l~~~  412 (413)
T TIGR03497       386 EKINSFLKQGIDEKFTFEETVQLLKTL  412 (413)
T ss_pred             HHHHHHhCCCCCCCCCHHHHHHHHHhh
Confidence            999999999999999999999988753

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.

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=1.1e-87  Score=760.15  Aligned_cols=331  Identities=30%  Similarity=0.494  Sum_probs=315.4

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCC-CCCccCCCCCCcc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSK-KKSPIHTLPPKFS  657 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~-~~~pi~~~~p~~~  657 (915)
                      ..+| ..++++.+++++|+++.||+.|++|+.+|+++++|+|+++||||+|++|+|||+++++... .++|+++.+|+++
T Consensus        55 ~~eV-v~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRVid~~G~piDg~~~~~~~~~~~~i~~~~p~~~  133 (442)
T PRK08927         55 PCEV-VGFRGDRALLMPFGPLEGVRRGCRAVIANAAAAVRPSRAWLGRVVNALGEPIDGKGPLPQGPVPYPLRAPPPPAH  133 (442)
T ss_pred             EEEE-EEEcCCeEEEEEccCccCCCCCCEEEeCCCccEEECChhhCCCEEccCCCCccCCCCCCCCcccccccCCCcChH
Confidence            3455 5889999999999999999999999999999999999999999999999999999877654 5789999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++++||||+||+|+|+++|||++|||++|+|||+|+.+|+++..   ++++||++||||+|||+||+++..++.
T Consensus       134 ~R~~~~~~l~TGir~ID~l~~i~~Gqri~I~G~sG~GKTtLL~~I~~~~~---~d~~v~~~iGER~rEv~ef~~~~l~~~  210 (442)
T PRK08927        134 SRARVGEPLDLGVRALNTFLTCCRGQRMGIFAGSGVGKSVLLSMLARNAD---ADVSVIGLIGERGREVQEFLQDDLGPE  210 (442)
T ss_pred             HcCCcccccccceEEEeeeeEEcCCCEEEEECCCCCCHHHHHHHHHhccC---CCEEEEEEEecCcHHHHHHHHHHhhcc
Confidence            99999999999999999999999999999999999999999999998753   578899999999999999998665555


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      .++|||+|++|||+||.+|++++++|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|++|++
T Consensus       211 ~l~rsvvv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gyp~~~f~~l~~  290 (442)
T PRK08927        211 GLARSVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGEPPTTKGYTPTVFAELPR  290 (442)
T ss_pred             CceeEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCcHHHHhhhhHHHHhcCCCCcccCCCcchHHHhhH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          818 LQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       818 l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      |+||+|+.  ++||||+||||++|+||++|||+|++++|+||||||||+||++||||||||+.|+||+| +.+++++|++
T Consensus       291 l~ERaG~~~~~~GSIT~i~tVlv~gdD~~dpi~d~~~~i~Dg~ivLsr~La~~g~~PAIDvl~S~SR~~-~~~~~~~~~~  369 (442)
T PRK08927        291 LLERAGPGPIGEGTITGLFTVLVDGDDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKSVSRTM-PGCNDPEENP  369 (442)
T ss_pred             HHHHhcCCCCCCeeeeeeeeeEccCCCCCCchhhhhhccccEEEEEcHHHHhCCCCCccCCcccccccc-cccCCHHHHH
Confidence            99999984  58999999999999999999999999999999999999999999999999999999999 6889999999


Q ss_pred             HHHHHHHHHHccHhhhhcc
Q psy210          896 VANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~  914 (915)
                      .++++|++|++|+|+|++.
T Consensus       370 ~a~~~r~~l~~y~e~edli  388 (442)
T PRK08927        370 LVRRARQLMATYADMEELI  388 (442)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999985

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=6.6e-87  Score=754.69  Aligned_cols=402  Identities=27%  Similarity=0.363  Sum_probs=374.1

Q ss_pred             eeEEEEeecChhhcccccccccCC-CceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccc
Q psy210          121 AYNIEYDYFDPRCLNQTLNIKFAN-NTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELL  199 (915)
Q Consensus       121 g~~~~~~~~~p~~L~~~le~~~~~-g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lL  199 (915)
                      |..++.+-+. ..+++.+++...+ +-...|+|.++++  +    .+.+++++.+.+++.|++|.++++++++|+++++|
T Consensus        27 g~~v~~~g~~-~~~ge~~~i~~~~~~~~~~~eVv~~~~--~----~~~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~ll   99 (434)
T PRK08472         27 PTIIEADGLN-PSVGDIVKIESSDNGKECLGMVVVIEK--E----QFGISPFSFIEGFKIGDKVFISKEGLNIPVGRNLL   99 (434)
T ss_pred             ccEEEEEecC-CCCCCEEEEecCCCCCceEEEEEEEeC--C----eEEEEEccCCCCCCCCCEEEeCCCceEEEcChhhc
Confidence            3444554444 5899999995432 1236789999998  3    34788999999999999999999999999999999


Q ss_pred             eeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHH
Q psy210          200 GRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTII  279 (915)
Q Consensus       200 GrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~  279 (915)
                      |||+|++|+|||+++++....+++++.+||||++|..+++++.||+++||.++|+++|||++|+|++|+|||+| +++|+
T Consensus       100 GRViD~~G~plD~~g~~~~~~~~~i~~~~~~~~~R~~i~~~l~tgi~aid~l~~i~~Gq~~~i~G~sG~GKStL-l~~i~  178 (434)
T PRK08472        100 GRVVDPLGRPIDGKGAIDYERYAPIMKAPIAAMKRGLIDEVFSVGVKSIDGLLTCGKGQKLGIFAGSGVGKSTL-MGMIV  178 (434)
T ss_pred             CCEECCCCCcccCCCCCCcccccccccCCCCHHHcCCcceeccchhHHhhhcceecCCCEEEEECCCCCCHHHH-HHHHh
Confidence            99999999999999887766778999999999999999999999999999999999999999999999999999 79999


Q ss_pred             hhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccch
Q psy210          280 NQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLT  359 (915)
Q Consensus       280 ~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddlt  359 (915)
                      ++.+.++ +||+++|+|++|+.+|++... .+.++++++|++++|+||.+|++++++|+++||||||+|+|||+++||||
T Consensus       179 ~~~~~~v-~vi~~iGergrev~e~~~~~l-~~~l~~tvvV~atsddsp~~R~~~~~~a~~iAEyFrd~G~~Vll~~DslT  256 (434)
T PRK08472        179 KGCLAPI-KVVALIGERGREIPEFIEKNL-GGDLENTVIVVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVT  256 (434)
T ss_pred             hccCCCE-EEEEeeCccchhHHHHHHHHh-cCcccceEEEEECCCCCHHHhhHHHHHHHHHHHHHHHcCCCEEEecccch
Confidence            9888876 789999999999999998654 44589999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccc
Q psy210          360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVI  439 (915)
Q Consensus       360 r~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~  439 (915)
                      |||+|+||||+++||||+++||||++|+.||+|+||||+.++            +||||+||+|++|+||++|||||+++
T Consensus       257 r~A~A~REi~l~~ge~P~~~Gyp~~vf~~l~~l~ERag~~~g------------~GSIT~~~tVlv~gdD~~dpi~d~~~  324 (434)
T PRK08472        257 RFAMAQREIGLALGEPPTSKGYPPSVLSLLPQLMERAGKEEG------------KGSITAFFTVLVEGDDMSDPIADQSR  324 (434)
T ss_pred             HHHHHHHHHHHhcCCCCCccCcCchHHHHHHHHHHHhccCCC------------CceeeEeEEEEecCCCCCCCchHHhh
Confidence            999999999999999999999999999999999999999742            69999999999999999999999999


Q ss_pred             cccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHh
Q psy210          440 SITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYN  516 (915)
Q Consensus       440 ~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~  516 (915)
                      +|+||||+|||+||++||||||||+.|+||+|+.++.++|++++.++|+.|++|+|+|+|+++|.   ++|+++|+++++
T Consensus       325 ~i~Dg~ivLsr~la~~g~~PAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~e~li~~G~y~~g~d~~~d~ai~~  404 (434)
T PRK08472        325 SILDGHIVLSRELTDFGIYPPINILNSASRVMNDIISPEHKLAARKFKRLYSLLKENEVLIRIGAYQKGNDKELDEAISK  404 (434)
T ss_pred             hhcceEEEEcHHHHhCCCCCccCCccccCccchhcCCHHHHHHHHHHHHHHHhchhHHHHHHhhCccCCCCHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999994   999999999999


Q ss_pred             HHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          517 GEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       517 ~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +++|++||+|+.++++++++++..|..+
T Consensus       405 ~~~i~~fL~Q~~~~~~~~~~~~~~l~~~  432 (434)
T PRK08472        405 KEFMEQFLKQNPNELFPFEQTFEQLEEI  432 (434)
T ss_pred             HHHHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999988754

>PRK08149 ATP synthase SpaL; Validated

Probab=100.00  E-value=7.5e-87  Score=753.05  Aligned_cols=400  Identities=26%  Similarity=0.386  Sum_probs=371.8

Q ss_pred             EEEEeecChhhcccccccccC--CCc-eEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccc
Q psy210          123 NIEYDYFDPRCLNQTLNIKFA--NNT-VLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELL  199 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~--~g~-~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lL  199 (915)
                      .++.+ .....+++.++++..  .+. .--+||.|.++  +    .+.+++++.+.|++.|++|.++++++++|+|+++|
T Consensus        17 ~i~~~-~~~~~~ge~~~i~~~~~~~~~~~~~evv~~~~--~----~~~l~~~~~~~gi~~g~~v~~~~~~~~v~vg~~ll   89 (428)
T PRK08149         17 IIEAE-LPDVAIGEICEIRAGWHSNEVIARAQVVGFQR--E----RTILSLIGNAQGLSRQVVLKPTGKPLSVWVGEALL   89 (428)
T ss_pred             EEEEE-ECCCCcCCEEEEeecCCCCceeeEEEEEEeeC--c----EEEEEECCCccCCCCCCEEEEcCCcCEEEeChhhc
Confidence            34444 336789999999532  232 22379999987  3    34778999999999999999999999999999999


Q ss_pred             eeEeCCCceeecCCC--ccc--ccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHH
Q psy210          200 GRIVNSKGEFIDNKK--KFL--IKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAI  275 (915)
Q Consensus       200 GrviD~lG~PiD~~~--~~~--~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l  275 (915)
                      |||+|++|+|+|+++  +..  +..+++++.+||||++|..+++||.||+++||.++|+++|||++|||++|+||||| +
T Consensus        90 Grv~d~~G~piD~~~~~~~~~~~~~~~~i~~~~~~~~~R~~i~e~l~tGi~aid~ll~i~~Gq~i~I~G~sG~GKTTL-l  168 (428)
T PRK08149         90 GAVLDPTGKIVERFDAPPTVGPISEERVIDVAPPSYAERRPIREPLITGVRAIDGLLTCGVGQRMGIFASAGCGKTSL-M  168 (428)
T ss_pred             CCeeCCCCCCcCCCCCCcccccccceeehhccCCcchhccCccccccCCcEEEeeeeeEecCCEEEEECCCCCChhHH-H
Confidence            999999999999986  322  24678999999999999999999999999999999999999999999999999999 8


Q ss_pred             HHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEe
Q psy210          276 DTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIY  355 (915)
Q Consensus       276 ~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~  355 (915)
                      ++|+++.+.++ +||++||+|++|+.+|++++.+.+.++|+++|++++|+||.+|++++|+|+|+|||||++|+|||+++
T Consensus       169 ~~i~~~~~~dv-~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~~a~tiAE~fr~~G~~Vll~~  247 (428)
T PRK08149        169 NMLIEHSEADV-FVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAALVATTVAEYFRDQGKRVVLFI  247 (428)
T ss_pred             HHHhcCCCCCe-EEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHHHHHHHHHHHHHcCCCEEEEc
Confidence            99999998887 56899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccc
Q psy210          356 DDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIP  435 (915)
Q Consensus       356 Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~  435 (915)
                      |||||||+|+||||+++||||+++||||++|+.||+|+||||+.+             +||||+||+|++|+||++||||
T Consensus       248 DslTr~A~A~rEi~l~~ge~P~~~Gyp~~vfs~l~~l~ERag~~~-------------~GSIT~~~tVl~~~dD~~dpi~  314 (428)
T PRK08149        248 DSMTRYARALRDVALAAGELPARRGYPASVFDSLPRLLERPGATL-------------AGSITAFYTVLLESEEEPDPIG  314 (428)
T ss_pred             cchHHHHHHHHHhHhhcCCCCcccccCccHHHHHHHHHHhccCCC-------------CCCceEEEEEEecCCCCCCCch
Confidence            999999999999999999999999999999999999999999873             6999999999999999999999


Q ss_pred             cccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHH
Q psy210          436 TNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKT  512 (915)
Q Consensus       436 ~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~  512 (915)
                      |++++|+||||+|||+||++||||||||+.|+||+|++++.++|++++.++|+.|++|+|+++++++|+   +.|++.|+
T Consensus       315 d~~~~ilDg~ivLsr~La~~g~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~e~li~~G~y~~g~~~~~d~  394 (428)
T PRK08149        315 DEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSRVFGQVTDPKHRQLAAAFRKLLTRLEELQLFIDLGEYRRGENADNDR  394 (428)
T ss_pred             hhhheeccEEEEEcHHHHhCCCCCcccCccccccchhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999993   78999999


Q ss_pred             HHHhHHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          513 QLYNGEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       513 ~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +++++++|++||+|+.+|+.++++++..|..+
T Consensus       395 ai~~~~~i~~fl~Q~~~~~~~~~~~~~~l~~~  426 (428)
T PRK08149        395 AMDKRPALEAFLKQDVAEKSSFSDTLERLNEF  426 (428)
T ss_pred             HHHhHHHHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999999998754

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=4.7e-87  Score=769.12  Aligned_cols=402  Identities=23%  Similarity=0.303  Sum_probs=365.1

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.+.-.......+++.+.+.   +..+.|+|.+++|  +.+    .+++|+++.|++.|++|.+||+++++++|+++|||
T Consensus        13 pvv~~~~~~~~~~~E~v~v~---~~~l~gEVi~~~~--d~a----~iqv~e~T~Gl~~G~~V~~tg~plsv~lGpglLGr   83 (586)
T PRK04192         13 PLVVAEGMGGARMYEVVRVG---EEGLIGEIIRIEG--DKA----TIQVYEETSGIKPGEPVEFTGEPLSVELGPGLLGS   83 (586)
T ss_pred             cEEEEEeCCCCCccCEEEEC---CCcEEEEEEEEeC--Cce----EEEEecCCcCCCCCCEEEeCCCccEEEcCHHhcCC
Confidence            34445555546788888873   2347899999999  433    78899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCc----c----------c--------------------------------------------------
Q psy210          202 IVNSKGEFIDNKKK----F----------L--------------------------------------------------  217 (915)
Q Consensus       202 viD~lG~PiD~~~~----~----------~--------------------------------------------------  217 (915)
                      ++|++|+|||+.+.    .          .                                                  
T Consensus        84 v~Dg~grPLd~~~~~~~~~i~rG~~~~~l~~~~~w~f~p~~k~gd~v~~gdi~g~v~e~~~~~h~imvp~~~~g~~~~i~  163 (586)
T PRK04192         84 IFDGIQRPLDELAEKSGDFLERGVYVPALDREKKWEFTPTVKVGDKVEAGDILGTVQETPSIEHKIMVPPGVSGTVKEIV  163 (586)
T ss_pred             eecCCCCcccccchhcccccccCCCCCCCCcccccceecccccCCEecCCceEEEEecCCceeeeeecCCCCceEEEEEc
Confidence            99999999997641    0          0                                                  


Q ss_pred             -------------------------ccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhH
Q psy210          218 -------------------------IKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTT  272 (915)
Q Consensus       218 -------------------------~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~  272 (915)
                                               ..++||+..++|. .+|.++++||.||||+||+|+||+||||++|+|++|+|||+
T Consensus       164 ~~G~ytv~~~i~~~~~~~G~~~~~~~~~~wPvr~~~p~-~~R~~~~~pL~TGirvID~l~Pi~kGq~~~Ipg~~G~GKTv  242 (586)
T PRK04192        164 SEGDYTVDDTIAVLEDEDGEGVELTMMQKWPVRRPRPY-KEKLPPVEPLITGQRVIDTFFPVAKGGTAAIPGPFGSGKTV  242 (586)
T ss_pred             cCCCceeeeEEEEEEccCCceeeeccccccccccCCcc-cccCCCCCccccCchhhhcccccccCCeEEEecCCCCCHHH
Confidence                                     0145799988887 99999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH
Q psy210          273 IAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR  345 (915)
Q Consensus       273 l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r  345 (915)
                      | +++|++|+++|+ |||++||||++|+.+|+++|.+       .++|+||++|+||||+|+++|++++|+|+|+|||||
T Consensus       243 l-~~~iak~a~adi-vVyvg~GERg~E~~e~l~ef~~l~dp~~g~~~m~RTvlVanTSn~Pv~aR~~s~ytgiTiAEYfR  320 (586)
T PRK04192        243 T-QHQLAKWADADI-VIYVGCGERGNEMTEVLEEFPELIDPKTGRPLMERTVLIANTSNMPVAAREASIYTGITIAEYYR  320 (586)
T ss_pred             H-HHHHHhcCCCCE-EEEEEcCcChHHHHHHHHHHHhhcccccccccceeEEEEEECCCCCHHHHHHHHHHHHHHHHHHH
Confidence            9 799999999996 8999999999999999999875       458999999999999999999999999999999999


Q ss_pred             hcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEe
Q psy210          346 DLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIET  425 (915)
Q Consensus       346 ~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~  425 (915)
                      |+|+|||+++||+||||+|+||||+++||||+++|||+|+|+.+|++|||||+++...|        ++||||++++|++
T Consensus       321 d~G~~Vllm~DStSR~AeAlREIS~~l~E~P~~eGYP~yL~S~La~~yERAG~v~~~~~--------~~GSIT~i~aVs~  392 (586)
T PRK04192        321 DMGYDVLLMADSTSRWAEALREISGRLEEMPGEEGYPAYLASRLAEFYERAGRVKTLGG--------EEGSVTIIGAVSP  392 (586)
T ss_pred             HCCCCEEEEecChHHHHHHHHHHHHhcCCCCccCCcCccHHHHHHHHHHhhcccccCCC--------CCcceEEEEEEEC
Confidence            99999999999999999999999999999999999999999999999999999865333        2799999999999


Q ss_pred             cCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccccc-------HHHHHHHHHHHHHHHhhHHHHh
Q psy210          426 LEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQY-------KIVKKLSGDIRIMLAQYRELES  498 (915)
Q Consensus       426 ~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~-------~~~~~~a~~lr~~la~~~e~e~  498 (915)
                      |+||++|||++++++|+||||+|||+||++||||||||+.|+||++.....       ++|.+++.+++++|++|+|+++
T Consensus       393 pggD~sePVt~~t~~i~dg~i~Ldr~LA~~ghyPAId~l~S~Sr~~~~~~~~~~~~v~~~~~~~~~~~~~~L~~~~el~e  472 (586)
T PRK04192        393 PGGDFSEPVTQNTLRIVKVFWALDAELADRRHFPAINWLTSYSLYLDQVAPWWEENVDPDWRELRDEAMDLLQREAELQE  472 (586)
T ss_pred             CCCCCCcchHHHHHHHhCceEEEcHHHHhCCcCCccCCccchhhhhhcccchhhcccCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999988755       9999999999999999999999


Q ss_pred             hhhc-cC-CCCHHHHHHHHhHHHHH-HHhhcCCCCCc----cHHHHHHHHHH
Q psy210          499 FSKF-SS-DLDIVTKTQLYNGEKIS-LLMKQKPHENY----SIVELIIILLI  543 (915)
Q Consensus       499 l~~l-G~-~ld~~~~~~L~~~~~i~-~fL~Q~~~e~~----s~ee~l~~L~a  543 (915)
                      ++++ |. +|+++++..|++++.|+ .||+|+.++++    ++++++..|..
T Consensus       473 iv~lvG~d~Ls~~d~~~l~~a~~i~~~fL~Q~~f~~~d~~~~l~k~~~~l~~  524 (586)
T PRK04192        473 IVRLVGPDALPEEDRLILEVARLIREDFLQQNAFDPVDTYCPPEKQYEMLKL  524 (586)
T ss_pred             HHHHhCcccCCHHHHHHHHHHHHHHHhhcCCCCCCCccccccHHHHHHHHHH
Confidence            9996 74 79999999999999997 69999999998    67766665554

>TIGR01043 ATP_syn_A_arch ATP synthase archaeal, A subunit

Probab=100.00  E-value=7.7e-88  Score=774.58  Aligned_cols=331  Identities=30%  Similarity=0.460  Sum_probs=310.6

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCC----C----------CC-
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE----I----------NS-  643 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~----~----------~~-  643 (915)
                      +.|| ..++++.+.+++|++|.||++|++|+.||+++++++|+++||||+|++|||+|+.+.    .          .. 
T Consensus        34 ~gEV-i~~~~d~a~iqvye~t~Gl~~G~~V~~tg~plsV~lGpglLGrV~DgigrPLd~~~~~~g~~i~rg~~~~~l~~~  112 (578)
T TIGR01043        34 IGEI-IRIEGDKAFIQVYEETSGIKPGEPVVGTGAPLSVELGPGLLGSIYDGVQRPLDVLKEKTGDFIARGVDAPGLDRD  112 (578)
T ss_pred             EEEE-EEEcCCeEEEEECCCCCCCCCCCEEEECCCccEEEcCHHHhcceeccCCccccCcccccccccccCccCCCcCcc
Confidence            3445 689999999999999999999999999999999999999999999999999997621    1          11 


Q ss_pred             ------------------------------------------------------------------------CCCCccCC
Q psy210          644 ------------------------------------------------------------------------KKKSPIHT  651 (915)
Q Consensus       644 ------------------------------------------------------------------------~~~~pi~~  651 (915)
                                                                                              .++||+..
T Consensus       113 ~~w~f~p~~~~gd~v~~g~i~g~v~e~~~i~h~im~pp~~~g~v~~i~~~g~~~~~~~v~~~~~~g~~~~~~~~~wPvr~  192 (578)
T TIGR01043       113 KKWHFKPTVKEGDKVEGGDIIGVVPETSLIEHKILVPPNVEGEIVEIAEEGDYTVEDTIAVVDTDGDEEIKMYQKWPVRI  192 (578)
T ss_pred             cccccccccccCccccCCceEEEEecccceeeeeecCCCCcceEEEeccCCCceeeeeEEEEecCCceeeeeeeeccccc
Confidence                                                                                    12679977


Q ss_pred             CCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHH
Q psy210          652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYH  731 (915)
Q Consensus       652 ~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~  731 (915)
                       |+++.+|.++++||.||||+||+|+|||||||++|||++|||||+|++|++++.   ++|++||++||||++|++||++
T Consensus       193 -p~p~~~R~~~~~pL~TGiRvID~l~Pi~kGqr~~I~gg~G~GKT~l~~~lak~~---~adivVyvg~GERG~E~~e~le  268 (578)
T TIGR01043       193 -PRPYKEKLPPEVPLITGQRILDTFFPIAKGGTAAIPGPFGSGKTVTQHQLAKWS---DADIVVYIGCGERGNEMTDVLE  268 (578)
T ss_pred             -CCCchhcCCCCcchhccchhhhccccccCCCEEEEecCCCCCHHHHHHHHHhcC---CCCEEEEEEeccChHHHHHHHH
Confidence             888999999999999999999999999999999999999999999999999974   4699999999999999999999


Q ss_pred             Hhhh-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCC
Q psy210          732 EMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSA  804 (915)
Q Consensus       732 ~~~~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~  804 (915)
                      ++.+       .++|+|||+|+||||+|+.+|++++|+|+|+||||||+|+||++|+||+||||+|+||||+++||||++
T Consensus       269 ~f~~l~dp~~g~~~m~RTvlVanTSn~p~~aR~~s~ytg~TiAEYfRD~G~~Vllm~DS~sR~AeAlREIs~~lgE~P~~  348 (578)
T TIGR01043       269 EFPELKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEAMREISGRLEEMPGE  348 (578)
T ss_pred             HhHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecChhHHHHHHHHHHHhcCCCCCC
Confidence            9943       678999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHhcCCC-------CCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCC
Q psy210          805 VGYQPTLAEEMGKLQERISSTK-------NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPL  877 (915)
Q Consensus       805 ~gyp~~l~~~l~~l~ERag~~~-------~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~  877 (915)
                      +|||||||++|++||||||+..       +||||+|++|++|+||++|||+++|++|+||||+|||+||++||||||||+
T Consensus       349 eGYP~yl~SrLa~~yERAG~~~~~~~~~r~GSIT~i~aVs~~ggD~sdPVt~~t~~i~dg~i~Ldr~LA~~ghyPAId~l  428 (578)
T TIGR01043       349 EGYPAYLASRLAEFYERAGRVKTLGGEERVGSVTVIGAVSPPGGDFSEPVTQNTLRIVKVFWALDADLAQRRHFPAINWL  428 (578)
T ss_pred             CCcCccHHHHHHHHHHhhccccccCCCCCCccEeEEEEEECCCCCCCccHHHHHHHHhCcEEEeCHHHHhcCCCCCcCcc
Confidence            9999999999999999999642       699999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccCCCC-------CCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          878 ESYSKQLDPYI-------VGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       878 ~S~SR~~~~~~-------~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      .|+||+|+ .+       ++++|.+++++++++|++|+|+++|++
T Consensus       429 ~S~Sr~~~-~~~~~~~~~v~~~~~~~~~~~~~lL~~~~el~~iv~  472 (578)
T TIGR01043       429 QSYSLYVD-LVQDWWHENVDPDWREMRDEAMDLLQKESELQEIVQ  472 (578)
T ss_pred             cchhhhcc-ccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999995 45       799999999999999999999999874

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.5e-86  Score=747.86  Aligned_cols=395  Identities=22%  Similarity=0.313  Sum_probs=371.6

Q ss_pred             hhhcccccccccCCCc---eEeeEeeccchhHHHhhcccchhhccccccccCCCccccc-------Cccceeccccccce
Q psy210          131 PRCLNQTLNIKFANNT---VLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCT-------EKIFEIPVGFELLG  200 (915)
Q Consensus       131 p~~L~~~le~~~~~g~---~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~t-------g~~~~vpvg~~lLG  200 (915)
                      ...+++.+.+....+.   ...+||.|+++  +    .+.+++++.+.|+..|++|.++       ++++++|+++++||
T Consensus        45 ~~~iG~~c~i~~~~~~~~~~~~~eVvg~~~--~----~~~l~~~~~~~gi~~g~~v~~~~~~~~~~~~~~~v~vg~~llG  118 (455)
T PRK07960         45 QLPLGATCVIERQNGSETHEVESEVVGFNG--Q----RLFLMPLEEVEGILPGARVYARNISGEGLQSGKQLPLGPALLG  118 (455)
T ss_pred             CCCCCCEEEEEeCCCccccceeeeEEEecC--C----EEEEEECCCccCCCCCCEEEECCcccccCCCceEEECCccccc
Confidence            4568888887432341   25569999998  3    3478899999999999999998       99999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+++++....+++++.+||||++|..+++|++||||+||.|+|+++|||++|||++|+|||+| +++|++
T Consensus       119 Rvid~~G~piDg~~~~~~~~~~~i~~~~~~p~~R~~i~e~l~TGiraID~ll~I~~Gqri~I~G~sG~GKTTL-L~~Ia~  197 (455)
T PRK07960        119 RVLDGSGKPLDGLPAPDTGETGALITPPFNPLQRTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVL-LGMMAR  197 (455)
T ss_pred             CEECCCccccCCCCCCCCCccccccCCCcChHHhcccccchhccceeeeecccccCCcEEEEECCCCCCccHH-HHHHhC
Confidence            9999999999999887777778999999999999999999999999999999999999999999999999999 899999


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchh
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTK  360 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr  360 (915)
                      +.+.++ +|+++||+|++|+.+|++++.+.+.++++++|.+++|+||.+|++++++|+|+||||||+|+|||+++|||||
T Consensus       198 ~~~~d~-iv~g~Igerg~ev~e~~~~~~~~~~~~~tvVv~~~ad~~~~~r~~~~~~a~tiAEyfrd~G~~Vll~~DslTr  276 (455)
T PRK07960        198 YTQADV-IVVGLIGERGREVKDFIENILGAEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTR  276 (455)
T ss_pred             CCCCCE-EEEEEEEECCeEHHHHHHhhcCcCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEecchhH
Confidence            988887 5689999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccc
Q psy210          361 HAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVIS  440 (915)
Q Consensus       361 ~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~  440 (915)
                      ||+|+||||+++||||+++||||++|+.||+|+||||+...           ++||||+||+|++|+||++|||||++++
T Consensus       277 ~A~A~rEisl~~ge~P~~~gypp~~f~~l~~l~ERag~~~~-----------~~GSIT~i~tVlv~~dD~~dpi~d~~~~  345 (455)
T PRK07960        277 YAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGIS-----------GGGSITAFYTVLTEGDDQQDPIADSARA  345 (455)
T ss_pred             HHHHHHHHHHhcCCCCccccCCcchhhhhhHHHHHHhcCCC-----------CCeeeeeEEEEEEcCCCCCcchHHHhhh
Confidence            99999999999999999999999999999999999998632           2799999999999999999999999999


Q ss_pred             ccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhH
Q psy210          441 ITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNG  517 (915)
Q Consensus       441 i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~  517 (915)
                      |+||||||||+||++||||||||+.|+||++..+..++|.+.+..+|+.|+.|+++++++++|   .|.|++.|+++.+.
T Consensus       346 i~dg~ivLsr~la~~g~yPAID~l~S~SR~~~~~~~~~~~~~~~~~r~~l~~Y~~~~dli~ig~y~~G~d~~~D~ai~~~  425 (455)
T PRK07960        346 ILDGHIVLSRRLAEAGHYPAIDIEASISRAMTALIDEQHYARVRQFKQLLSSFQRNRDLVSVGAYAKGSDPMLDKAIALW  425 (455)
T ss_pred             hcceEEEECHHHHhCCCCCccCcCcccCcCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCccCCCCHHHHHHHHhH
Confidence            999999999999999999999999999999999999999999999999999999999999998   39999999999999


Q ss_pred             HHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          518 EKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       518 ~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +.|++||+|+.+|..++++++..|..+
T Consensus       426 ~~i~~fl~Q~~~e~~~~~~~~~~l~~~  452 (455)
T PRK07960        426 PQLEAFLQQGIFERADWEDSLQALERI  452 (455)
T ss_pred             HHHHHHhCCCCCCCcCHHHHHHHHHHh
Confidence            999999999999999999999998854

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=100.00  E-value=6.3e-86  Score=754.24  Aligned_cols=402  Identities=21%  Similarity=0.283  Sum_probs=359.0

Q ss_pred             EEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeC
Q psy210          125 EYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVN  204 (915)
Q Consensus       125 ~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD  204 (915)
                      +-+-.....+++.+++. ..  .+.|+|.+++|  +.    ..+++++++.|++.|++|..||+++++++|+++||+|+|
T Consensus        14 ~a~g~~~~~~gE~v~v~-~~--~l~gEVI~l~~--d~----a~iq~ye~t~Gl~~G~~V~~tg~~lsv~lGpglLG~V~D   84 (591)
T TIGR01042        14 VAENMAGAAMYELVRVG-HD--ELVGEIIRLEG--DK----ATIQVYEETSGLTVGDPVLRTGKPLSVELGPGILGNIFD   84 (591)
T ss_pred             EEecCCCCCcCCEEEEC-CC--ceEEEEEEEcC--Ce----EEEEEccCccCCCCCCEEEeCCCccEEEcCHHHhhcccC
Confidence            33333345788888873 22  36899999998  33    378999999999999999999999999999999999999


Q ss_pred             CCceeecCCC----c-----------ccc---------------------------------------------------
Q psy210          205 SKGEFIDNKK----K-----------FLI---------------------------------------------------  218 (915)
Q Consensus       205 ~lG~PiD~~~----~-----------~~~---------------------------------------------------  218 (915)
                      ++|+|||+.+    +           +..                                                   
T Consensus        85 gigrPLd~~~~~~~~~fi~rG~~~~~ld~~~~w~f~p~~~k~gd~v~~G~i~g~v~e~~~~~h~imvpp~~~g~v~~i~~  164 (591)
T TIGR01042        85 GIQRPLKAIAEQSQSIYIPRGVNVPALDRDKKWEFTPKKLRVGDHITGGDIYGTVFENSLIKHKIMLPPRARGTITYIAP  164 (591)
T ss_pred             cCCCchHHHHhhccCccccCCCCCCCCCccccceeeccccccCCCccCCCeEEEEecCCceeeeeecCCCCceEEEEEcc
Confidence            9999999753    1           100                                                   


Q ss_pred             ------------------------cccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHH
Q psy210          219 ------------------------KNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIA  274 (915)
Q Consensus       219 ------------------------~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~  274 (915)
                                              .++||+.. ||++++|.++++||.||+|+||+|+|||+|||++|||++|||||+| 
T Consensus       165 ~g~ytv~~~i~~~~~~g~~~~~~m~~~wPvr~-p~p~~~R~~~~~PL~TG~RvID~lfPi~kGqr~~I~gg~G~GKT~l-  242 (591)
T TIGR01042       165 AGNYTVDDTVLEVEFQGVKKKFSMLQTWPVRS-PRPVTEKLPANTPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVI-  242 (591)
T ss_pred             CCCceeeeEEEEEeeCCceeeeccceeeeccc-CCChhhccCCCCccccchhhhhhccchhcCCeEEEEcCCCcCHHHH-
Confidence                                    02688887 7889999999999999999999999999999999999999999999 


Q ss_pred             HHHHHhhcCCCeEEEEEeeccchhhHHHHHHHH---------hccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH
Q psy210          275 IDTIINQKNKNVICIYVCIGQKISSLINVINKL---------KYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR  345 (915)
Q Consensus       275 l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l---------~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r  345 (915)
                      +++|++++++|+ |||++||||++|+++|+++|         ++..+|+||++|+||||+|+.+|++++|+|+|+|||||
T Consensus       243 ~~~lak~s~aDv-iVyvg~GERG~Em~evle~fp~l~dp~~g~~~~~m~rtvlVa~tsd~p~~~R~~s~ytg~tiAEYfR  321 (591)
T TIGR01042       243 SQSLSKYSNSDA-IVYVGCGERGNEMAEVLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYTGITLAEYFR  321 (591)
T ss_pred             HHHHHhccCcCE-EEEEEEeechHHHHHHHHHhHhhcccccccccccccceEEEEEcCCCCHHHHHHHHHHHHHHHHHHH
Confidence            788999999998 89999999999999999997         34577999999999999999999999999999999999


Q ss_pred             hcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEe
Q psy210          346 DLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIET  425 (915)
Q Consensus       346 ~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~  425 (915)
                      |+|+|||+++||+||||+|+||||+++||||+++|||+|+|+.+|+||||||+++. +|+     .+++||||++++|++
T Consensus       322 D~G~~Vll~~DS~tR~AeAlREIsl~lgE~P~~eGYPayl~SrLa~l~ERAG~~~~-~~~-----~~~~GSIT~i~aVs~  395 (591)
T TIGR01042       322 DMGYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKC-LGS-----PEREGSVSIVGAVSP  395 (591)
T ss_pred             hcCCCEEEEecChHHHHHHHHHHHhccCCCCCCCCcCccHHHHHHHHHHhccCCcc-CCC-----CCCCccEEEEEEEEC
Confidence            99999999999999999999999999999999999999999999999999999864 332     234799999999999


Q ss_pred             cCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc------cHHHHHHHHHHHHHHHhhHHHHhh
Q psy210          426 LEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ------YKIVKKLSGDIRIMLAQYRELESF  499 (915)
Q Consensus       426 ~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~------~~~~~~~a~~lr~~la~~~e~e~l  499 (915)
                      |+||++|||++++++|+||||+|||+||++||||||||+.|+||++....      +++|.+++.++|.+|++|+|++++
T Consensus       396 ~ggD~sePVt~~t~~i~~~f~~Ldr~LA~~ghyPAId~l~S~Sr~~~~l~~~~~~~~~~~~~~~~~~~~lL~~~~el~ei  475 (591)
T TIGR01042       396 PGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRALEEFYEKFYPEFVPLRTKAKEILQEEEDLNEI  475 (591)
T ss_pred             CCCCCCCchHHHHHHHhcceeeeCHHHHhCCCCCCcCCchhhhhhhhhcccccccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999998887      899999999999999999999999


Q ss_pred             hhcc--CCCCHHHHHHHHhHHHH-HHHhhcC----CCCCccHHHHHHHHHHH
Q psy210          500 SKFS--SDLDIVTKTQLYNGEKI-SLLMKQK----PHENYSIVELIIILLII  544 (915)
Q Consensus       500 ~~lG--~~ld~~~~~~L~~~~~i-~~fL~Q~----~~e~~s~ee~l~~L~ai  544 (915)
                      ++++  +.+++.++..+.++..+ ++||+|+    ..+..++++++..|..+
T Consensus       476 v~l~g~~~l~~~d~~i~~~a~~i~e~FLqQ~a~~~~d~~~~~~kt~~~L~~i  527 (591)
T TIGR01042       476 VQLVGKDALAETDKITLEVAKLIKEDFLQQNGYTPYDRFCPFYKTVGMMRNM  527 (591)
T ss_pred             HHHhCCccCCHHHHHHHHHHHHHHHHhCCCCCCCCccccCCHHHHHHHHHHH
Confidence            9997  35655555555555555 6899999    67778999999887764

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=8.4e-86  Score=745.68  Aligned_cols=402  Identities=23%  Similarity=0.300  Sum_probs=374.7

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.++-... ...+++.++++..++..+.|||.|++|  +    -+.+++|+.+.+++.|++|.++++++++|+++++|||
T Consensus        27 ~~~~~~~~-~~~~ge~~~i~~~~~~~~~~eVv~~~~--~----~~~l~~~~~~~gi~~g~~v~~~~~~~~v~vg~~llGr   99 (434)
T PRK07196         27 LLLESVGC-RLAIGQRCRIESVDETFIEAQVVGFDR--D----ITYLMPFKHPGGVLGGARVFPSEQDGELLIGDSWLGR   99 (434)
T ss_pred             CEEEEecC-CCCcCCEEEEEeCCCceEEEEEEEecC--C----EEEEEECCCccCCCCCCEEEECCCccEEEcCccccCC
Confidence            34444444 368999999965456458889999998  3    3478899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+|++|+|||+++++.+...++++.++|||++|.++++||+||+++||.++|+++|||++|||++|+||||| +++|+++
T Consensus       100 v~d~~G~pld~~~~~~~~~~~~~~~~~~~p~~R~~~~~~l~TGi~aID~ll~I~~GQ~igI~G~sGaGKSTL-l~~I~g~  178 (434)
T PRK07196        100 VINGLGEPLDGKGQLGGSTPLQQQLPQIHPLQRRAVDTPLDVGVNAINGLLTIGKGQRVGLMAGSGVGKSVL-LGMITRY  178 (434)
T ss_pred             eeCcCCCCcCCCCCCCCCceeeccCCCCChHHhcccccccccceeeccceEeEecceEEEEECCCCCCccHH-HHHHhcc
Confidence            999999999999887666677899999999999999999999999999999999999999999999999999 7999998


Q ss_pred             cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          282 KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       282 ~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      .+.++ +|+++||++++|+.+|.++......+.|++++++++++|+.+|+.+++.++++||||+++|+|||+++||||||
T Consensus       179 ~~~dv-~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a~e~a~~iAEyfr~~g~~Vll~~Dsltr~  257 (434)
T PRK07196        179 TQADV-VVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRY  257 (434)
T ss_pred             cCCCe-EEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHHHHHHHHHHHHhhhccCCEEEeecchhHH
Confidence            88886 56799999999999999875444558899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccc
Q psy210          362 AWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISI  441 (915)
Q Consensus       362 a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i  441 (915)
                      |+|+||||+++||||+++||||++|+.|++|+||||+.++            +||||+||+|++|+||++|||||+++||
T Consensus       258 a~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ERag~~~~------------~GSIT~~~tVl~~~dD~~dpi~d~~~~i  325 (434)
T PRK07196        258 AMAQREIALSLGEPPATKGYPPSAFSIIPRLAESAGNSSG------------NGTMTAIYTVLAEGDDQQDPIVDCARAV  325 (434)
T ss_pred             HhhhhHHHHhcCCCCcccCcCHHHHHHhHHHHHHhhcCCC------------CEEeeeeeEEEccCCCCCCchhHhhhhh
Confidence            9999999999999999999999999999999999998742            6999999999999999999999999999


Q ss_pred             cCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHhHH
Q psy210          442 TDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYNGE  518 (915)
Q Consensus       442 ~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~~~  518 (915)
                      +||||||||+||++||||||||+.|+||+|+.++.++|+++|.++|+.|++|+|+++|+++|.   ++|+++|+++++++
T Consensus       326 lDG~ivLsr~la~~g~yPAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~~a~y~e~~~li~~g~y~~g~d~~~d~ai~~~~  405 (434)
T PRK07196        326 LDGHIVLSRKLAEAGHYPAIDISQSISRCMSQVIGSQQAKAASLLKQCYADYMAIKPLIPLGGYVAGADPMADQAVHYYP  405 (434)
T ss_pred             cceEEEEcHHHHhCCCCCccCCccccCccchhccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHhHH
Confidence            999999999999999999999999999999999999999999999999999999999999995   99999999999999


Q ss_pred             HHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          519 KISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       519 ~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      ++++||+|+.+|+.++++++..|..+
T Consensus       406 ~i~~fL~Q~~~e~~~~~~~~~~l~~~  431 (434)
T PRK07196        406 AITQFLRQEVGHPALFSASVEQLTGM  431 (434)
T ss_pred             HHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            99999999999999999999999854

>PRK02118 V-type ATP synthase subunit B; Provisional

Probab=100.00  E-value=2.7e-86  Score=745.44  Aligned_cols=323  Identities=25%  Similarity=0.380  Sum_probs=310.1

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...+| .+++++.+++++|+++.||+.|++|.++|+++++|||+++||||+|++|+|+|+++++.. +.+|+++.||||+
T Consensus        38 ~~geV-i~~~~~~v~~~~~~~t~Gl~~g~~V~~tg~~~~vpvg~~lLGRV~d~~G~PiD~~~~~~~-~~~~i~~~~~~p~  115 (436)
T PRK02118         38 SLAQV-IRLDGDKVTLQVFGGTRGISTGDEVVFLGRPMQVTYSESLLGRRFNGSGKPIDGGPELEG-EPIEIGGPSVNPV  115 (436)
T ss_pred             EEEEE-EEEcCCEEEEEEecCCcCCCCCCEEEeCCCceEEEcCccccCCEEccCCcccCCCCCCCc-ceeecCCCCCChH
Confidence            34566 699999999999999999999999999999999999999999999999999998877754 4589999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++++||||+||+|+|+|||||+||||++|+|||+|+.+|+++..   .+++||++||||.||+.||++++++++
T Consensus       116 ~R~~~~e~l~TGIkaID~l~pl~rGQkigIF~gaGvgk~~L~~~ia~~~~---~~v~Vfa~iGeR~rE~~ef~~~~~~~~  192 (436)
T PRK02118        116 KRIVPREMIRTGIPMIDVFNTLVESQKIPIFSVSGEPYNALLARIALQAE---ADIIILGGMGLTFDDYLFFKDTFENAG  192 (436)
T ss_pred             HcCCcccccccCcEEeecccccccCCEEEEEeCCCCCHHHHHHHHHHhhC---CCeEEEEEeccchhHHHHHHHHHhhCC
Confidence            99999999999999999999999999999999999999999999998753   489999999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCC-CcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSG-KDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g-~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      +++|||+|++|||+||.+|+++|++|+|+||||||+| +|||+++||+||||+|+||||+++||+|+++||||++|++|+
T Consensus       193 ~l~rtvlv~~~adep~~~R~~~~~~AltiAEyfrd~g~~~VLli~DdlTr~a~A~REIsl~~ge~P~r~GYpp~lfs~L~  272 (436)
T PRK02118        193 ALDRTVMFIHTASDPPVECLLVPDMALAVAEKFALEGKKKVLVLLTDMTNFADALKEISITMDQIPSNRGYPGSLYSDLA  272 (436)
T ss_pred             CcceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHhcCCCCEEEeccCchHHHHHHHHHHHhcCCCCCCCCcCCcHHHHHH
Confidence            9999999999999999999999999999999999997 999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC-CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCC----H
Q psy210          817 KLQERISST-KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVG----E  891 (915)
Q Consensus       817 ~l~ERag~~-~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~----~  891 (915)
                      +||||+|+. ++||||+||+|++|+||++|||||++++||||||||||+|        |||+.|+||+| +.+++    +
T Consensus       273 ~l~ERag~~~~~GSITai~~V~~p~DD~tdPi~d~~~silDGqIvLsR~l--------ID~l~S~SRl~-~~v~g~~t~~  343 (436)
T PRK02118        273 SRYEKAVDFEDGGSITIIAVTTMPGDDVTHPVPDNTGYITEGQFYLRRGR--------IDPFGSLSRLK-QLVIGKKTRE  343 (436)
T ss_pred             HHHHhcCCCCCCeeEEEEEEEEcCCCCcCccHHHHHHHhcCcEEEecccc--------ccCcccccccc-ccccCccccH
Confidence            999999985 5899999999999999999999999999999999999999        99999999999 78999    6


Q ss_pred             HHHHHHHHHHHHHHccHhhhhcc
Q psy210          892 EHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       892 ~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +|+++|+++|++|++|+|+++|+
T Consensus       344 ~h~~~a~~l~~~~a~y~e~~dli  366 (436)
T PRK02118        344 DHGDLMNAMIRLYADSREAKEKM  366 (436)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999986

>PRK05922 type III secretion system ATPase; Validated

Probab=100.00  E-value=2.4e-85  Score=740.83  Aligned_cols=399  Identities=21%  Similarity=0.309  Sum_probs=372.1

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      ..++-.-.. ..+++.+++...++....|+|.++++  +    .+.+++++.+.+++.|++|.++++++++|+++++|||
T Consensus        29 ~~i~~~g~~-~~~ge~~~i~~~~~~~~~~eVv~~~~--~----~~~l~~~~~~~gi~~G~~V~~~~~~~~v~vg~~llGr  101 (434)
T PRK05922         29 NLLEAQGLS-ACLGELCQISLSKSPPILAEVIGFHN--R----TTLLMSLSPIHYVALGAEVLPLRRPPSLHLSDHLLGR  101 (434)
T ss_pred             cEEEEEeCC-CCCCCEEEEecCCCCeeEEEEEEEeC--C----eEEEEEccCCCCCCCCCEEEeCCCCcEEEcChhhcCC
Confidence            444444443 45899999864323336889999998  3    3488899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      ++|++|+|||+++++....++|++.+||+|++|..+++||+||||+||.|+|+++|||++|||++|+|||+| +.+|+++
T Consensus       102 v~d~~G~pld~~~~~~~~~~~pi~~~~~~~~~R~~i~e~l~TGIr~ID~ll~I~~GqrigI~G~nG~GKSTL-L~~Ia~~  180 (434)
T PRK05922        102 VLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSRQPIQEIFPTGIKAIDAFLTLGKGQRIGVFSEPGSGKSSL-LSTIAKG  180 (434)
T ss_pred             EeCCCCCccCCCCCCCccceeecccCCCChhhcCCcceecCCCceeecceEEEcCCcEEEEECCCCCChHHH-HHHHhcc
Confidence            999999999999887777778999999999999999999999999999999999999999999999999999 8999999


Q ss_pred             cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          282 KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       282 ~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      .+.++ ++|++||+|++|+.+|++++.+...+++|++|++++|+||.+|++++++|+|+||||||+|+|||+++||||||
T Consensus       181 ~~~d~-gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        181 SKSTI-NVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             CCCCc-eEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHH
Confidence            87775 78999999999999999999888889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccc
Q psy210          362 AWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISI  441 (915)
Q Consensus       362 a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i  441 (915)
                      |+|+||||+++||||+++||||++|+.||+|+||||+.+             +||||+||+|++++| +.|||+|+++||
T Consensus       260 A~A~REisl~~ge~P~~~gyp~svfs~l~~l~ERag~~~-------------~GSIT~~~tVl~~~~-~~dpi~d~~rsi  325 (434)
T PRK05922        260 IAALQEVALARGETLSAHHYAASVFHHVSEFTERAGNND-------------KGSITALYAILHYPN-HPDIFTDYLKSL  325 (434)
T ss_pred             HHHHHHHHHhcCCCCCcCCcCchHHHHhHHHHHhhcCCC-------------CcceeEEEEEEecCC-CCCccccchhhh
Confidence            999999999999999999999999999999999999831             799999999999988 789999999999


Q ss_pred             cCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhHH
Q psy210          442 TDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNGE  518 (915)
Q Consensus       442 ~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~~  518 (915)
                      +||||||||+|++++ |||||++.|+||+|+.+++++|++++.++|+.|++|+|+|+|+++|   .+.|++.|+++++.+
T Consensus       326 lDGhIvLsr~la~~~-~PAIDvl~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~edli~~G~y~~g~d~~~d~a~~~~~  404 (434)
T PRK05922        326 LDGHFFLTPQGKALA-SPPIDILTSLSRSARQLALPHHYAAAEELRSLLKAYHEALDIIQLGAYVPGQDAHLDRAVKLLP  404 (434)
T ss_pred             cCcEEEEcHHHHhCC-CCCcCCccccccCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCCHHHHHHHHhHH
Confidence            999999999999887 9999999999999999999999999999999999999999999998   389999999999999


Q ss_pred             HHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          519 KISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       519 ~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      .|++||+|+..+..++++++..|..+
T Consensus       405 ~i~~fl~Q~~~~~~~~~~~~~~l~~~  430 (434)
T PRK05922        405 SIKQFLSQPLSSYCALHNTLKQLEAL  430 (434)
T ss_pred             HHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            99999999999999999999988854

>TIGR01042 V-ATPase_V1_A V-type (H+)-ATPase V1, A subunit

Probab=100.00  E-value=1.5e-86  Score=759.42  Aligned_cols=331  Identities=25%  Similarity=0.443  Sum_probs=310.1

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCC----C-----------CCC
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG----E-----------INS  643 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~----~-----------~~~  643 (915)
                      +.|+ ..|+++.+.+++|+++.||++|++|..||+++++++|+++||||+|++|||||+.+    .           +..
T Consensus        35 ~gEV-I~l~~d~a~iq~ye~t~Gl~~G~~V~~tg~~lsv~lGpglLG~V~DgigrPLd~~~~~~~~~fi~rG~~~~~ld~  113 (591)
T TIGR01042        35 VGEI-IRLEGDKATIQVYEETSGLTVGDPVLRTGKPLSVELGPGILGNIFDGIQRPLKAIAEQSQSIYIPRGVNVPALDR  113 (591)
T ss_pred             EEEE-EEEcCCeEEEEEccCccCCCCCCEEEeCCCccEEEcCHHHhhcccCcCCCchHHHHhhccCccccCCCCCCCCCc
Confidence            3345 58999999999999999999999999999999999999999999999999999753    1           110


Q ss_pred             ---------------------------------------------------------------------------CCCCc
Q psy210          644 ---------------------------------------------------------------------------KKKSP  648 (915)
Q Consensus       644 ---------------------------------------------------------------------------~~~~p  648 (915)
                                                                                                 .++||
T Consensus       114 ~~~w~f~p~~~k~gd~v~~G~i~g~v~e~~~~~h~imvpp~~~g~v~~i~~~g~ytv~~~i~~~~~~g~~~~~~m~~~wP  193 (591)
T TIGR01042       114 DKKWEFTPKKLRVGDHITGGDIYGTVFENSLIKHKIMLPPRARGTITYIAPAGNYTVDDTVLEVEFQGVKKKFSMLQTWP  193 (591)
T ss_pred             cccceeeccccccCCCccCCCeEEEEecCCceeeeeecCCCCceEEEEEccCCCceeeeEEEEEeeCCceeeeccceeee
Confidence                                                                                       12689


Q ss_pred             cCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHH
Q psy210          649 IHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGND  728 (915)
Q Consensus       649 i~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e  728 (915)
                      +.. ||++.+|.++++||.||+|+||+|+|||||||++|||++|||||+|++||+++.   ++|++||++||||++|++|
T Consensus       194 vr~-p~p~~~R~~~~~PL~TG~RvID~lfPi~kGqr~~I~gg~G~GKT~l~~~lak~s---~aDviVyvg~GERG~Em~e  269 (591)
T TIGR01042       194 VRS-PRPVTEKLPANTPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSKYS---NSDAIVYVGCGERGNEMAE  269 (591)
T ss_pred             ccc-CCChhhccCCCCccccchhhhhhccchhcCCeEEEEcCCCcCHHHHHHHHHhcc---CcCEEEEEEEeechHHHHH
Confidence            987 889999999999999999999999999999999999999999999999999875   3689999999999999999


Q ss_pred             HHHHh---------hhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcC
Q psy210          729 FYHEM---------KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLG  799 (915)
Q Consensus       729 ~~~~~---------~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~g  799 (915)
                      |+++|         ++++.|+|||+|+||||+|+.+|++++|+|+|+||||||+|+|||+++||+||||+|+||||+++|
T Consensus       270 vle~fp~l~dp~~g~~~~~m~rtvlVa~tsd~p~~~R~~s~ytg~tiAEYfRD~G~~Vll~~DS~tR~AeAlREIsl~lg  349 (591)
T TIGR01042       270 VLMDFPELTMEVDGREESIMKRTTLVANTSNMPVAAREASIYTGITLAEYFRDMGYNVSMMADSTSRWAEALREISGRLA  349 (591)
T ss_pred             HHHHhHhhcccccccccccccceEEEEEcCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHhccC
Confidence            99997         445789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCCcchhhHHHHHHHHHhcCC-------CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCc
Q psy210          800 RTPSAVGYQPTLAEEMGKLQERISST-------KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYP  872 (915)
Q Consensus       800 e~p~~~gyp~~l~~~l~~l~ERag~~-------~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~P  872 (915)
                      |||+++|||+|||+.|++||||||+.       ++||||+|++|++|+||++|||++++++|+|+||+|||+||++||||
T Consensus       350 E~P~~eGYPayl~SrLa~l~ERAG~~~~~~~~~~~GSIT~i~aVs~~ggD~sePVt~~t~~i~~~f~~Ldr~LA~~ghyP  429 (591)
T TIGR01042       350 EMPADSGYPAYLGARLASFYERAGRVKCLGSPEREGSVSIVGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFP  429 (591)
T ss_pred             CCCCCCCcCccHHHHHHHHHHhccCCccCCCCCCCccEEEEEEEECCCCCCCCchHHHHHHHhcceeeeCHHHHhCCCCC
Confidence            99999999999999999999999974       37999999999999999999999999999999999999999999999


Q ss_pred             cccCCCCcccccCCCCC------CHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          873 AIDPLESYSKQLDPYIV------GEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       873 AIdv~~S~SR~~~~~~~------~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ||||+.|+||+|+ .+.      +++|.++++++|++|++|+|+++|++
T Consensus       430 AId~l~S~Sr~~~-~l~~~~~~~~~~~~~~~~~~~~lL~~~~el~eiv~  477 (591)
T TIGR01042       430 SVNWLISYSKYMR-ALEEFYEKFYPEFVPLRTKAKEILQEEEDLNEIVQ  477 (591)
T ss_pred             CcCCchhhhhhhh-hcccccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999994 555      79999999999999999999999863

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK04192 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=7.7e-86  Score=759.06  Aligned_cols=332  Identities=29%  Similarity=0.449  Sum_probs=310.2

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCC--------------CC--
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGE--------------IN--  642 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~--------------~~--  642 (915)
                      +.|| ..++++.+.+++|++|+||++|++|.+||+++++++|+++||||+|++|+|||+.+.              +.  
T Consensus        37 ~gEV-i~~~~d~a~iqv~e~T~Gl~~G~~V~~tg~plsv~lGpglLGrv~Dg~grPLd~~~~~~~~~i~rG~~~~~l~~~  115 (586)
T PRK04192         37 IGEI-IRIEGDKATIQVYEETSGIKPGEPVEFTGEPLSVELGPGLLGSIFDGIQRPLDELAEKSGDFLERGVYVPALDRE  115 (586)
T ss_pred             EEEE-EEEeCCceEEEEecCCcCCCCCCEEEeCCCccEEEcCHHhcCCeecCCCCcccccchhcccccccCCCCCCCCcc
Confidence            4455 589999999999999999999999999999999999999999999999999997641              11  


Q ss_pred             -------------------------------------------------------------------------CCCCCcc
Q psy210          643 -------------------------------------------------------------------------SKKKSPI  649 (915)
Q Consensus       643 -------------------------------------------------------------------------~~~~~pi  649 (915)
                                                                                               ..++||+
T Consensus       116 ~~w~f~p~~k~gd~v~~gdi~g~v~e~~~~~h~imvp~~~~g~~~~i~~~G~ytv~~~i~~~~~~~G~~~~~~~~~~wPv  195 (586)
T PRK04192        116 KKWEFTPTVKVGDKVEAGDILGTVQETPSIEHKIMVPPGVSGTVKEIVSEGDYTVDDTIAVLEDEDGEGVELTMMQKWPV  195 (586)
T ss_pred             cccceecccccCCEecCCceEEEEecCCceeeeeecCCCCceEEEEEccCCCceeeeEEEEEEccCCceeeecccccccc
Confidence                                                                                     1155899


Q ss_pred             CCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHH
Q psy210          650 HTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDF  729 (915)
Q Consensus       650 ~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~  729 (915)
                      +.++|. .+|.++++||.||||+||+|+||+||||++|||++|+|||+|+++|+++.   +.|++||++||||++|++||
T Consensus       196 r~~~p~-~~R~~~~~pL~TGirvID~l~Pi~kGq~~~Ipg~~G~GKTvl~~~iak~a---~adivVyvg~GERg~E~~e~  271 (586)
T PRK04192        196 RRPRPY-KEKLPPVEPLITGQRVIDTFFPVAKGGTAAIPGPFGSGKTVTQHQLAKWA---DADIVIYVGCGERGNEMTEV  271 (586)
T ss_pred             ccCCcc-cccCCCCCccccCchhhhcccccccCCeEEEecCCCCCHHHHHHHHHhcC---CCCEEEEEEcCcChHHHHHH
Confidence            988776 99999999999999999999999999999999999999999999999985   36899999999999999999


Q ss_pred             HHHhhh-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCC
Q psy210          730 YHEMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTP  802 (915)
Q Consensus       730 ~~~~~~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p  802 (915)
                      +++|.+       .++|+|||+|+||||+|+.+|++++|+|+|+||||||+|+|||+|+||+||||+|+||||+++||+|
T Consensus       272 l~ef~~l~dp~~g~~~m~RTvlVanTSn~Pv~aR~~s~ytgiTiAEYfRd~G~~Vllm~DStSR~AeAlREIS~~l~E~P  351 (586)
T PRK04192        272 LEEFPELIDPKTGRPLMERTVLIANTSNMPVAAREASIYTGITIAEYYRDMGYDVLLMADSTSRWAEALREISGRLEEMP  351 (586)
T ss_pred             HHHHHhhcccccccccceeEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecChHHHHHHHHHHHHhcCCCC
Confidence            999875       5689999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcchhhHHHHHHHHHhcCC-----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCC
Q psy210          803 SAVGYQPTLAEEMGKLQERISST-----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPL  877 (915)
Q Consensus       803 ~~~gyp~~l~~~l~~l~ERag~~-----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~  877 (915)
                      +++|||+|||++|++||||||+.     ++||||++++|++|+||++|||+++|++|+||||+|||+||++||||||||+
T Consensus       352 ~~eGYP~yL~S~La~~yERAG~v~~~~~~~GSIT~i~aVs~pggD~sePVt~~t~~i~dg~i~Ldr~LA~~ghyPAId~l  431 (586)
T PRK04192        352 GEEGYPAYLASRLAEFYERAGRVKTLGGEEGSVTIIGAVSPPGGDFSEPVTQNTLRIVKVFWALDAELADRRHFPAINWL  431 (586)
T ss_pred             ccCCcCccHHHHHHHHHHhhcccccCCCCCcceEEEEEEECCCCCCCcchHHHHHHHhCceEEEcHHHHhCCcCCccCCc
Confidence            99999999999999999999975     4799999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccCCC------CCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          878 ESYSKQLDPY------IVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       878 ~S~SR~~~~~------~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      .|+||+|+..      .++++|.+++++++++|++|+|+++|++
T Consensus       432 ~S~Sr~~~~~~~~~~~~v~~~~~~~~~~~~~~L~~~~el~eiv~  475 (586)
T PRK04192        432 TSYSLYLDQVAPWWEENVDPDWRELRDEAMDLLQREAELQEIVR  475 (586)
T ss_pred             cchhhhhhcccchhhcccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999642      2358999999999999999999999864

>PRK09099 type III secretion system ATPase; Provisional

Probab=100.00  E-value=2.1e-85  Score=744.80  Aligned_cols=331  Identities=30%  Similarity=0.511  Sum_probs=319.9

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      .|| ..|+++.+.+++|+++.||+.|++|..+|+++++|+|++|||||+|++|+|+|+.+++...+++|++..||+|++|
T Consensus        62 ~eV-v~~~~~~~~l~~~~~t~gi~~g~~V~~tg~~~~v~vg~~lLGrV~d~~G~piD~~~~~~~~~~~~i~~~~p~p~~R  140 (441)
T PRK09099         62 AEV-VGFSRDVALLSPFGELGGLSRGTRVIGLGRPLSVPVGPALLGRVIDGLGEPIDGGGPLDCDELVPVIAAPPDPMSR  140 (441)
T ss_pred             EEE-EEEECCEEEEEEccCCcCCCCCCEEEeCCCccEEEeccccccCEEcccCCccCCCCCCccccccccccCCCChhhc
Confidence            344 6899999999999999999999999999999999999999999999999999998887777788999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      ++++++++||+++||.++|+++|||++|||++|+|||+|+.+++++..   ++++||++||||++|+++|++.+.+.+.+
T Consensus       141 ~~i~e~l~TGi~~ID~l~~i~~Gq~~~I~G~sG~GKTtLl~~ia~~~~---~d~~vi~~iGer~~ev~ef~~~~~~~~~l  217 (441)
T PRK09099        141 RMVEAPLPTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGTQ---CDVNVIALIGERGREVREFIELILGEDGM  217 (441)
T ss_pred             CCcccccCCCceeccceeeecCCCEEEEECCCCCCHHHHHHHHhCCCC---CCeEEEEEEccChHHHHHHHHHHhhcCCc
Confidence            999999999999999999999999999999999999999999988653   57899999999999999999999999999


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                      +||++|++|||+||.+|++++|+|+++||||||+|||||+++||+||||+|+||||+++||||+++||||++|+.|++|+
T Consensus       218 ~rtvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTr~A~A~REisl~~gepP~~~gyP~~vf~~l~~l~  297 (441)
T PRK09099        218 ARSVVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREIGLAAGEPPARRGFPPSVFAELPRLL  297 (441)
T ss_pred             ceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCccHHHHhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHH
Q psy210          820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANE  899 (915)
Q Consensus       820 ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~  899 (915)
                      ||+|..++||||+||||++++||++|||+|++++||||||||||+||++||||||||+.|+||+| +.+++++|++++++
T Consensus       298 ERag~~~~GSIT~i~tVl~~~dd~~dpI~d~~~~i~DG~ivLsr~La~~g~yPAIDvl~S~SR~~-~~~~~~~~~~~a~~  376 (441)
T PRK09099        298 ERAGMGETGSITALYTVLAEDESGSDPIAEEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVM-PQVVPREHVQAAGR  376 (441)
T ss_pred             HhhcCCCCcchheeEEEEecCCCcCCcchhhhheecceEEEEcHHHHhCCCCCccCCccccCccc-hhcCCHHHHHHHHH
Confidence            99998889999999999999999999999999999999999999999999999999999999999 57899999999999


Q ss_pred             HHHHHHccHhhhhccC
Q psy210          900 VKFYLQKYKELKDTST  915 (915)
Q Consensus       900 ~r~~l~~~~e~~~~~~  915 (915)
                      +|++|++|+|+|++++
T Consensus       377 lr~~la~y~e~e~li~  392 (441)
T PRK09099        377 LRQLLAKHREVETLLQ  392 (441)
T ss_pred             HHHHHHhhHHHHHHHH
Confidence            9999999999999864

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.2e-85  Score=743.08  Aligned_cols=332  Identities=31%  Similarity=0.468  Sum_probs=319.1

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      .+.||+ .|+++.+.+++|+++.||+.|+.|+.+|+++++|+|++|||||+|++|+|+|+++++...+++|++..||+|+
T Consensus        65 ~~~eVv-~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGRV~d~~G~plD~~~~~~~~~~~~i~~~~~~p~  143 (451)
T PRK05688         65 VEAEVM-GFSGDKVFLMPVGSVAGIAPGARVVPLADTGRLPMGMSMLGRVLDGAGRALDGKGPMKAEDWVPMDGPTINPL  143 (451)
T ss_pred             eEEEEE-EEcCCEEEEEEccCccCCCCCCEEEECCCccEEEecccccCCEEeccCceecCCCCCCccceecccCCCCCHH
Confidence            345664 7999999999999999999999999999999999999999999999999999998887777789999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++++|||++||.++|+++|||++|||++|+|||+|+.+|++..   +++++|+++||+|++|+++|++.+.+.+
T Consensus       144 ~R~~i~~~l~TGi~aID~l~~I~~GqrigI~G~sG~GKSTLl~~I~g~~---~~dv~V~g~Ig~rg~ev~~~~~~~~~~~  220 (451)
T PRK05688        144 NRHPISEPLDVGIRSINGLLTVGRGQRLGLFAGTGVGKSVLLGMMTRFT---EADIIVVGLIGERGREVKEFIEHILGEE  220 (451)
T ss_pred             HcccccCCcccceeeecceEEecCCcEEEEECCCCCCHHHHHHHHhCCC---CCCEEEEEEeCcCcHhHHHHHHHHhhcC
Confidence            9999999999999999999999999999999999999999999888653   3578899999999999999999999999


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      .++|||+|++|||+||.+|++++++|+++||||||+|+|||++|||+||||+|+||||+++||||+++||||++|+.|++
T Consensus       221 ~l~rsvvv~atsd~~p~~r~~a~~~a~aiAEyfrd~G~~VLl~~DslTR~A~A~REisl~~gepP~~~GYp~svfs~l~~  300 (451)
T PRK05688        221 GLKRSVVVASPADDAPLMRLRAAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREIALAIGEPPATKGYPPSVFAKLPK  300 (451)
T ss_pred             CccEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEecchhHHHHHHHHHHHhcCCCCcccCCCchHHHHhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCC--CCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          818 LQERISSTK--NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       818 l~ERag~~~--~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      |+||+|+.+  +||||+||||++++||++|||+|++++||||||||||+||++||||||||+.|+||+| +.+++++|++
T Consensus       301 l~ERag~~~~~~GSITai~tVl~~gdD~~dpI~d~~~silDGhIvLsr~La~~g~yPAIDvl~S~SR~~-~~~~~~~~~~  379 (451)
T PRK05688        301 LVERAGNAEPGGGSITAFYTVLSEGDDQQDPIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVM-PQVVDPEHLR  379 (451)
T ss_pred             HHHHhcCCCCCCceeeEEEEEEecCCCCCCchHHHHHhhccEEEEEcHHHHhCCCCCccCCccccCccc-hhhCCHHHHH
Confidence            999999875  8999999999999999999999999999999999999999999999999999999999 5889999999


Q ss_pred             HHHHHHHHHHccHhhhhcc
Q psy210          896 VANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++++|++|++|+++|++.
T Consensus       380 ~a~~~r~~la~y~~~~dli  398 (451)
T PRK05688        380 RAQRFKQLWSRYQQSRDLI  398 (451)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999988874

>PRK06820 type III secretion system ATPase; Validated

Probab=100.00  E-value=5.8e-85  Score=739.97  Aligned_cols=329  Identities=29%  Similarity=0.465  Sum_probs=317.4

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      .+| ..|+++.+.+++|+++.||+.|++|+.+|+++++|+|+++||||+|++|+|+|+++++ ..+++|+++.+|+|++|
T Consensus        63 ~eV-v~~~~~~~~l~~~~~~~gi~~g~~v~~tg~~~~v~vg~~llGrv~d~~G~pld~~~~~-~~~~~~i~~~~p~p~~R  140 (440)
T PRK06820         63 AEV-VSIEQEMALLSPFASSDGLRCGQWVTPLGHMHQVQVGADLAGRILDGLGAPIDGGPPL-TGQWRELDCPPPSPLTR  140 (440)
T ss_pred             EEE-EEEeCCeEEEEEccCccCCCCCCEEEECCCCcEEEechhhcCCEECccCCccCCCCCC-CcccccccCCCCChhhc
Confidence            445 5899999999999999999999999999999999999999999999999999998766 45678999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      +++++++.|||++||.|+|+++|||++|||++|+|||+|+.+|+++.   +++++||++||||++|+++|++++...+.+
T Consensus       141 ~~~~~~l~TGi~aID~l~~i~~Gqri~I~G~sG~GKStLl~~I~~~~---~~dv~V~~~iGergrEv~ef~e~~l~~~~~  217 (440)
T PRK06820        141 QPIEQMLTTGIRAIDGILSCGEGQRIGIFAAAGVGKSTLLGMLCADS---AADVMVLALIGERGREVREFLEQVLTPEAR  217 (440)
T ss_pred             CCchhhccCCCceecceEEecCCCEEEEECCCCCChHHHHHHHhccC---CCCEEEEEEEccChHHHHHHHHHhhccCCc
Confidence            99999999999999999999999999999999999999999888754   468999999999999999999999999999


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                      +|+++|+++||+||.+|++++++|+++||||||+|+|||++|||+||||+|+||||+++||||+++||||++|+.|++|+
T Consensus       218 ~rtvvv~atsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REisl~~gepP~~~GYP~~vf~~l~~L~  297 (440)
T PRK06820        218 ARTVVVVATSDRPALERLKGLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREIGLAAGEPPAAGSFPPSVFANLPRLL  297 (440)
T ss_pred             eeEEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEccchhHHHHHHHHHHHhcCCCCccccCCccHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHH
Q psy210          820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANE  899 (915)
Q Consensus       820 ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~  899 (915)
                      ||+|+.++||||+||||++|+||++|||+|++++|+||||+|||+||++||||||||+.|+||+| +.+++++|++.+++
T Consensus       298 ERag~~~~GSIT~i~tVl~~gdD~~dpI~d~~~~ilDg~ivLsr~La~~g~yPAIDvl~S~SR~~-~~~~~~~~~~~a~~  376 (440)
T PRK06820        298 ERTGNSDRGSITAFYTVLVEGDDMNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIM-PQIVSAGQLAMAQK  376 (440)
T ss_pred             HhhccCCCcceeEEEEEEccCCCCCCcchhhhccccceEEEECHHHHhCCCCCccCCcccccccc-hhhCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999 58899999999999


Q ss_pred             HHHHHHccHhhhhcc
Q psy210          900 VKFYLQKYKELKDTS  914 (915)
Q Consensus       900 ~r~~l~~~~e~~~~~  914 (915)
                      +|++|++|+|+|+|+
T Consensus       377 ~r~~l~~y~e~~~li  391 (440)
T PRK06820        377 LRRMLACYQEIELLV  391 (440)
T ss_pred             HHHHHHhhhHHHHHH
Confidence            999999999999985

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=100.00  E-value=6.5e-85  Score=698.35  Aligned_cols=273  Identities=73%  Similarity=1.140  Sum_probs=266.9

Q ss_pred             cccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCC
Q psy210          614 PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGV  693 (915)
Q Consensus       614 ~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~  693 (915)
                      ++++|||+++||||+|++|+|+|+++++...++||+++.+|++++|.+++++|+||||+||+|+|||||||++|||++|+
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            46899999999999999999999998877778899999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC
Q psy210          694 GKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS  773 (915)
Q Consensus       694 GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~  773 (915)
                      |||+|++++++++++++.++|||++||||++||+||+++++++++++||++|++|+|+||.+|++++|+|+++||||||+
T Consensus        81 GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~  160 (274)
T cd01133          81 GKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDE  160 (274)
T ss_pred             ChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999998888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             -CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccc
Q psy210          774 -GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTF  852 (915)
Q Consensus       774 -g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~  852 (915)
                       |+|||+++||+||||+|+||||+++||+|+++||||++|++|++|+||+|+.++||||+|+||++++||++|||+|+++
T Consensus       161 ~g~~Vl~~~Dsltr~a~A~reis~~~ge~p~~~gyp~~~f~~~~~l~ERag~~~~GSiT~~~~v~~~~dD~~dpi~~~~~  240 (274)
T cd01133         161 EGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGALQERITSTKKGSITSVQAVYVPADDLTDPAPATTF  240 (274)
T ss_pred             cCCeEEEEEeChhHHHHHHHHHHHHcCCCCCCcCcCccHHHHHHHHHHHhcCCCCcccceEEEEEecCCCCCCchHHHHH
Confidence             9999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCcEEEeeHHHHhcCCCccccCCCCcccccCC
Q psy210          853 THLDSTIVLSRQIAELGIYPAIDPLESYSKQLDP  886 (915)
Q Consensus       853 ~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~  886 (915)
                      +||||||+|||+||++||||||||++|+||+|++
T Consensus       241 ~i~dg~ivLsr~la~~g~~PAId~~~S~SR~~~~  274 (274)
T cd01133         241 AHLDATTVLSRAIAELGIYPAVDPLDSTSRILDP  274 (274)
T ss_pred             HhcceEEEEcHHHHhCCCCCCcCCccchhcccCc
Confidence            9999999999999999999999999999999963

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=3.2e-84  Score=737.96  Aligned_cols=393  Identities=28%  Similarity=0.415  Sum_probs=373.0

Q ss_pred             hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceee
Q psy210          131 PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFI  210 (915)
Q Consensus       131 p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~Pi  210 (915)
                      ...+++.+++....+....|+|.+.++  +.    +.+++|+.+.+++.|++|.+||+++++|+|+++||||+|++|+||
T Consensus        23 ~~~~ge~~~i~~~~~~~~~~eVi~~~~--~~----~~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrViD~~G~pl   96 (422)
T TIGR02546        23 GARVGELCLIRRRDPSQLLAEVVGFTG--DE----ALLSPLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPL   96 (422)
T ss_pred             CCCCCCEEEEeeCCCCeEEEEEEEEcC--Cc----EEEEEccCccCCCCCCEEEECCCCceEEeChhhccCEeCCCCCcc
Confidence            466889988863334447899999998  43    378899999999999999999999999999999999999999999


Q ss_pred             cCCCcccccc--cccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEE
Q psy210          211 DNKKKFLIKN--RETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC  288 (915)
Q Consensus       211 D~~~~~~~~~--~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~  288 (915)
                      |+++++....  ++|++.+||||++|.++++||.||++++|.++|+++|||++|+|++|+|||+| +++|+++...+. +
T Consensus        97 D~~~~~~~~~~~~~pi~~~~~~~~~R~~i~~~l~tG~~~id~l~~i~~Gq~~~I~G~sG~GKStL-l~~I~~~~~~~~-~  174 (422)
T TIGR02546        97 DGKGELPAGEIETRPLDADPPPPMSRQPIDQPLPTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTL-LGMIARGASADV-N  174 (422)
T ss_pred             cCCCCCCCCCceeeeccCCCcCHHHccCcccccCCCceeehhhccccCCCEEEEECCCCCChHHH-HHHHhCCCCCCE-E
Confidence            9998776653  68999999999999999999999999999999999999999999999999999 899999988886 8


Q ss_pred             EEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHH
Q psy210          289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI  368 (915)
Q Consensus       289 V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~rei  368 (915)
                      +|++||+|++|+.+|++.+...+.++++++|++++++|+.+|++++++|+++|||||++|+|||+++||+||||+|+|||
T Consensus       175 vi~~iG~~~~ev~~~~~~~~~~~~~~~tvvv~~~s~~p~~~r~~~~~~a~~~AE~f~~~g~~Vl~~~Dsltr~a~A~rei  254 (422)
T TIGR02546       175 VIALIGERGREVREFIEHHLGEEGRKRSVLVVSTSDRPSLERLKAAYTATAIAEYFRDQGKRVLLMMDSLTRFARALREI  254 (422)
T ss_pred             EEEEEccCCcCHHHHHHHHhccccccceEEEeccccCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCchHHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEe
Q psy210          369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFL  448 (915)
Q Consensus       369 s~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~L  448 (915)
                      |+++||||+++||||++|+.||+|+||||+.             ++||||+||+|++++||++|||||+++||+||||+|
T Consensus       255 ~l~~ge~P~~~gyp~~~f~~l~~l~ERag~~-------------~~GSIT~~~tv~~~~dd~~~pi~~~~~~i~dg~i~L  321 (422)
T TIGR02546       255 GLAAGEPPARGGYPPSVFSSLPRLLERAGNG-------------EKGSITALYTVLVEGDDMNDPIADEVRSILDGHIVL  321 (422)
T ss_pred             HHhcCCCCcccccChhHHHHhHHHHHHhcCC-------------CCCceeEEEEEeccCCCCCCCchhhhhccccEEEEE
Confidence            9999999999999999999999999999973             179999999999999999999999999999999999


Q ss_pred             ehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHhHHHHHHHhh
Q psy210          449 DTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYNGEKISLLMK  525 (915)
Q Consensus       449 sr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~~~~i~~fL~  525 (915)
                      ||+||++||||||||+.|+||+++.++.++|++++.++|+.|++|+|+++++++|.   ++|++.|+++.+++++++||+
T Consensus       322 sr~la~~g~yPAId~~~S~SR~~~~~~~~~~~~~a~~~~~~l~~y~e~~~li~~g~y~~g~d~~~d~~i~~~~~i~~fl~  401 (422)
T TIGR02546       322 SRALAERNHYPAIDVLASLSRVMSQVVSTEHRRAAGKLRRLLATYKEVELLIRLGEYQPGSDPETDDAIDKIDAIRAFLR  401 (422)
T ss_pred             cHHHHhCCCCCccCCccccccchhhhCCHHHHHHHHHHHHHHHhhHHHHHHHHhcCCcCCCCHHHHHHHHhHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999985   999999999999999999999


Q ss_pred             cCCCCCccHHHHHHHHHHH
Q psy210          526 QKPHENYSIVELIIILLII  544 (915)
Q Consensus       526 Q~~~e~~s~ee~l~~L~ai  544 (915)
                      |+.++++++++++..||.+
T Consensus       402 Q~~~~~~~~~~~~~~l~~~  420 (422)
T TIGR02546       402 QSTDEYSPYEETLEQLHAL  420 (422)
T ss_pred             CCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999965

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=5.2e-84  Score=730.63  Aligned_cols=395  Identities=23%  Similarity=0.312  Sum_probs=366.8

Q ss_pred             hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceee
Q psy210          131 PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFI  210 (915)
Q Consensus       131 p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~Pi  210 (915)
                      ...+++.+++....+. ..|||.|+++  +    .+.+++++.+.+++.|++|.. ++++.+++++++||||+|++|+||
T Consensus        46 ~~~iGe~~~i~~~~~~-~~~eVv~~~~--~----~~~l~~~~~~~gi~~g~~v~~-~~~~~v~vg~~llGRV~d~~G~pi  117 (450)
T PRK06002         46 FVRLGDFVAIRADGGT-HLGEVVRVDP--D----GVTVKPFEPRIEIGLGDAVFR-KGPLRIRPDPSWKGRVINALGEPI  117 (450)
T ss_pred             CCCCCCEEEEECCCCc-EEEEEEEEeC--C----eEEEEEccCCcCCCCCCEEEe-CCCceeecCcccccCEECCCCcCC
Confidence            3678999999543444 7789999998  3    347889999999999999999 668999999999999999999999


Q ss_pred             cCCCcccccc-cccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEE
Q psy210          211 DNKKKFLIKN-RETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICI  289 (915)
Q Consensus       211 D~~~~~~~~~-~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V  289 (915)
                      |+++++.... +++++.++|++++|..+++++.||+++||.|+||++|||++|||++|+|||+| +.+|+.....+. ++
T Consensus       118 Dg~~~~~~~~~~~~i~~~~p~~~~r~~v~~~l~TGi~aID~L~~I~~Gqri~I~G~SGsGKTTL-L~~Ia~l~~pd~-gv  195 (450)
T PRK06002        118 DGLGPLAPGTRPMSIDATAPPAMTRARVETGLRTGVRVIDIFTPLCAGQRIGIFAGSGVGKSTL-LAMLARADAFDT-VV  195 (450)
T ss_pred             CCCCCCCCCcceeeccCCCCCCeEeecceEEcCCCcEEeeeeceecCCcEEEEECCCCCCHHHH-HHHHhCCCCCCe-ee
Confidence            9988776654 57999999999999999999999999999999999999999999999999999 788887776665 68


Q ss_pred             EEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHH
Q psy210          290 YVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQIS  369 (915)
Q Consensus       290 ~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis  369 (915)
                      |+++|||++|+.+|.+..... .+++++.|++++|+||.+|+++||+|+|+||||||+|+|||+++|||||||+|+||||
T Consensus       196 v~liGergrev~e~~~~~l~~-~r~rtI~vV~qsd~~~~~r~~~~~~a~~iAEyfrd~G~~Vll~~DslTr~A~A~rEis  274 (450)
T PRK06002        196 IALVGERGREVREFLEDTLAD-NLKKAVAVVATSDESPMMRRLAPLTATAIAEYFRDRGENVLLIVDSVTRFAHAAREVA  274 (450)
T ss_pred             eeecccCCccHHHHhHHHHHH-hhCCeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchHHHHHHHHHHH
Confidence            999999999999999865543 3789999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEee
Q psy210          370 LLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLD  449 (915)
Q Consensus       370 ~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Ls  449 (915)
                      +++||||+++||||++|+.||+|+||||+...           ++||||+||+|++|+||++|||||++++|+|||||||
T Consensus       275 l~~ge~P~~~gyp~~vf~~l~~l~ERag~~~~-----------~~GSIT~~~tvl~~~dd~~dpI~d~~~~i~Dg~ivLs  343 (450)
T PRK06002        275 LAAGEPPVARGYPPSVFSELPRLLERAGPGAE-----------GGGSITGIFSVLVDGDDHNDPVADSIRGTLDGHIVLD  343 (450)
T ss_pred             HhcCCCCccccCCccHHHHhhHHHHHhccCCC-----------CCeeeeEEEEEEecCCCCCCccHHHHHhhcceEEEEc
Confidence            99999999999999999999999999998521           2799999999999999999999999999999999999


Q ss_pred             hhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHHhHHHHHHHhhc
Q psy210          450 TNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLYNGEKISLLMKQ  526 (915)
Q Consensus       450 r~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~~~~~i~~fL~Q  526 (915)
                      |+||++||||||||+.|+||+|+.++.++|++++.++|+.|++|+|+++|+++|   .+.|++.|++++++++|++||+|
T Consensus       344 r~la~~g~~PAIDv~~S~SR~~~~~~~~~~~~~a~~~r~~la~y~e~e~li~ig~y~~G~d~~~D~ai~~~~~i~~fL~Q  423 (450)
T PRK06002        344 RAIAEQGRYPAVDPLASISRLARHAWTPEQRKLVSRLKSMIARFEETRDLRLIGGYRAGSDPDLDQAVDLVPRIYEALRQ  423 (450)
T ss_pred             HHHHhCCCCCccCCccccCcccccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCChHHHHHHHhHHHHHHHhCC
Confidence            999999999999999999999999999999999999999999999999999998   48999999999999999999999


Q ss_pred             CCCCCccHHHHHHHHHHHhccc
Q psy210          527 KPHENYSIVELIIILLIIKNRF  548 (915)
Q Consensus       527 ~~~e~~s~ee~l~~L~ai~~G~  548 (915)
                      +..|+.+ ++++..|..+..|.
T Consensus       424 ~~~~~~~-~~~~~~l~~~~~~~  444 (450)
T PRK06002        424 SPGDPPS-DDAFADLAAALKGA  444 (450)
T ss_pred             CCCCCCC-HHHHHHHHHHHhhH
Confidence            9999999 99999999765554

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=100.00  E-value=1.2e-84  Score=736.27  Aligned_cols=329  Identities=33%  Similarity=0.525  Sum_probs=313.9

Q ss_pred             hhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCC-CCCccCCCCCCccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSK-KKSPIHTLPPKFSNQI  660 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~-~~~pi~~~~p~~~~r~  660 (915)
                      .+..|+++.+++++|+++.||+.|+.|+.+++++++|+|+++||||+|++|+|+|+++++... .++|++..||++++|.
T Consensus        39 eVv~~~~~~v~l~~~~~~~gi~~G~~V~~tg~~~~i~vg~~lLGRViD~lG~plD~~~~~~~~~~~~~i~~~~p~~~~R~  118 (418)
T TIGR03498        39 EVVGFNGDRVLLMPFEPLEGVGLGCAVFAREGPLAVRPHPSWLGRVINALGEPIDGKGPLPQGERRYPLRASPPPAMSRA  118 (418)
T ss_pred             EEEEEcCCeEEEEEccCCcCCCCCCEEEECCCccEEEeChhhcCCEECCCCCccCCCCCCCCCcceechhhcCCChhhcc
Confidence            345799999999999999999999999999999999999999999999999999998776554 4589999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccc
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD  740 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~  740 (915)
                      +++++++||+++||+++|+++|||++|||++|+|||+|+.+|+++..   ++..+|+++|||++|++||+++..+++.|+
T Consensus       119 ~i~~~l~tGi~aiD~~~~i~~Gq~i~I~G~sG~GKTtLl~~I~~~~~---~~~gvi~~iGer~~ev~~~~~~~l~~~~~~  195 (418)
T TIGR03498       119 RVGEPLDTGVRVIDTFLPLCRGQRLGIFAGSGVGKSTLLSMLARNTD---ADVVVIALVGERGREVREFLEDDLGEEGLK  195 (418)
T ss_pred             CcccccCCccEEEeeeccccCCcEEEEECCCCCChHHHHHHHhCCCC---CCEEEEEEEeeechHHHHHHHHhhhccccc
Confidence            99999999999999999999999999999999999999998887643   578899999999999999999866666799


Q ss_pred             cEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHH
Q psy210          741 KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE  820 (915)
Q Consensus       741 ~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~E  820 (915)
                      |||+|++|||+||.+|+++||+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+|
T Consensus       196 ~tvvv~atsd~~~~~r~~a~~~a~~iAEyfrd~G~~Vll~~DslTr~A~A~REisl~~gepP~~~gyp~~vf~~l~~L~E  275 (418)
T TIGR03498       196 RSVVVVATSDESPLMRRQAAYTATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPVARGYTPSVFSELPRLLE  275 (418)
T ss_pred             eeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCccccCCchhhhhhhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHH
Q psy210          821 RISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVAN  898 (915)
Q Consensus       821 Rag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~  898 (915)
                      |+|+.  ++||||+||||++|+||++|||+|++++||||||||||+||++||||||||++|+||+| +.+++++|+++++
T Consensus       276 Rag~~~~~~GSIT~~~tVl~~gdd~~dpi~d~~~si~DG~ivLsr~la~~g~~PAIDv~~S~SR~~-~~~~~~~~~~~a~  354 (418)
T TIGR03498       276 RAGPGAEGKGSITGIFTVLVDGDDHNEPVADAVRGILDGHIVLDRAIAERGRYPAINVLASVSRLA-PRVWSPEERKLVR  354 (418)
T ss_pred             HhccCCCCCcceeeeEEEeccCCCCCCcchhhhheeeeeEEEECHHHHhCCCCCccCCcccccccc-hhhcCHHHHHHHH
Confidence            99964  58999999999999999999999999999999999999999999999999999999999 5889999999999


Q ss_pred             HHHHHHHccHhhhhcc
Q psy210          899 EVKFYLQKYKELKDTS  914 (915)
Q Consensus       899 ~~r~~l~~~~e~~~~~  914 (915)
                      ++|++|++|+|+|++.
T Consensus       355 ~~r~~l~~y~e~~~~~  370 (418)
T TIGR03498       355 RLRALLARYEETEDLI  370 (418)
T ss_pred             HHHHHHHhhHHHHHHH
Confidence            9999999999999986

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.

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=100.00  E-value=2.4e-84  Score=734.18  Aligned_cols=331  Identities=32%  Similarity=0.533  Sum_probs=318.8

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~  658 (915)
                      ..+| ..++++.+++++|+++.||+.|+.|+.+|+++++|+|+++||||+|++|+|||+.+++...++||+++.+|++++
T Consensus        35 ~~eV-v~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGrVid~~G~pld~~~~~~~~~~~~i~~~~~~~~~  113 (411)
T TIGR03496        35 EAEV-VGFRGDRVLLMPLEDVEGLRPGARVFPLEGPLRLPVGDSLLGRVIDGLGRPLDGKGPLDAGERVPLYAPPINPLK  113 (411)
T ss_pred             EEEE-EEecCCEEEEEEccCccCCCCCCEEEECCCccEEEcchhhcCCEECCCCCCcCCCCCCCcccccccccCCCCHHh
Confidence            3455 578999999999999999999999999999999999999999999999999999988777788999999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      |..+++++.||+++||.++|+++|||++|||++|+|||+|+.+|+++..   +++.+|++||||++|+.+|++++.+.++
T Consensus       114 R~~~~~~~~tGi~~id~l~~i~~Gq~~~I~G~sG~GKTtLl~~I~~~~~---~~~~vi~~iGer~~ev~e~~~~~~~~~~  190 (411)
T TIGR03496       114 RAPIDEPLDVGVRAINGLLTVGRGQRMGIFAGSGVGKSTLLGMMARYTE---ADVVVVGLIGERGREVKEFIEDILGEEG  190 (411)
T ss_pred             ccCcceEeeeeEEeecceEEEecCcEEEEECCCCCCHHHHHHHHhcCCC---CCEEEEEEEecChHHHHHHHHHHhhCCC
Confidence            9999999999999999999999999999999999999999998887543   5788899999999999999999999999


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      |+||++|++|||+||.+|+++||+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       191 ~~~tvvv~~tsd~~~~~r~~a~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~REisl~~ge~P~~~gyp~~~f~~l~~l  270 (411)
T TIGR03496       191 LARSVVVAATADESPLMRLRAAFYATAIAEYFRDQGKDVLLLMDSLTRFAMAQREIALAIGEPPATKGYPPSVFAKLPQL  270 (411)
T ss_pred             cceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHHhcCCCCCccCcCHHHHHHhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHH
Q psy210          819 QERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKV  896 (915)
Q Consensus       819 ~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~  896 (915)
                      +||+|+.  ++||||+||||++|+||++|||+|++++||||||+|||+||++||||||||+.|+||+| +.+++++|+++
T Consensus       271 ~ERag~~~~~~GSIT~~~tv~~~~dd~~dpi~~~~~~i~dg~ivLsr~la~~g~~PAId~~~S~SR~~-~~~~~~~~~~~  349 (411)
T TIGR03496       271 VERAGNGEEGKGSITAFYTVLVEGDDQQDPIADAARAILDGHIVLSRELAEQGHYPAIDILASISRVM-PDVVSPEHRQA  349 (411)
T ss_pred             HHHhcccCCCCcceeEEEEEEccCCCCCCcchhhhcccccEEEEEchhHHhCCCCCccCCCcccccch-hhhCCHHHHHH
Confidence            9999984  68999999999999999999999999999999999999999999999999999999999 57899999999


Q ss_pred             HHHHHHHHHccHhhhhcc
Q psy210          897 ANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       897 ~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++|++|++|+|+|+++
T Consensus       350 a~~~r~~l~~y~e~~~l~  367 (411)
T TIGR03496       350 ARRFKQLLSRYQENRDLI  367 (411)
T ss_pred             HHHHHHHHHHhHHHHHHH
Confidence            999999999999999986

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=1.6e-84  Score=693.06  Aligned_cols=270  Identities=30%  Similarity=0.479  Sum_probs=259.9

Q ss_pred             cccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCC
Q psy210          614 PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGV  693 (915)
Q Consensus       614 ~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~  693 (915)
                      +++||||+++||||+|++|+|+|+++++...+++|++.++|++++|.+++|+|+||||+||+|+|||||||+||||++|+
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            46899999999999999999999988876677889999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHH---hcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHH
Q psy210          694 GKTVNMMELIRNIA---IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEF  770 (915)
Q Consensus       694 GKt~Ll~~i~~~~~---~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f  770 (915)
                      |||+|+.||+++..   +.+.++|||++||||+||+.||+++++++++|+||++|++|+|+||.+|++++|+|+++||||
T Consensus        81 GKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiAEyf  160 (276)
T cd01135          81 PHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTAEYL  160 (276)
T ss_pred             ChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHHHHHHHHHHHH
Confidence            99999999998754   223589999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC--CCCceeEEEEEEecCCCCCCCc
Q psy210          771 RNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST--KNGTITSVQAIYVPADDLTDPS  847 (915)
Q Consensus       771 ~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi  847 (915)
                      ||+ |+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+||+|+.  ++||||+||||++++||++|||
T Consensus       161 rd~~g~~VLl~~D~ltr~A~A~rEisl~~gepP~~~gyp~~vf~~~~~l~ERag~~~~~~GSITa~~~V~~~~dD~~dpi  240 (276)
T cd01135         161 AYEKGKHVLVILTDMTNYAEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPI  240 (276)
T ss_pred             HhccCCeEEEEEcChhHHHHHHHHHHhccCCCCCccCcCccHHHHhhHHheecccCCCCCeeEEEEEEEEccCCCcCcch
Confidence            998 9999999999999999999999999999999999999999999999999986  4799999999999999999999


Q ss_pred             ccccccccCcEEEeeHHHHhcCCCccccCCCCcccc
Q psy210          848 PSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ  883 (915)
Q Consensus       848 ~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~  883 (915)
                      +|++++||||||+|||+||++||||||||+.|+||+
T Consensus       241 ~~~~~si~DG~ivLsr~la~~g~~PAID~l~S~SR~  276 (276)
T cd01135         241 PDLTGYITEGQIVLDRQLHNRGIYPPINVLPSLSRL  276 (276)
T ss_pred             HHHHHhhcceEEEEcHHHHhCCCCCCcCCcccccCC
Confidence            999999999999999999999999999999999995

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.

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=100.00  E-value=4.1e-84  Score=731.74  Aligned_cols=328  Identities=28%  Similarity=0.439  Sum_probs=316.0

Q ss_pred             hhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIF  661 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~  661 (915)
                      .+..|+++.+.+++|+++.||+.|++|..+|+++++|+|+++||||+|++|+|||++++. ...++|++..+|++++|..
T Consensus        56 eVv~~~~~~~~l~~~~~~~gi~~g~~V~~tg~~~~v~vg~~llGrVid~~G~pld~~~~~-~~~~~~i~~~~p~~~~r~~  134 (433)
T PRK07594         56 EVVGINGSKALLSPFTSTIGLHCGQQVMALRRRHQVPVGEALLGRVIDGFGRPLDGRELP-DVCWKDYDAMPPPAMVRQP  134 (433)
T ss_pred             EEEEEcCCeEEEEEccCCcCCCCCCEEEeCCCccEEEeChhhccCEEcccCCCcCCCCCC-cccccccccCCCCceeccC
Confidence            346899999999999999999999999999999999999999999999999999998764 4466799999999999999


Q ss_pred             ccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcccc
Q psy210          662 NNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDK  741 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~  741 (915)
                      +++++.||+++||.++|+++|||++|||++|+|||+|+.+|+++.   +++.+||++||||++|+++|++.+.+.+.++|
T Consensus       135 v~~~l~tGi~aID~ll~i~~GqrigI~G~sG~GKSTLL~~I~~~~---~~d~~vi~~iGeRgrEv~efl~~~~~~~~~~r  211 (433)
T PRK07594        135 ITQPLMTGIRAIDSVATCGEGQRVGIFSAPGVGKSTLLAMLCNAP---DADSNVLVLIGERGREVREFIDFTLSEETRKR  211 (433)
T ss_pred             HhheeCCCceeeeeeeecCCCCEEEEECCCCCCccHHHHHhcCCC---CCCEEEEEEECCCchHHHHHHHHhhccCCcce
Confidence            999999999999999999999999999999999999999888754   36789999999999999999999988999999


Q ss_pred             EEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHH
Q psy210          742 VSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER  821 (915)
Q Consensus       742 ~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ER  821 (915)
                      +++|++|+|+|+.+|++++|+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+||
T Consensus       212 tv~vv~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~VLl~~Dsltr~A~A~REisl~~ge~P~~~Gyp~svf~~l~~l~ER  291 (433)
T PRK07594        212 CVIVVATSDRPALERVRALFVATTIAEFFRDNGKRVVLLADSLTRYARAAREIALAAGETAVSGEYPPGVFSALPRLLER  291 (433)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCHHHHHHHHHHHHHhcCCCCCCCCcCchhHHHhHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHH
Q psy210          822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVK  901 (915)
Q Consensus       822 ag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r  901 (915)
                      ||+.++||||+||||++|+||++|||+|++++||||||||||+||++||||||||+.|+||+| +.+++++|+++++++|
T Consensus       292 ag~~~~GSIT~~~tVl~~gdD~~dpi~d~~~~ilDG~IvLsr~la~~g~yPAIDvl~S~SR~~-~~~~~~~h~~~a~~~r  370 (433)
T PRK07594        292 TGMGEKGSITAFYTVLVEGDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVF-PVVTSHEHRQLAAILR  370 (433)
T ss_pred             hcCCCCcchheeeeeeecCCCCCCchHHHhhhhcceEEEEcHHHHhCCCCCccCCcccccccc-hhhCCHHHHHHHHHHH
Confidence            998889999999999999999999999999999999999999999999999999999999999 5899999999999999


Q ss_pred             HHHHccHhhhhcc
Q psy210          902 FYLQKYKELKDTS  914 (915)
Q Consensus       902 ~~l~~~~e~~~~~  914 (915)
                      ++|++|+|+|+|.
T Consensus       371 ~~la~y~e~e~li  383 (433)
T PRK07594        371 RCLALYQEVELLI  383 (433)
T ss_pred             HHHHcchHHHHHH
Confidence            9999999999986

>TIGR03497 FliI_clade2 flagellar protein export ATPase FliI

Probab=100.00  E-value=6.1e-84  Score=731.33  Aligned_cols=332  Identities=36%  Similarity=0.567  Sum_probs=317.4

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...|| ..+.++.+++++|+++.||+.|+.|..+|+++++|+|+++||||+|++|+|+|+.+++...++||++..+|+++
T Consensus        34 ~~~eV-i~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~vpvg~~lLGRVid~~G~plD~~~~~~~~~~~~i~~~~p~~~  112 (413)
T TIGR03497        34 VLAEV-VGFKEENVLLMPLGEVEGIGPGSLVIATGRPLAIKVGKGLLGRVLDGLGRPLDGEGPIIGEEPYPLDNPPPNPL  112 (413)
T ss_pred             EEEEE-EEEcCCeEEEEEccCccCCCCCCEEEEcCCeeEEEcchhhcCCEEcCCCCcccCCCCCCCCccccccCCCcChH
Confidence            34555 57889999999999999999999999999999999999999999999999999988877777899999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|..+++++.||+++||.++|+++|||++|||++|+|||+|+.+|+++.   ++++.++++||||++|++||+++..++.
T Consensus       113 ~R~~~~~~~~tGi~~iD~l~~i~~Gqri~I~G~sG~GKTtLl~~i~~~~---~~~~gvi~~~Ger~~ev~e~~~~~l~~~  189 (413)
T TIGR03497       113 KRPRIRDPLETGIKAIDGLLTIGKGQRVGIFAGSGVGKSTLLGMIARNA---KADINVIALIGERGREVRDFIEKDLGEE  189 (413)
T ss_pred             HccchhhhccccceeeeeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC---CCCeEEEEEEccchHHHHHHHHHHhccc
Confidence            9999999999999999999999999999999999999999999888754   3578899999999999999999866555


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      .++||++|++|||+||.+|++++++|+|+||||||+|+||||++||+||||+|+||||+++||||+++||||++|+.|++
T Consensus       190 ~~~~~v~v~~tsd~~~~~r~~~~~~a~tiAEyfr~~G~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~gyp~~~f~~l~~  269 (413)
T TIGR03497       190 GLKRSVVVVATSDQPALMRLKAAFTATAIAEYFRDQGKDVLLMMDSVTRFAMAQREIGLAVGEPPTTRGYTPSVFSLLPK  269 (413)
T ss_pred             ccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEcCcHHHHHHHHHHHHhcCCCCCCCCcCchHHHHhHH
Confidence            69999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHH
Q psy210          818 LQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVA  897 (915)
Q Consensus       818 l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~  897 (915)
                      |+||+|+.++||||+||||++|+||++|||+|++++|+||||+|||+||++||||||||+.|+||+| +.+++++|++++
T Consensus       270 l~ERag~~~~GSIT~~~tVl~~gdD~~dpi~~~~~si~dg~ivLsr~la~~g~~PAId~~~S~SR~~-~~~~~~~~~~~a  348 (413)
T TIGR03497       270 LLERSGNSQKGSITGFYTVLVDGDDMNEPIADAVRGILDGHIVLSRELAAKNHYPAIDVLASVSRVM-NEIVSEEHKELA  348 (413)
T ss_pred             HHHHhcCCCCcceeEEEEEEccCCCCCCcchhhccccccEEEEECHHHHhCCCCCccCCccccccCc-cccCCHHHHHHH
Confidence            9999999889999999999999999999999999999999999999999999999999999999999 578999999999


Q ss_pred             HHHHHHHHccHhhhhcc
Q psy210          898 NEVKFYLQKYKELKDTS  914 (915)
Q Consensus       898 ~~~r~~l~~~~e~~~~~  914 (915)
                      +++|++|++|+|+++++
T Consensus       349 ~~~r~~l~~y~e~~~li  365 (413)
T TIGR03497       349 GKLRELLAVYKEAEDLI  365 (413)
T ss_pred             HHHHHHHHhhHHHHHHH
Confidence            99999999999999986

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.

>PRK07960 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=8.4e-84  Score=727.36  Aligned_cols=331  Identities=28%  Similarity=0.447  Sum_probs=318.5

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeC-------CCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCC
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDT-------GKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHT  651 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~t-------g~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~  651 (915)
                      ..|| ..|+++.+.+++|+++.||+.|+.|+++       |+++++|||+++||||+|++|+|+|+++++...+++|++.
T Consensus        66 ~~eV-vg~~~~~~~l~~~~~~~gi~~g~~v~~~~~~~~~~~~~~~v~vg~~llGRvid~~G~piDg~~~~~~~~~~~i~~  144 (455)
T PRK07960         66 ESEV-VGFNGQRLFLMPLEEVEGILPGARVYARNISGEGLQSGKQLPLGPALLGRVLDGSGKPLDGLPAPDTGETGALIT  144 (455)
T ss_pred             eeeE-EEecCCEEEEEECCCccCCCCCCEEEECCcccccCCCceEEECCcccccCEECCCccccCCCCCCCCCccccccC
Confidence            3456 4899999999999999999999999999       9999999999999999999999999998877667789999


Q ss_pred             CCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHH
Q psy210          652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYH  731 (915)
Q Consensus       652 ~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~  731 (915)
                      .||+|++|.+++++++||||+||+|+|+++|||++|||++|+|||+|+.+|+++.   +++++|+++||||++|+.+|++
T Consensus       145 ~~~~p~~R~~i~e~l~TGiraID~ll~I~~Gqri~I~G~sG~GKTTLL~~Ia~~~---~~d~iv~g~Igerg~ev~e~~~  221 (455)
T PRK07960        145 PPFNPLQRTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYT---QADVIVVGLIGERGREVKDFIE  221 (455)
T ss_pred             CCcChHHhcccccchhccceeeeecccccCCcEEEEECCCCCCccHHHHHHhCCC---CCCEEEEEEEEECCeEHHHHHH
Confidence            9999999999999999999999999999999999999999999999999988754   3578899999999999999999


Q ss_pred             HhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchh
Q psy210          732 EMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTL  811 (915)
Q Consensus       732 ~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l  811 (915)
                      ++.+.+.+++++||++++|+||.+|++++++|+++||||||+|+|||+++||+||||+|+||||+++||+|+++||||++
T Consensus       222 ~~~~~~~~~~tvVv~~~ad~~~~~r~~~~~~a~tiAEyfrd~G~~Vll~~DslTr~A~A~rEisl~~ge~P~~~gypp~~  301 (455)
T PRK07960        222 NILGAEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSV  301 (455)
T ss_pred             hhcCcCCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEEecchhHHHHHHHHHHHhcCCCCccccCCcch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCC
Q psy210          812 AEEMGKLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIV  889 (915)
Q Consensus       812 ~~~l~~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~  889 (915)
                      |+.|++|+||+|+.  ++||||+||||++|+||++|||+|++++|+||||||||+||++||||||||+.|+||+|+ .++
T Consensus       302 f~~l~~l~ERag~~~~~~GSIT~i~tVlv~~dD~~dpi~d~~~~i~dg~ivLsr~la~~g~yPAID~l~S~SR~~~-~~~  380 (455)
T PRK07960        302 FAKLPALVERAGNGISGGGSITAFYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMT-ALI  380 (455)
T ss_pred             hhhhhHHHHHHhcCCCCCeeeeeEEEEEEcCCCCCcchHHHhhhhcceEEEECHHHHhCCCCCccCcCcccCcCcc-ccC
Confidence            99999999999985  689999999999999999999999999999999999999999999999999999999995 689


Q ss_pred             CHHHHHHHHHHHHHHHccHhhhhcc
Q psy210          890 GEEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       890 ~~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++|++.++++|++|+.|+|+|+|.
T Consensus       381 ~~~~~~~~~~~r~~l~~Y~~~~dli  405 (455)
T PRK07960        381 DEQHYARVRQFKQLLSSFQRNRDLV  405 (455)
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999985

>PRK08149 ATP synthase SpaL; Validated

Probab=100.00  E-value=1.3e-83  Score=726.79  Aligned_cols=330  Identities=30%  Similarity=0.449  Sum_probs=316.2

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCC--CCC--CCCCCccCCCCCC
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG--EIN--SKKKSPIHTLPPK  655 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~--~~~--~~~~~pi~~~~p~  655 (915)
                      .+| ..|+++.+.+++|+++.||+.|++|..+++++++|+|+++||||+|++|+|+|+.+  +..  ..+++|++..||+
T Consensus        46 ~ev-v~~~~~~~~l~~~~~~~gi~~g~~v~~~~~~~~v~vg~~llGrv~d~~G~piD~~~~~~~~~~~~~~~~i~~~~~~  124 (428)
T PRK08149         46 AQV-VGFQRERTILSLIGNAQGLSRQVVLKPTGKPLSVWVGEALLGAVLDPTGKIVERFDAPPTVGPISEERVIDVAPPS  124 (428)
T ss_pred             EEE-EEeeCcEEEEEECCCccCCCCCCEEEEcCCcCEEEeChhhcCCeeCCCCCCcCCCCCCcccccccceeehhccCCc
Confidence            344 58999999999999999999999999999999999999999999999999999886  332  2467899999999


Q ss_pred             ccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh
Q psy210          656 FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE  735 (915)
Q Consensus       656 ~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~  735 (915)
                      +++|.++++++.||+++||.++|+++|||++|||++|+|||||+.+|+++.   +++++|+++||+|++|+++|++++.+
T Consensus       125 ~~~R~~i~e~l~tGi~aid~ll~i~~Gq~i~I~G~sG~GKTTLl~~i~~~~---~~dv~v~g~Ig~rg~ev~e~~~~~l~  201 (428)
T PRK08149        125 YAERRPIREPLITGVRAIDGLLTCGVGQRMGIFASAGCGKTSLMNMLIEHS---EADVFVIGLIGERGREVTEFVESLRA  201 (428)
T ss_pred             chhccCccccccCCcEEEeeeeeEecCCEEEEECCCCCChhHHHHHHhcCC---CCCeEEEEEEeeCCccHHHHHHHHhh
Confidence            999999999999999999999999999999999999999999999998753   36888999999999999999999999


Q ss_pred             cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHH
Q psy210          736 SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM  815 (915)
Q Consensus       736 ~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l  815 (915)
                      .+.++|+++|++|||+||.+|++++|+|+++||||||+||||||++||+||||+|+||||+++||||+++||||++|+.|
T Consensus       202 ~~~~~~~~vV~~~sd~p~~~r~~a~~~a~tiAE~fr~~G~~Vll~~DslTr~A~A~rEi~l~~ge~P~~~Gyp~~vfs~l  281 (428)
T PRK08149        202 SSRREKCVLVYATSDFSSVDRCNAALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALAAGELPARRGYPASVFDSL  281 (428)
T ss_pred             cccccceEEEEECCCCCHHHHHhHHHHHHHHHHHHHHcCCCEEEEccchHHHHHHHHHhHhhcCCCCcccccCccHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       816 ~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      ++|+||+|+.++||||+||||++|+||++|||+|++++|+||||+|||+||++||||||||+.|+||+|+ .+++++|++
T Consensus       282 ~~l~ERag~~~~GSIT~~~tVl~~~dD~~dpi~d~~~~ilDg~ivLsr~La~~g~yPAIDvl~S~SR~~~-~~~~~~~~~  360 (428)
T PRK08149        282 PRLLERPGATLAGSITAFYTVLLESEEEPDPIGDEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSRVFG-QVTDPKHRQ  360 (428)
T ss_pred             HHHHHhccCCCCCCceEEEEEEecCCCCCCCchhhhheeccEEEEEcHHHHhCCCCCcccCccccccchh-hhcCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999995 789999999


Q ss_pred             HHHHHHHHHHccHhhhhcc
Q psy210          896 VANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++++|++|++|+|+|+|+
T Consensus       361 ~a~~~r~~l~~y~e~e~li  379 (428)
T PRK08149        361 LAAAFRKLLTRLEELQLFI  379 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999986

>PRK05922 type III secretion system ATPase; Validated

Probab=100.00  E-value=2.8e-83  Score=724.09  Aligned_cols=328  Identities=26%  Similarity=0.383  Sum_probs=315.0

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      .+| ..|+++.+.+++|+++.||+.|++|..+++++++|+|+++||||+|++|+|+|+.+++....++|++..+|++++|
T Consensus        56 ~eV-v~~~~~~~~l~~~~~~~gi~~G~~V~~~~~~~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~pi~~~~~~~~~R  134 (434)
T PRK05922         56 AEV-IGFHNRTTLLMSLSPIHYVALGAEVLPLRRPPSLHLSDHLLGRVLDGFGNPLDGKEQLPKTHLKPLFSSPPSPMSR  134 (434)
T ss_pred             EEE-EEEeCCeEEEEEccCCCCCCCCCEEEeCCCCcEEEcChhhcCCEeCCCCCccCCCCCCCccceeecccCCCChhhc
Confidence            344 6899999999999999999999999999999999999999999999999999998877766778999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      .+++++++||||+||+++|+++|||++|||++|+|||+|+.+|+++.   ++++++|++||||++|+.+|++.+.+...+
T Consensus       135 ~~i~e~l~TGIr~ID~ll~I~~GqrigI~G~nG~GKSTLL~~Ia~~~---~~d~gvi~liGerg~ev~eyl~q~~~~~~~  211 (434)
T PRK05922        135 QPIQEIFPTGIKAIDAFLTLGKGQRIGVFSEPGSGKSSLLSTIAKGS---KSTINVIALIGERGREVREYIEQHKEGLAA  211 (434)
T ss_pred             CCcceecCCCceeecceEEEcCCcEEEEECCCCCChHHHHHHHhccC---CCCceEEEEeCCCCchHHHHHHHHHhhccc
Confidence            99999999999999999999999999999999999999999998764   368899999999999999999988888889


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                      ++|++|+||||+||.+|++++++|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|++|++|+
T Consensus       212 ~rTVlv~atsd~~~~~r~~a~~~a~tiAEyfrd~G~~VLl~~DslTR~A~A~REisl~~ge~P~~~gyp~svfs~l~~l~  291 (434)
T PRK05922        212 QRTIIIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETLSAHHYAASVFHHVSEFT  291 (434)
T ss_pred             cceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchhHHHHHHHHHHHhcCCCCCcCCcCchHHHHhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHH
Q psy210          820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANE  899 (915)
Q Consensus       820 ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~  899 (915)
                      ||||+.++||||+||||++++| ..|||+|++++||||||||||+|++++ |||||+++|+||+| +.+++++|++++.+
T Consensus       292 ERag~~~~GSIT~~~tVl~~~~-~~dpi~d~~rsilDGhIvLsr~la~~~-~PAIDvl~S~SR~~-~~~~~~~~~~~a~~  368 (434)
T PRK05922        292 ERAGNNDKGSITALYAILHYPN-HPDIFTDYLKSLLDGHFFLTPQGKALA-SPPIDILTSLSRSA-RQLALPHHYAAAEE  368 (434)
T ss_pred             HhhcCCCCcceeEEEEEEecCC-CCCccccchhhhcCcEEEEcHHHHhCC-CCCcCCccccccCC-ccccCHHHHHHHHH
Confidence            9999988999999999999998 789999999999999999999999987 99999999999999 57889999999999


Q ss_pred             HHHHHHccHhhhhcc
Q psy210          900 VKFYLQKYKELKDTS  914 (915)
Q Consensus       900 ~r~~l~~~~e~~~~~  914 (915)
                      +|++|++|+|+|++.
T Consensus       369 ~r~~l~~y~e~edli  383 (434)
T PRK05922        369 LRSLLKAYHEALDII  383 (434)
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999999986

>PRK08472 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=2.6e-83  Score=725.45  Aligned_cols=330  Identities=31%  Similarity=0.482  Sum_probs=316.2

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~  658 (915)
                      ..+ +..|+++.+.+++|+++.||+.|++|+.+++++++|+|++|||||+|++|+|+|+++++...+++|++..||++++
T Consensus        55 ~~e-Vv~~~~~~~~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGRViD~~G~plD~~g~~~~~~~~~i~~~~~~~~~  133 (434)
T PRK08472         55 LGM-VVVIEKEQFGISPFSFIEGFKIGDKVFISKEGLNIPVGRNLLGRVVDPLGRPIDGKGAIDYERYAPIMKAPIAAMK  133 (434)
T ss_pred             EEE-EEEEeCCeEEEEEccCCCCCCCCCEEEeCCCceEEEcChhhcCCEECCCCCcccCCCCCCcccccccccCCCCHHH
Confidence            345 4699999999999999999999999999999999999999999999999999999988776677899999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      |.++++++.||+++||.++|+++|||++|||++|+|||+|+.+|+++..   .+++||++||||++|+++|++.... +.
T Consensus       134 R~~i~~~l~tgi~aid~l~~i~~Gq~~~i~G~sG~GKStLl~~i~~~~~---~~v~vi~~iGergrev~e~~~~~l~-~~  209 (434)
T PRK08472        134 RGLIDEVFSVGVKSIDGLLTCGKGQKLGIFAGSGVGKSTLMGMIVKGCL---APIKVVALIGERGREIPEFIEKNLG-GD  209 (434)
T ss_pred             cCCcceeccchhHHhhhcceecCCCEEEEECCCCCCHHHHHHHHhhccC---CCEEEEEeeCccchhHHHHHHHHhc-Cc
Confidence            9999999999999999999999999999999999999999999998753   5789999999999999999986554 34


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      ++|+++|++|||+||.+|++++++|+++||||||+|+||||++||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       210 l~~tvvV~atsddsp~~R~~~~~~a~~iAEyFrd~G~~Vll~~DslTr~A~A~REi~l~~ge~P~~~Gyp~~vf~~l~~l  289 (434)
T PRK08472        210 LENTVIVVATSDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQREIGLALGEPPTSKGYPPSVLSLLPQL  289 (434)
T ss_pred             ccceEEEEECCCCCHHHhhHHHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHHHhcCCCCCccCcCchHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCC-CCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHH
Q psy210          819 QERISSTK-NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVA  897 (915)
Q Consensus       819 ~ERag~~~-~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~  897 (915)
                      +||||+.+ +||||+||||++|+||++|||+|++++|+||||||||+||++||||||||++|+||+|+ .+++++|++++
T Consensus       290 ~ERag~~~g~GSIT~~~tVlv~gdD~~dpi~d~~~~i~Dg~ivLsr~la~~g~~PAIDvl~S~SR~~~-~~~~~~~~~~a  368 (434)
T PRK08472        290 MERAGKEEGKGSITAFFTVLVEGDDMSDPIADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMN-DIISPEHKLAA  368 (434)
T ss_pred             HHHhccCCCCceeeEeEEEEecCCCCCCCchHHhhhhcceEEEEcHHHHhCCCCCccCCccccCccch-hcCCHHHHHHH
Confidence            99999987 89999999999999999999999999999999999999999999999999999999995 79999999999


Q ss_pred             HHHHHHHHccHhhhhcc
Q psy210          898 NEVKFYLQKYKELKDTS  914 (915)
Q Consensus       898 ~~~r~~l~~~~e~~~~~  914 (915)
                      +++|++|++|+|+|+|+
T Consensus       369 ~~~r~~l~~y~e~e~li  385 (434)
T PRK08472        369 RKFKRLYSLLKENEVLI  385 (434)
T ss_pred             HHHHHHHHhchhHHHHH
Confidence            99999999999999986

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=100.00  E-value=1.5e-83  Score=686.00  Aligned_cols=273  Identities=68%  Similarity=1.073  Sum_probs=265.1

Q ss_pred             ceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCC
Q psy210          190 FEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTG  269 (915)
Q Consensus       190 ~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~G  269 (915)
                      +++|+++.+|||++|++|+|||+++++...++|+++.++|++++|..+++||+|||++||.|+|||||||++|||++|+|
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            57899999999999999999999988877778899999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCC
Q psy210          270 KTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQ  349 (915)
Q Consensus       270 Kt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~  349 (915)
                      ||+|++++|++|+++|++|||++||||++|+.+|++++++.++++||++|++++|+||.+|+++||+|||+|||||++|+
T Consensus        82 Kt~L~l~~i~~~~~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~G~  161 (274)
T cd01132          82 KTAIAIDTIINQKGKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDNGK  161 (274)
T ss_pred             ccHHHHHHHHHhcCCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHHCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCC
Q psy210          350 DCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGD  429 (915)
Q Consensus       350 ~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d  429 (915)
                      ||||++|||||||+|+||||+++||||+++||||++|++|++|+||||++++..         ++||||++|+|++|+||
T Consensus       162 ~Vlvl~DslTr~A~A~rEisl~~ge~P~~~gYp~~~f~~~~~L~ERag~~~~~~---------~~GSIT~i~~V~~~~dD  232 (274)
T cd01132         162 HALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDEL---------GGGSLTALPIIETQAGD  232 (274)
T ss_pred             CEEEEEcChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHhHHHHHHhhhccCCC---------CCcceEEEEEEEcCCCC
Confidence            999999999999999999999999999999999999999999999999986422         27999999999999999


Q ss_pred             CCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccc
Q psy210          430 VTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG  471 (915)
Q Consensus       430 ~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~  471 (915)
                      ++|||||+++||+||||+|||+||++||||||||+.|+||++
T Consensus       233 ~~~pi~~~~~~i~dg~ivLsr~la~~g~yPaId~l~S~SR~g  274 (274)
T cd01132         233 VSAYIPTNVISITDGQIFLETDLFNKGIRPAINVGLSVSRVG  274 (274)
T ss_pred             cCcchHHHHHhhcCeEEEEcHHHHhCCCCCCcCCcccccCCC
Confidence            999999999999999999999999999999999999999986

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.

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=100.00  E-value=3.1e-82  Score=722.62  Aligned_cols=401  Identities=27%  Similarity=0.358  Sum_probs=373.3

Q ss_pred             eeEEEEeecChhhcccccccccC--CCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccc
Q psy210          121 AYNIEYDYFDPRCLNQTLNIKFA--NNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFEL  198 (915)
Q Consensus       121 g~~~~~~~~~p~~L~~~le~~~~--~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~l  198 (915)
                      |..++..... ..+++.++++..  .+. ..|+|.++++  +    -+.+++++.+.+++.|++|.+||+++++|+|+++
T Consensus        32 G~~v~~~~~~-~~~ge~~~i~~~~~~~~-~~~eVi~~~~--~----~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~l  103 (440)
T TIGR01026        32 GLLIEAVGPQ-ASVGDLCLIERRGSEGR-LVAEVVGFNG--E----FVFLMPYEEVEGVRPGSKVLATGEGLSIKVGDGL  103 (440)
T ss_pred             eeEEEEEcCC-CCcCCEEEEeecCCCCc-EEEEEEEecC--C----EEEEEEccCCcCCCCCCEEEeCCCccEEEcChhh
Confidence            5666665543 459999998532  332 6789999998  3    3478899999999999999999999999999999


Q ss_pred             ceeEeCCCceeecCCC-cccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHH
Q psy210          199 LGRIVNSKGEFIDNKK-KFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDT  277 (915)
Q Consensus       199 LGrviD~lG~PiD~~~-~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~  277 (915)
                      ||||+|++|+|||+.+ ++.....++++.+||||+.|.++++|+.||+++||.++|+++|||++|+|++|+|||+| +++
T Consensus       104 lGRVid~~G~plD~~~~~~~~~~~~~i~~~~~~p~~R~~~~e~l~TGi~~iD~l~~i~~Gq~~~I~G~sG~GKStL-l~~  182 (440)
T TIGR01026       104 LGRVLDGLGKPIDGKGKFLDNVETEGLITAPINPLKRAPIREILSTGVRSIDGLLTVGKGQRIGIFAGSGVGKSTL-LGM  182 (440)
T ss_pred             hhceecCCCcccCCCCCCCCCccccccccCCCChHHccCccccccceeeeeeeccccCCCcEEEEECCCCCCHHHH-HHH
Confidence            9999999999999987 55555567899999999999999999999999999999999999999999999999999 799


Q ss_pred             HHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEecc
Q psy210          278 IINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDD  357 (915)
Q Consensus       278 i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Dd  357 (915)
                      |+++.+.++ .++++||+|++|+.+|++++...+.++|+++|++++|+||.+|+++|++|+|+|||||++|+|||+++||
T Consensus       183 I~~~~~~~~-~vi~~iG~r~~ev~~~~~~~~~~~~l~~tvvv~~~~d~~p~~r~~~~~~a~t~AE~frd~G~~Vll~~Ds  261 (440)
T TIGR01026       183 IARNTEADV-NVIALIGERGREVREFIEHDLGEEGLKRSVVVVATSDQSPLLRLKGAYVATAIAEYFRDQGKDVLLLMDS  261 (440)
T ss_pred             HhCCCCCCE-EEEEEEeecchHHHHHHHHHhcccccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEeC
Confidence            999888886 5789999999999999999888888999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccc
Q psy210          358 LTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTN  437 (915)
Q Consensus       358 ltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~  437 (915)
                      |||||+|+||||+++||||+++||||++|+.+++|+||||..    |         +||||+||+|++++||++|||+|+
T Consensus       262 lTr~A~A~REisl~~ge~P~~~Gypp~~~~~l~~l~ERag~~----~---------~GSIT~i~tVl~~~~d~~dpi~d~  328 (440)
T TIGR01026       262 VTRFAMAQREIGLAAGEPPATKGYTPSVFSTLPRLLERAGAS----G---------KGSITAFYTVLVEGDDMNEPIADS  328 (440)
T ss_pred             hHHHHHHHHHHHHhcCCCCcccccChhHHHHHHHHHHHhccC----C---------CCeeeEEEEEEccCcCCCcchhhh
Confidence            999999999999999999999999999999999999999943    1         799999999999999999999999


Q ss_pred             cccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHH
Q psy210          438 VISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQL  514 (915)
Q Consensus       438 ~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L  514 (915)
                      +++|+||||+|||+||++||||||||+.|+||+++.++.++|++++.++|+.|++|+|+++|+++|.   +.|+++|+++
T Consensus       329 ~~~i~dG~ivLsr~la~~~~~PAId~~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~li~ig~y~~g~d~~~d~~i  408 (440)
T TIGR01026       329 VRGILDGHIVLSRALAQRGHYPAIDVLASISRLMTAIVSEEHRRAARKFRELLSKYKDNEDLIRIGAYQRGSDRELDFAI  408 (440)
T ss_pred             hccccceEEEEecchhhCCccCccCCCcccccCccccCCHHHHHHHHHHHHHHHhhHHHHHHHHhhccccCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999983   6799999999


Q ss_pred             HhHHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          515 YNGEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       515 ~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      .++++|++||+|+.+++++++++++.|..+
T Consensus       409 ~~~~~i~~fL~Q~~~~~~~~~~~~~~l~~~  438 (440)
T TIGR01026       409 AKYPKLERFLKQGINEKVNFEESLQQLEEI  438 (440)
T ss_pred             HHHHHHHHHcCCCCCCCCCHHHHHHHHHHh
Confidence            999999999999999999999999988854

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.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=100.00  E-value=4.5e-83  Score=682.01  Aligned_cols=270  Identities=29%  Similarity=0.428  Sum_probs=258.1

Q ss_pred             cceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCC
Q psy210          189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQT  268 (915)
Q Consensus       189 ~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~  268 (915)
                      ++++|+|+++||||+|++|+|||+++++...++++++.++|+|++|..+++||+||||+||.|+|||||||++|||++|+
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            46899999999999999999999998877777889999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHhhcC-----CCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHH
Q psy210          269 GKTTIAIDTIINQKN-----KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEY  343 (915)
Q Consensus       269 GKt~l~l~~i~~~~~-----~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy  343 (915)
                      |||+| +.+|++|++     .+.+|||++||||++|+.+|++++++.++++||++|++++|+||.+|+++||+|||+|||
T Consensus        81 GKt~L-~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiAEy  159 (276)
T cd01135          81 PHNEL-AAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTAEY  159 (276)
T ss_pred             ChhHH-HHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHHHHHHHHHHH
Confidence            99999 567888864     245699999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhc-CCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEE
Q psy210          344 FRDL-GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPI  422 (915)
Q Consensus       344 ~r~~-g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~  422 (915)
                      ||++ |+|||++||||||||+|+||||+++||||+++|||||+|+.||+|+||||++++           ++||||+||+
T Consensus       160 frd~~g~~VLl~~D~ltr~A~A~rEisl~~gepP~~~gyp~~vf~~~~~l~ERag~~~~-----------~~GSITa~~~  228 (276)
T cd01135         160 LAYEKGKHVLVILTDMTNYAEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRVEG-----------RNGSITQIPI  228 (276)
T ss_pred             HHhccCCeEEEEEcChhHHHHHHHHHHhccCCCCCccCcCccHHHHhhHHheecccCCC-----------CCeeEEEEEE
Confidence            9997 999999999999999999999999999999999999999999999999999742           1699999999


Q ss_pred             EEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccc
Q psy210          423 IETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV  470 (915)
Q Consensus       423 v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~  470 (915)
                      |++|+||++|||||+++|||||||||||+||++||||||||+.|+||+
T Consensus       229 V~~~~dD~~dpi~~~~~si~DG~ivLsr~la~~g~~PAID~l~S~SR~  276 (276)
T cd01135         229 LTMPNDDITHPIPDLTGYITEGQIVLDRQLHNRGIYPPINVLPSLSRL  276 (276)
T ss_pred             EEccCCCcCcchHHHHHhhcceEEEEcHHHHhCCCCCCcCCcccccCC
Confidence            999999999999999999999999999999999999999999999996

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.

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=100.00  E-value=6.9e-82  Score=673.24  Aligned_cols=267  Identities=26%  Similarity=0.441  Sum_probs=254.5

Q ss_pred             ccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCC
Q psy210          615 ILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVG  694 (915)
Q Consensus       615 ~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~G  694 (915)
                      +++|||+++||||+|++|+|+|+++++...++||++..+|++++|..++++|+||||+||+|+|||||||++|||++|+|
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            57999999999999999999999988777788999999999999999999999999999999999999999999999999


Q ss_pred             hhhH-HHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC
Q psy210          695 KTVN-MMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS  773 (915)
Q Consensus       695 Kt~L-l~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~  773 (915)
                      ||+| +.+|+++ + ++..+|||++||||++|++||++++++.++++||++|++|+|+||.+|++++|+|+++||||||+
T Consensus        82 Kt~L~l~~i~~~-~-~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~~~a~aiAE~fr~~  159 (274)
T cd01132          82 KTAIAIDTIINQ-K-GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYTGCAMGEYFMDN  159 (274)
T ss_pred             ccHHHHHHHHHh-c-CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHHHHHHHHHHHHHHC
Confidence            9999 4656554 2 22345699999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC----CCCceeEEEEEEecCCCCCCCccc
Q psy210          774 GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST----KNGTITSVQAIYVPADDLTDPSPS  849 (915)
Q Consensus       774 g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~  849 (915)
                      ||||||++||+||||+|+||||+++||+|+++||||++|+.|++|+||+|+.    ++||||+|++|++|+||++|||+|
T Consensus       160 G~~Vlvl~DslTr~A~A~rEisl~~ge~P~~~gYp~~~f~~~~~L~ERag~~~~~~~~GSIT~i~~V~~~~dD~~~pi~~  239 (274)
T cd01132         160 GKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLNDELGGGSLTALPIIETQAGDVSAYIPT  239 (274)
T ss_pred             CCCEEEEEcChHHHHHHHHHHHHhcCCCCCCcCcCchHHHHhHHHHHHhhhccCCCCCcceEEEEEEEcCCCCcCcchHH
Confidence            9999999999999999999999999999999999999999999999999975    589999999999999999999999


Q ss_pred             ccccccCcEEEeeHHHHhcCCCccccCCCCcccc
Q psy210          850 TTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ  883 (915)
Q Consensus       850 ~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~  883 (915)
                      ++++||||||+|||+||++||||||||+.|+||+
T Consensus       240 ~~~~i~dg~ivLsr~la~~g~yPaId~l~S~SR~  273 (274)
T cd01132         240 NVISITDGQIFLETDLFNKGIRPAINVGLSVSRV  273 (274)
T ss_pred             HHHhhcCeEEEEcHHHHhCCCCCCcCCcccccCC
Confidence            9999999999999999999999999999999997

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.

>COG1156 NtpB Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

Probab=100.00  E-value=4.6e-82  Score=682.57  Aligned_cols=416  Identities=24%  Similarity=0.344  Sum_probs=393.1

Q ss_pred             cChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCC-cccccCccceeccccccceeEeCCCc
Q psy210          129 FDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQ-KCFCTEKIFEIPVGFELLGRIVNSKG  207 (915)
Q Consensus       129 ~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~-~V~~tg~~~~vpvg~~lLGrviD~lG  207 (915)
                      +....+++.++++..+|..+.|||+.+.+  ..+    ++++|+++.|+...+ .|+++|+++.+++++++|||++|++|
T Consensus        23 ~eg~~y~E~v~i~~~~G~~r~gqVle~~~--~~a----~vQVfegT~Gl~~~~t~vrF~g~~l~i~vs~dllGRifnG~G   96 (463)
T COG1156          23 VEGASYGELVEIETPDGEVRRGQVLEVRG--DKA----VVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSG   96 (463)
T ss_pred             ccCCCcceEEEEECCCCCeeeeeEeeccC--ceE----EEEEeecccCCCCCCceEEEeCceEEEeecHHhhhhhhcCCC
Confidence            34568999999999999999999999998  433    789999999999555 59999999999999999999999999


Q ss_pred             eeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc-----
Q psy210          208 EFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK-----  282 (915)
Q Consensus       208 ~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~-----  282 (915)
                      +|||+++.+.+++..++++.|.||..|..+.++++|||++||.|++++||||++||+++|-....|| ..|++|+     
T Consensus        97 ~PiDggp~i~~e~~~dI~g~~~NP~aR~yP~efIqTgIsaIDg~NtLvrgQKlPIFSgSGlphN~La-aqIarQA~v~~~  175 (463)
T COG1156          97 KPIDGGPEIVPEDRLDINGAPINPYARIYPEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNELA-AQIARQATVDGE  175 (463)
T ss_pred             CcCCCCCcCCCCcccccCCCCCCchhhhChhhHhhcCccHHhhhhhhhcccccccccCCCCchHHHH-HHHHHhcccCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999884 5688885     


Q ss_pred             CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH-hcCCcEEEEeccchhH
Q psy210          283 NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLTKH  361 (915)
Q Consensus       283 ~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r-~~g~~Vlv~~Ddltr~  361 (915)
                      ..++.+||+++|.+.+|..+|.++|+++|+++|+++|.+.+++|+++|..+|.+|+|+||||+ ++++||||++.|||+|
T Consensus       176 ~e~favVfaamGit~eea~fF~~~fe~tGal~r~vlflnlA~dp~vEri~tPr~aLt~AEylA~e~~~hVLVilTDMTny  255 (463)
T COG1156         176 EEEFAVVFAAMGITHEEALFFMDEFEETGALDRAVLFLNLADDPAVERIITPRMALTVAEYLAFEKDMHVLVILTDMTNY  255 (463)
T ss_pred             ccceeEEEeecCccHHHHHHHHHHHHhhhhhhhhHhhhhccCCCceeEecchhHHHHHHHHHhccCCceEEEEEcchhHH
Confidence            356779999999999999999999999999999999999999999999999999999999999 7999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccc
Q psy210          362 AWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISI  441 (915)
Q Consensus       362 a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i  441 (915)
                      |+|+||||.+.+|.|+++||||+||+++|.+|||||++++   +        +||||++|+.+||+||+||||||+|++|
T Consensus       256 ceALREIsaareeVPgrRGYPGymYTdLatiYErAg~i~g---~--------~GSiTqipIlTMP~DDITHPIPDlTGYI  324 (463)
T COG1156         256 CEALREISAAREEVPGRRGYPGYMYTDLATIYERAGRIRG---R--------KGSITQIPILTMPGDDITHPIPDLTGYI  324 (463)
T ss_pred             HHHHHHHHhhhccCCCcCCCcchHHHHHHHHHHhhceecc---C--------CCceEEEEeeecCCCCcCCCCCccccee
Confidence            9999999999999999999999999999999999999964   3        8999999999999999999999999999


Q ss_pred             cCcEEEeehhhhhcCCCCeeeecCCcccccccc-----ccHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCCHHHHHHH
Q psy210          442 TDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-----QYKIVKKLSGDIRIMLAQYRELESFSKFS--SDLDIVTKTQL  514 (915)
Q Consensus       442 ~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-----~~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld~~~~~~L  514 (915)
                      |+|||+|||+|.++|+||+||++.|+||+|...     ..++|.++++|+.+.||+.++++++..++  +.|++.++++|
T Consensus       325 TEGQivl~r~l~~~gIyPpi~vlpSLSRL~~~giG~g~TReDH~~~snql~a~YA~g~d~r~l~avvge~aLs~~D~~~l  404 (463)
T COG1156         325 TEGQIVLSRDLHRKGIYPPINVLPSLSRLMKDGIGEGKTREDHGDVSNQLYAAYAEGRDLRELVAVVGEEALSERDRKYL  404 (463)
T ss_pred             ccceEEEEhhcccCCcCCCccccccHHHHhhcccCCCccccccHHHHHHHHHHHhcchhHHHHHHHhhhhhcchhHHHHH
Confidence            999999999999999999999999999998443     45899999999999999999999999876  68999999999


Q ss_pred             HhHHHHH-HHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Q psy210          515 YNGEKIS-LLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIK  566 (915)
Q Consensus       515 ~~~~~i~-~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~  566 (915)
                      ++++.|+ +|++|+.++++++++++++.|    .+|..+|.+++..+..++++
T Consensus       405 ~F~d~FE~~fi~qg~~enrsieetLdlgW----~lL~~lp~~el~ri~~~~I~  453 (463)
T COG1156         405 KFADLFEQRFIKQGRYENRSIEETLDLGW----ELLSILPESELTRIKPDLID  453 (463)
T ss_pred             HHHHHHHHHHHhcccccCCCHHHHHHHhH----HHHHhCCHhHhccCCHHHHH
Confidence            9999996 799999999999999999999    67999999999999998885

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=4.8e-80  Score=698.46  Aligned_cols=388  Identities=24%  Similarity=0.325  Sum_probs=363.2

Q ss_pred             hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceee
Q psy210          131 PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFI  210 (915)
Q Consensus       131 p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~Pi  210 (915)
                      ...+++.+++.  ++- ..|+|.+.++  +.    +.+++++.+.+++.|++|.++++++++|+++.+||||+|++|+|+
T Consensus        39 ~~~ige~~~i~--~~~-~~~eV~~~~~--~~----~~~~~~~~~~gi~~g~~v~~~~~~~~v~vg~~~lGrV~d~~G~pi  109 (432)
T PRK06793         39 KAKIGDVCFVG--EHN-VLCEVIAIEK--EN----NMLLPFEQTEKVCYGDSVTLIAEDVVIPRGNHLLGKVLSANGEVL  109 (432)
T ss_pred             CCCcCCEEEEC--CCC-EEEEEEEecC--Cc----EEEEEccCccCCCCCCEEEECCCccEEEcCHhhccCEECcCCccC
Confidence            55799999984  333 6789999998  32    377899999999999999999999999999999999999999999


Q ss_pred             cCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEE
Q psy210          211 DNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIY  290 (915)
Q Consensus       211 D~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~  290 (915)
                      |+++++.....++++.+||+|++|..+++++.||+++||.++|+++|||++|||++|+|||+| +.+|+.+...+. .++
T Consensus       110 D~~~~~~~~~~~~i~~~~~~~~~r~~i~~~l~TGiraID~ll~I~~Gqri~I~G~sG~GKTtL-l~~Ia~~~~~~~-gvI  187 (432)
T PRK06793        110 NEEAENIPLQKIKLDAPPIHAFEREEITDVFETGIKSIDSMLTIGIGQKIGIFAGSGVGKSTL-LGMIAKNAKADI-NVI  187 (432)
T ss_pred             CCCCCCCCcccccccCCCCCchheechhhccCCCCEEEeccceecCCcEEEEECCCCCChHHH-HHHHhccCCCCe-EEE
Confidence            998776666678999999999999999999999999999999999999999999999999999 788888776665 467


Q ss_pred             EeeccchhhHHHHHHH-HhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHH
Q psy210          291 VCIGQKISSLINVINK-LKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQIS  369 (915)
Q Consensus       291 ~~iGer~~ev~~~~~~-l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis  369 (915)
                      +++|||++|+.+|++. +.+.+ ++|+++|++++|+|+.+|++++++|+++|||||++|+|||+++||+||||+|+|||+
T Consensus       188 ~~iGerg~ev~e~~~~~l~~~g-l~~tvvv~~tsd~s~~~r~ra~~~a~~iAEyfr~~G~~VLlilDslTr~a~A~reis  266 (432)
T PRK06793        188 SLVGERGREVKDFIRKELGEEG-MRKSVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFADARRSVD  266 (432)
T ss_pred             EeCCCCcccHHHHHHHHhhhcc-cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEecchHHHHHHHHHHH
Confidence            8999999999999885 55555 999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEee
Q psy210          370 LLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLD  449 (915)
Q Consensus       370 ~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Ls  449 (915)
                      ++++|||+. |||+++|+.+++|+||||+.+             +||||++|+|++|+||++|||||+++||+|||||||
T Consensus       267 l~~~e~p~~-G~~~~~~s~l~~L~ERag~~~-------------~GSiT~~~tvlv~~dD~~dpI~d~~~si~DG~ivLs  332 (432)
T PRK06793        267 IAVKELPIG-GKTLLMESYMKKLLERSGKTQ-------------KGSITGIYTVLVDGDDLNGPVPDLARGILDGHIVLK  332 (432)
T ss_pred             HHhcCCCCC-CeeeeeeccchhHHHHhccCC-------------CcceEEEEEEEecCCCCCCcchHHhhhhcceEEEEc
Confidence            999999996 999999999999999999862             699999999999999999999999999999999999


Q ss_pred             hhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhcc---CCCCHHHHHHHH-hHHHHHHHhh
Q psy210          450 TNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFS---SDLDIVTKTQLY-NGEKISLLMK  525 (915)
Q Consensus       450 r~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG---~~ld~~~~~~L~-~~~~i~~fL~  525 (915)
                      |+||++||||||||+.|+||+|+.++.++|++++..+|+.|++|+|+|+++++|   .+.|++.+++++ ++++|++||+
T Consensus       333 r~la~~g~~PAIDv~~S~SR~~~~~~~~~~~~~a~~~r~~la~y~e~e~~i~~g~y~~g~~~~~d~ai~~~~~~i~~fl~  412 (432)
T PRK06793        333 RELATLSHYPAISVLDSVSRIMEEIVSPNHWQLANEMRKILSIYKENELYFKLGTIQENAENAYIFECKNKVEGINTFLK  412 (432)
T ss_pred             HHHHhCCCCCccCCCcccCcCccccCCHHHHHHHHHHHHHHHhChHHHHHHHhCCccCCCCHHHHHHHHHhHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999999999998   489999999999 9999999999


Q ss_pred             cCCCCCccHHHHHHHHHHH
Q psy210          526 QKPHENYSIVELIIILLII  544 (915)
Q Consensus       526 Q~~~e~~s~ee~l~~L~ai  544 (915)
                      |+..++.++++++..|..+
T Consensus       413 Q~~~~~~~~~~~~~~l~~~  431 (432)
T PRK06793        413 QGRSDSFQFDDIVEAMHHI  431 (432)
T ss_pred             CCCCCCCCHHHHHHHHHhh
Confidence            9999999999999988753

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=1.1e-80  Score=704.14  Aligned_cols=332  Identities=28%  Similarity=0.438  Sum_probs=314.8

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~  658 (915)
                      ..|| ..|+++.+.+++|++++||+.|++|..+++++++|+|++|||||+|++|+|+|+++++.....+|++.++|||++
T Consensus        53 ~~eV-v~~~~~~~~l~~~~~~~gi~~g~~v~~~~~~~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~~~~~~~~~p~~  131 (434)
T PRK07196         53 EAQV-VGFDRDITYLMPFKHPGGVLGGARVFPSEQDGELLIGDSWLGRVINGLGEPLDGKGQLGGSTPLQQQLPQIHPLQ  131 (434)
T ss_pred             EEEE-EEecCCEEEEEECCCccCCCCCCEEEECCCccEEEcCccccCCeeCcCCCCcCCCCCCCCCceeeccCCCCChHH
Confidence            3455 589999999999999999999999999999999999999999999999999999987766667899999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      |.+++++++||+++||.++|+++|||++|||++|+|||||+.+|++..   ++++.|+++||+|++|+.+|+++...+..
T Consensus       132 R~~~~~~l~TGi~aID~ll~I~~GQ~igI~G~sGaGKSTLl~~I~g~~---~~dv~vig~IGerg~ev~ef~~~~l~~~g  208 (434)
T PRK07196        132 RRAVDTPLDVGVNAINGLLTIGKGQRVGLMAGSGVGKSVLLGMITRYT---QADVVVVGLIGERGREVKEFIEHSLQAAG  208 (434)
T ss_pred             hcccccccccceeeccceEeEecceEEEEECCCCCCccHHHHHHhccc---CCCeEEEEEEeeecHHHHHHHHHHhhhcc
Confidence            999999999999999999999999999999999999999999888754   25788889999999999999987555555


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      +.|++++++++|+|+.+|+.++++++++||||+++|+|||++|||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       209 l~rsvvv~~~~d~s~~~rl~a~e~a~~iAEyfr~~g~~Vll~~Dsltr~a~A~REisl~~ge~P~~~Gyp~svf~~l~~l  288 (434)
T PRK07196        209 MAKSVVVAAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIALSLGEPPATKGYPPSAFSIIPRL  288 (434)
T ss_pred             cceEEEEEecCCCChhhhHHHHHHHHHHHHHhhhccCCEEEeecchhHHHhhhhHHHHhcCCCCcccCcCHHHHHHhHHH
Confidence            88999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCC-CCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHH
Q psy210          819 QERISSTK-NGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVA  897 (915)
Q Consensus       819 ~ERag~~~-~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~  897 (915)
                      +||+|+.. +||||+||||++|+||++|||+|++++||||||||||+||++||||||||+.|+||+|+ .+++++|++++
T Consensus       289 ~ERag~~~~~GSIT~~~tVl~~~dD~~dpi~d~~~~ilDG~ivLsr~la~~g~yPAIDvl~S~SR~~~-~~~~~~~~~~a  367 (434)
T PRK07196        289 AESAGNSSGNGTMTAIYTVLAEGDDQQDPIVDCARAVLDGHIVLSRKLAEAGHYPAIDISQSISRCMS-QVIGSQQAKAA  367 (434)
T ss_pred             HHHhhcCCCCEEeeeeeEEEccCCCCCCchhHhhhhhcceEEEEcHHHHhCCCCCccCCccccCccch-hccCHHHHHHH
Confidence            99999875 79999999999999999999999999999999999999999999999999999999995 88999999999


Q ss_pred             HHHHHHHHccHhhhhccC
Q psy210          898 NEVKFYLQKYKELKDTST  915 (915)
Q Consensus       898 ~~~r~~l~~~~e~~~~~~  915 (915)
                      .++|++|++|+|+|+|++
T Consensus       368 ~~~r~~~a~y~e~~~li~  385 (434)
T PRK07196        368 SLLKQCYADYMAIKPLIP  385 (434)
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            999999999999999863

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=1e-80  Score=665.55  Aligned_cols=338  Identities=70%  Similarity=1.088  Sum_probs=332.5

Q ss_pred             chhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCC--CCCccCCCCC
Q psy210          577 ISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSK--KKSPIHTLPP  654 (915)
Q Consensus       577 ~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~--~~~pi~~~~p  654 (915)
                      +...||+++++++.|+.+++++++||.+|+.|..||+|++||||++.||||+|++|+|+|+.+++...  .+||+++.+|
T Consensus        40 ~~~leV~q~lg~~~VR~Iam~~t~gl~rg~~v~dtg~pi~VPVG~~~lgri~nvlG~~iD~~~~~~~~~~~~~~Ih~~~p  119 (468)
T COG0055          40 TLVLEVAQHLGDNVVRTIAMGSTDGLVRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPIKAEDFEKWPIHRKAP  119 (468)
T ss_pred             eEeeehHHHhCCCeEEEEEecCccCcccCcEEecCCCceEEecchhhcccchhccCCcccccCCCCccccceeeccCCCC
Confidence            57899999999999999999999999999999999999999999999999999999999999888765  8899999999


Q ss_pred             CccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhh
Q psy210          655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK  734 (915)
Q Consensus       655 ~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~  734 (915)
                      ...+..+..|.|+||||+||+|+|+.||.|+|+||++|+|||+|++++++|+++.|....||+++|||.||..|++.+++
T Consensus       120 ~~~e~~~~~EIleTGIKVIDll~P~~kGgKiGLFGGAGVGKTVl~~ELI~Nia~~h~g~SVFaGvGERtREGndLy~Em~  199 (468)
T COG0055         120 SFEELSTKTEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMK  199 (468)
T ss_pred             chhhcccchhhhhhCceEEEEecccccCceeeeeccCCccceeeHHHHHHHHHHHcCCeEEEEeccccccchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhH
Q psy210          735 ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE  813 (915)
Q Consensus       735 ~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~  813 (915)
                      ++++++||++|++++||||+.|+|++.+++|+||||||+ |+|||+++||++||.+|..|+|.++|++|+..||+|.|.+
T Consensus       200 es~vl~ktalv~gQMNEpPGaR~RValtGlT~AEyfRD~~gqdVLlFIDNIfRftQAGsEVSalLGr~PSavGYQpTLat  279 (468)
T COG0055         200 ESGVLDKTALVFGQMNEPPGARMRVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLAT  279 (468)
T ss_pred             hcCCCCceeEEEeecCCCCcceeeehhhhhhHHHHhhcccCCeEEEEehhhhHHhhcchHHHHHhccCccccccCchhHH
Confidence            999999999999999999999999999999999999998 9999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHH
Q psy210          814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEH  893 (915)
Q Consensus       814 ~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~  893 (915)
                      ++..|.||..++++||||++++|++|+||+|||.|..+|+++|.+++|||++|+.|+|||||||.|.||.++|.++|++|
T Consensus       280 emg~lQERItstk~GSITSiQavyvPaDDlTDPapattFaHLDat~vLsR~ia~~GIyPAvDPL~StSr~l~p~ivGe~H  359 (468)
T COG0055         280 EMGQLQERITSTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAALGIYPAVDPLDSTSRALDPKIVGEEH  359 (468)
T ss_pred             HHHHHHHHHhcCCCCceEEEEEEEeccccCCCcchhhhhhhcccceeeeHhHHhcCCCcccCcccccccccCcccccHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHccHhhhhcc
Q psy210          894 YKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       894 ~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++|.+++++|++|+||+||.
T Consensus       360 y~va~~vq~iLqrYkeLqDII  380 (468)
T COG0055         360 YEVAREVQSILQRYKELQDII  380 (468)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999974

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=100.00  E-value=2.7e-80  Score=680.23  Aligned_cols=323  Identities=32%  Similarity=0.468  Sum_probs=314.0

Q ss_pred             cceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCC
Q psy210          189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQT  268 (915)
Q Consensus       189 ~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~  268 (915)
                      ++++|+++++||||+|++|+|||+.+++....+++++.++|+|++|..+++|+.||+++||.++|+++|||++|||++|+
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            46899999999999999999999998877777899999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcC
Q psy210          269 GKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLG  348 (915)
Q Consensus       269 GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g  348 (915)
                      |||+| +++|+++...++ +++++||+|++|+.+|++++.+.+.++||++|++++|+||.+|++++++|+|+|||||++|
T Consensus        81 GKTtL-l~~Ia~~~~~~~-~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~g  158 (326)
T cd01136          81 GKSTL-LGMIARGTTADV-NVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRDQG  158 (326)
T ss_pred             ChHHH-HHHHhCCCCCCE-EEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHHHHHHHHHHHHHcC
Confidence            99999 899999988886 7899999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCC
Q psy210          349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEG  428 (915)
Q Consensus       349 ~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~  428 (915)
                      +|||+++|||||||+|+||||+++||||+++||||++|+.|++|+||||+.+             +||||+|++|++|+|
T Consensus       159 ~~Vll~~Dsltr~a~A~rei~~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~-------------~GSIT~i~tv~~~gd  225 (326)
T cd01136         159 KDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAGNSD-------------KGSITAFYTVLVEGD  225 (326)
T ss_pred             CCeEEEeccchHHHHHHHHHHHhcCCCCCcCCcChHHHHHhHHHHHHhcCCC-------------CCCeeeeeeeeecCC
Confidence            9999999999999999999999999999999999999999999999999863             699999999999999


Q ss_pred             CCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---C
Q psy210          429 DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---D  505 (915)
Q Consensus       429 d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~  505 (915)
                      |++|||||++++|+||||+|||+||++||||||||+.|+||+++.++.++|.+++.++|+.|++|+|+++++++|.   +
T Consensus       226 d~~dpi~~~~~~~~dg~ivL~r~la~~g~~PAid~~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~~i~~g~y~~g  305 (326)
T cd01136         226 DLNEPIADAVRSILDGHIVLSRALAAAGHYPAIDVLKSISRLMNAVVTPEHKEAARKLRELLSAYQEVEDLIRIGAYKKG  305 (326)
T ss_pred             CCCcchHHhhhhccceEEEEcCcHHHcCCCCCcccccccccCccccCCHHHHHHHHHHHHHHHHhHHHHHHHHhcCCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999995   9


Q ss_pred             CCHHHHHHHHhHHHHHHHhhc
Q psy210          506 LDIVTKTQLYNGEKISLLMKQ  526 (915)
Q Consensus       506 ld~~~~~~L~~~~~i~~fL~Q  526 (915)
                      +|+++|++++++++|++||+|
T Consensus       306 ~d~~~d~~i~~~~~i~~~l~Q  326 (326)
T cd01136         306 SDPEVDEAIKLLPKIEAFLKQ  326 (326)
T ss_pred             CCHHHHHHHHhHHHHHHHhCC
Confidence            999999999999999999998

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.

>TIGR02546 III_secr_ATP type III secretion apparatus H+-transporting two-sector ATPase

Probab=100.00  E-value=2.1e-80  Score=706.57  Aligned_cols=332  Identities=33%  Similarity=0.529  Sum_probs=318.8

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCC--CCccCCCCCCc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKK--KSPIHTLPPKF  656 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~--~~pi~~~~p~~  656 (915)
                      ..+| ..++++.+.+++|++++||+.|++|..||+++++|+|+++||||+|++|+|+|+.+++....  +||++..|||+
T Consensus        41 ~~eV-i~~~~~~~~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrViD~~G~plD~~~~~~~~~~~~~pi~~~~~~~  119 (422)
T TIGR02546        41 LAEV-VGFTGDEALLSPLGELHGISPGSEVIPTGRPLSIRVGEALLGRVLDGFGRPLDGKGELPAGEIETRPLDADPPPP  119 (422)
T ss_pred             EEEE-EEEcCCcEEEEEccCccCCCCCCEEEECCCCceEEeChhhccCEeCCCCCcccCCCCCCCCCceeeeccCCCcCH
Confidence            3455 58999999999999999999999999999999999999999999999999999998776553  68999999999


Q ss_pred             cccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       657 ~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      ++|.+++++++||+++||.++|+++|||++|+|++|+|||+|+.+|+++.   +++.++|++||||++|+++|++...+.
T Consensus       120 ~~R~~i~~~l~tG~~~id~l~~i~~Gq~~~I~G~sG~GKStLl~~I~~~~---~~~~~vi~~iG~~~~ev~~~~~~~~~~  196 (422)
T TIGR02546       120 MSRQPIDQPLPTGVRAIDGLLTCGEGQRIGIFAGAGVGKSTLLGMIARGA---SADVNVIALIGERGREVREFIEHHLGE  196 (422)
T ss_pred             HHccCcccccCCCceeehhhccccCCCEEEEECCCCCChHHHHHHHhCCC---CCCEEEEEEEccCCcCHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999999999998764   368899999999999999999999888


Q ss_pred             CccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       737 ~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      +.++++++|++++|+|+.+|++++++|+++|||||++|+|||+++||+||||+|+||||+++||||+++||||++|+.|+
T Consensus       197 ~~~~~tvvv~~~s~~p~~~r~~~~~~a~~~AE~f~~~g~~Vl~~~Dsltr~a~A~rei~l~~ge~P~~~gyp~~~f~~l~  276 (422)
T TIGR02546       197 EGRKRSVLVVSTSDRPSLERLKAAYTATAIAEYFRDQGKRVLLMMDSLTRFARALREIGLAAGEPPARGGYPPSVFSSLP  276 (422)
T ss_pred             ccccceEEEeccccCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeCchHHHHHHHHHHHhcCCCCcccccChhHHHHhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHH
Q psy210          817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKV  896 (915)
Q Consensus       817 ~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~  896 (915)
                      +|+||||+.++||||+||||++++||++|||+|++++|+||||+|||+||++||||||||++|+||+| +.+++++|+++
T Consensus       277 ~l~ERag~~~~GSIT~~~tv~~~~dd~~~pi~~~~~~i~dg~i~Lsr~la~~g~yPAId~~~S~SR~~-~~~~~~~~~~~  355 (422)
T TIGR02546       277 RLLERAGNGEKGSITALYTVLVEGDDMNDPIADEVRSILDGHIVLSRALAERNHYPAIDVLASLSRVM-SQVVSTEHRRA  355 (422)
T ss_pred             HHHHHhcCCCCCceeEEEEEeccCCCCCCCchhhhhccccEEEEEcHHHHhCCCCCccCCccccccch-hhhCCHHHHHH
Confidence            99999999899999999999999999999999999999999999999999999999999999999999 57899999999


Q ss_pred             HHHHHHHHHccHhhhhccC
Q psy210          897 ANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       897 ~~~~r~~l~~~~e~~~~~~  915 (915)
                      ++++|++|++|+|+++|++
T Consensus       356 a~~~~~~l~~y~e~~~li~  374 (422)
T TIGR02546       356 AGKLRRLLATYKEVELLIR  374 (422)
T ss_pred             HHHHHHHHHhhHHHHHHHH
Confidence            9999999999999999863

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=3.2e-80  Score=699.73  Aligned_cols=327  Identities=32%  Similarity=0.476  Sum_probs=309.4

Q ss_pred             hhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCC-CCccCCCCCCccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKK-KSPIHTLPPKFSNQI  660 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~-~~pi~~~~p~~~~r~  660 (915)
                      .+..|+++.+.+++|+++.||+.|++|.. ++++++++|+++||||+|++|+|+|+.+++...+ ++|++..+|++++|.
T Consensus        65 eVv~~~~~~~~l~~~~~~~gi~~g~~v~~-~~~~~v~vg~~llGRV~d~~G~piDg~~~~~~~~~~~~i~~~~p~~~~r~  143 (450)
T PRK06002         65 EVVRVDPDGVTVKPFEPRIEIGLGDAVFR-KGPLRIRPDPSWKGRVINALGEPIDGLGPLAPGTRPMSIDATAPPAMTRA  143 (450)
T ss_pred             EEEEEeCCeEEEEEccCCcCCCCCCEEEe-CCCceeecCcccccCEECCCCcCCCCCCCCCCCcceeeccCCCCCCeEee
Confidence            44699999999999999999999999999 6789999999999999999999999988776644 579999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccc
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD  740 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~  740 (915)
                      .+++++.||+++||.++||++|||++|||++|+|||+|+.+|++..   +++..+|++||||++|+.+|.++.... .++
T Consensus       144 ~v~~~l~TGi~aID~L~~I~~Gqri~I~G~SGsGKTTLL~~Ia~l~---~pd~gvv~liGergrev~e~~~~~l~~-~r~  219 (450)
T PRK06002        144 RVETGLRTGVRVIDIFTPLCAGQRIGIFAGSGVGKSTLLAMLARAD---AFDTVVIALVGERGREVREFLEDTLAD-NLK  219 (450)
T ss_pred             cceEEcCCCcEEeeeeceecCCcEEEEECCCCCCHHHHHHHHhCCC---CCCeeeeeecccCCccHHHHhHHHHHH-hhC
Confidence            9999999999999999999999999999999999999998887643   367889999999999999999866554 388


Q ss_pred             cEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHH
Q psy210          741 KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQE  820 (915)
Q Consensus       741 ~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~E  820 (915)
                      |+++|++++|+||.+|++++++|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+|
T Consensus       220 rtI~vV~qsd~~~~~r~~~~~~a~~iAEyfrd~G~~Vll~~DslTr~A~A~rEisl~~ge~P~~~gyp~~vf~~l~~l~E  299 (450)
T PRK06002        220 KAVAVVATSDESPMMRRLAPLTATAIAEYFRDRGENVLLIVDSVTRFAHAAREVALAAGEPPVARGYPPSVFSELPRLLE  299 (450)
T ss_pred             CeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeccchHHHHHHHHHHHHhcCCCCccccCCccHHHHhhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHH
Q psy210          821 RISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVAN  898 (915)
Q Consensus       821 Rag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~  898 (915)
                      |+|+.  ++||||+||||++|+||++|||+|++++|+||||||||+||++||||||||+.|+||+|+ .+++++|+++++
T Consensus       300 Rag~~~~~~GSIT~~~tvl~~~dd~~dpI~d~~~~i~Dg~ivLsr~la~~g~~PAIDv~~S~SR~~~-~~~~~~~~~~a~  378 (450)
T PRK06002        300 RAGPGAEGGGSITGIFSVLVDGDDHNDPVADSIRGTLDGHIVLDRAIAEQGRYPAVDPLASISRLAR-HAWTPEQRKLVS  378 (450)
T ss_pred             HhccCCCCCeeeeEEEEEEecCCCCCCccHHHHHhhcceEEEEcHHHHhCCCCCccCCccccCcccc-cccCHHHHHHHH
Confidence            99973  589999999999999999999999999999999999999999999999999999999995 678999999999


Q ss_pred             HHHHHHHccHhhhhcc
Q psy210          899 EVKFYLQKYKELKDTS  914 (915)
Q Consensus       899 ~~r~~l~~~~e~~~~~  914 (915)
                      ++|++|++|+|+|+|.
T Consensus       379 ~~r~~la~y~e~e~li  394 (450)
T PRK06002        379 RLKSMIARFEETRDLR  394 (450)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            9999999999999985

>TIGR01026 fliI_yscN ATPase FliI/YscN family

Probab=100.00  E-value=9.6e-80  Score=702.12  Aligned_cols=330  Identities=34%  Similarity=0.530  Sum_probs=316.6

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCC-CCCCCCCCccCCCCCCccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG-EINSKKKSPIHTLPPKFSN  658 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~-~~~~~~~~pi~~~~p~~~~  658 (915)
                      .+| ..++++.+.+++|++++||++|++|+.+|+++++|+|+++||||+|++|+|+|+.+ ++....++|++..+|+|++
T Consensus        61 ~eV-i~~~~~~v~l~~~~~t~gl~~G~~V~~tg~~~~v~vg~~llGRVid~~G~plD~~~~~~~~~~~~~i~~~~~~p~~  139 (440)
T TIGR01026        61 AEV-VGFNGEFVFLMPYEEVEGVRPGSKVLATGEGLSIKVGDGLLGRVLDGLGKPIDGKGKFLDNVETEGLITAPINPLK  139 (440)
T ss_pred             EEE-EEecCCEEEEEEccCCcCCCCCCEEEeCCCccEEEcChhhhhceecCCCcccCCCCCCCCCccccccccCCCChHH
Confidence            344 58889999999999999999999999999999999999999999999999999987 5555566799999999999


Q ss_pred             cccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          659 QIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       659 r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      |.++++++.||+++||.++|+++|||++|||++|+|||+|+.+|+++.   ++++.+|++||||++|+.+|++++...+.
T Consensus       140 R~~~~e~l~TGi~~iD~l~~i~~Gq~~~I~G~sG~GKStLl~~I~~~~---~~~~~vi~~iG~r~~ev~~~~~~~~~~~~  216 (440)
T TIGR01026       140 RAPIREILSTGVRSIDGLLTVGKGQRIGIFAGSGVGKSTLLGMIARNT---EADVNVIALIGERGREVREFIEHDLGEEG  216 (440)
T ss_pred             ccCccccccceeeeeeeccccCCCcEEEEECCCCCCHHHHHHHHhCCC---CCCEEEEEEEeecchHHHHHHHHHhcccc
Confidence            999999999999999999999999999999999999999999888764   36888999999999999999998888788


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      ++||++|++|+|+||.+|+++|++|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.+++|
T Consensus       217 l~~tvvv~~~~d~~p~~r~~~~~~a~t~AE~frd~G~~Vll~~DslTr~A~A~REisl~~ge~P~~~Gypp~~~~~l~~l  296 (440)
T TIGR01026       217 LKRSVVVVATSDQSPLLRLKGAYVATAIAEYFRDQGKDVLLLMDSVTRFAMAQREIGLAAGEPPATKGYTPSVFSTLPRL  296 (440)
T ss_pred             cceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEeChHHHHHHHHHHHHhcCCCCcccccChhHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHH
Q psy210          819 QERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVAN  898 (915)
Q Consensus       819 ~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~  898 (915)
                      +||++..++||||+||||++++||++|||+|++++|+||||+|||+||++||||||||+.|+||+| +.+++++|+++++
T Consensus       297 ~ERag~~~~GSIT~i~tVl~~~~d~~dpi~d~~~~i~dG~ivLsr~la~~~~~PAId~~~S~SR~~-~~~~~~~~~~~a~  375 (440)
T TIGR01026       297 LERAGASGKGSITAFYTVLVEGDDMNEPIADSVRGILDGHIVLSRALAQRGHYPAIDVLASISRLM-TAIVSEEHRRAAR  375 (440)
T ss_pred             HHHhccCCCCeeeEEEEEEccCcCCCcchhhhhccccceEEEEecchhhCCccCccCCCcccccCc-cccCCHHHHHHHH
Confidence            999998889999999999999999999999999999999999999999999999999999999999 5889999999999


Q ss_pred             HHHHHHHccHhhhhcc
Q psy210          899 EVKFYLQKYKELKDTS  914 (915)
Q Consensus       899 ~~r~~l~~~~e~~~~~  914 (915)
                      ++|++|++|+|+++|+
T Consensus       376 ~~r~~l~~y~e~~~li  391 (440)
T TIGR01026       376 KFRELLSKYKDNEDLI  391 (440)
T ss_pred             HHHHHHHhhHHHHHHH
Confidence            9999999999999986

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.

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=3.1e-79  Score=697.58  Aligned_cols=393  Identities=26%  Similarity=0.372  Sum_probs=366.8

Q ss_pred             hhhcccccccccC-CC-ceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCce
Q psy210          131 PRCLNQTLNIKFA-NN-TVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGE  208 (915)
Q Consensus       131 p~~L~~~le~~~~-~g-~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~  208 (915)
                      +..+++.++++.. .+ ....|||.+++|  +    .+.+++++++.|++.|++|.+||+++++|+|+++||||+|++|+
T Consensus        36 ~~~ige~~~i~~~~~~~~~~~~EVi~~~~--~----~~~l~~~~~~~gl~~g~~V~~tg~~~~v~vg~~llGRv~d~~G~  109 (438)
T PRK07721         36 ESSIGDVCYIHTKGGGDKAIKAEVVGFKD--E----HVLLMPYTEVAEIAPGCLVEATGKPLEVKVGSGLIGQVLDALGE  109 (438)
T ss_pred             CCCchheEEEEecCCCCceEEEEEEEEcC--C----EEEEEEccCccCCCCCCEEEECCCccEEEechhhcCCEECcCCC
Confidence            4578999888633 22 136789999998  3    34788999999999999999999999999999999999999999


Q ss_pred             eecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEE
Q psy210          209 FIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC  288 (915)
Q Consensus       209 PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~  288 (915)
                      |||+.+......+++++.+||+|+.|.++++||.||+++||.++++++||+++|+|++|+|||+| +++|+++...+. .
T Consensus       110 plD~~~~~~~~~~~~i~~~~p~p~~R~~i~~~l~tg~~vid~l~~i~~Gq~i~I~G~sG~GKStL-l~~I~~~~~~~~-g  187 (438)
T PRK07721        110 PLDGSALPKGLAPVSTDQDPPNPLKRPPIREPMEVGVRAIDSLLTVGKGQRVGIFAGSGVGKSTL-MGMIARNTSADL-N  187 (438)
T ss_pred             ccCCCCCCCccccCCccCCCCChhhccCcccccccchhhhheeeeecCCcEEEEECCCCCCHHHH-HHHHhcccCCCe-E
Confidence            99998754444567999999999999999999999999999999999999999999999999999 789998877775 6


Q ss_pred             EEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHH
Q psy210          289 IYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI  368 (915)
Q Consensus       289 V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~rei  368 (915)
                      ++.++|||++|+.+|+++......+.+++++++++|+|+.+|+++||+|+|+||||||+|+|||+++|||||||+|+|||
T Consensus       188 vI~~~Gerg~ev~e~~~~~l~~~~l~r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEi  267 (438)
T PRK07721        188 VIALIGERGREVREFIERDLGPEGLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREI  267 (438)
T ss_pred             EEEEEecCCccHHHHHHhhcChhhhcCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHH
Confidence            78999999999999999855555689999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEe
Q psy210          369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFL  448 (915)
Q Consensus       369 s~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~L  448 (915)
                      |+++||||+++||||++|+.+++++||+++..             +||||+|+||+++++|+++||+|++++|+||||+|
T Consensus       268 sl~~ge~P~~~G~dp~~~~~l~~ller~~~~~-------------~GsIT~~~TVlv~~hdm~e~i~d~v~~i~dG~Ivl  334 (438)
T PRK07721        268 GLAVGEPPTTKGYTPSVFAILPKLLERTGTNA-------------SGSITAFYTVLVDGDDMNEPIADTVRGILDGHFVL  334 (438)
T ss_pred             HHhcCCCCccccCCHHHHHHHHHHHHHhcCCC-------------CCCeeeEEEEEEECCCCCchhhhhEEEecCEEEEE
Confidence            99999999999999999999999999998631             69999999999999999999999999999999999


Q ss_pred             ehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHHHhHHHHHHHhh
Q psy210          449 DTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQLYNGEKISLLMK  525 (915)
Q Consensus       449 sr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L~~~~~i~~fL~  525 (915)
                      |++|+++||||||||+.|+||+++.++.++|+++|.++|+.|++|+|+++++++|.   +.|++.|++++++++|++||+
T Consensus       335 s~~la~~g~~PAIdv~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~li~~g~y~~g~~~~~d~a~~~~~~~~~fl~  414 (438)
T PRK07721        335 DRQLANKGQYPAINVLKSVSRVMNHIVSPEHKEAANRFRELLSTYQNSEDLINIGAYKRGSSREIDEAIQFYPQIISFLK  414 (438)
T ss_pred             eccHHHCCCCCccCCcccccccccccCCHHHHHHHHHHHHHHHHhHHHHHHHHhhCCcCCCCHHHHHHHHhHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999984   899999999999999999999


Q ss_pred             cCCCCCccHHHHHHHHHHH
Q psy210          526 QKPHENYSIVELIIILLII  544 (915)
Q Consensus       526 Q~~~e~~s~ee~l~~L~ai  544 (915)
                      |+.+|+.++++++..||.+
T Consensus       415 Q~~~~~~~~~~~~~~l~~~  433 (438)
T PRK07721        415 QGTDEKATFEESIQALLSL  433 (438)
T ss_pred             CCCCCCCCHHHHHHHHHHH
Confidence            9999999999999999965

>PRK06315 type III secretion system ATPase; Provisional

Probab=100.00  E-value=2.8e-79  Score=693.90  Aligned_cols=401  Identities=26%  Similarity=0.358  Sum_probs=368.0

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.++-.. .+..+++.++++...+....++|.++++  +    .+.+++++.+.+++.|++|.++|+++++|+++++|||
T Consensus        33 ~~~~~~~-~~~~~ge~~~i~~~~~~~~~~eVv~~~~--~----~~~l~~~~~~~gi~~g~~V~~~g~~~~v~vg~~llGr  105 (442)
T PRK06315         33 MLIKAVV-PDVRVGEVCLVKRHGMEPLVTEVVGFTQ--N----FVFLSPLGELTGVSPSSEVIPTGLPLHIRAGNGLLGR  105 (442)
T ss_pred             CEEEEEE-CCcccCCEEEEecCCCCEEEEEEEEEcC--C----eEEEEEccCCcCCCCCCEEEeCCCccEEEecccccCC
Confidence            3344442 2468999998865333346789999998  3    3478899999999999999999999999999999999


Q ss_pred             EeCCCceeecC--CCccc-ccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHH
Q psy210          202 IVNSKGEFIDN--KKKFL-IKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTI  278 (915)
Q Consensus       202 viD~lG~PiD~--~~~~~-~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i  278 (915)
                      |+|++|+|||+  ++++. ..++++++.+||+|++|.++++||+|||++||.++|+++|||++|||++|+|||+| +.+|
T Consensus       106 v~d~~G~pld~~~~~~~~~~~~~~~i~~~~~~~~~R~~~~e~l~TGi~aID~~l~i~~Gq~i~I~G~sG~GKStL-l~~I  184 (442)
T PRK06315        106 VLNGLGEPIDTETKGPLENVDETYPIFRAPPDPLHRAKLRTILSTGVRCIDGMLTVARGQRIGIFAGAGVGKSSL-LGMI  184 (442)
T ss_pred             EEeccCcccccccCCCcccccceeeeecCCCChHHcccccccccceEEEEeccccccCCcEEEEECCCCCCcchH-HHHh
Confidence            99999999998  66654 44668999999999999999999999999999999999999999999999999999 6888


Q ss_pred             Hhhc-CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEecc
Q psy210          279 INQK-NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDD  357 (915)
Q Consensus       279 ~~~~-~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Dd  357 (915)
                      +++. ..++ .|++++|||++|+.+|.++......++++++|++|++++|..++.++++|+++|||||++|++||+++|+
T Consensus       185 ~~~~~~~~~-~vi~liGerg~ev~~~~~~~l~~~g~~~svvvvats~q~p~~rlnp~~va~~IAE~~r~~g~~Vl~~~Ds  263 (442)
T PRK06315        185 ARNAEEADV-NVIALIGERGREVREFIEGDLGEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQGKTVVLMMDS  263 (442)
T ss_pred             hcccccCCc-eEEEEECCCchHHHHHHHHHHHhcCCceEEEEEeCCCCCHHHHhhHHHHHHHHHHHHHHcCCCcchhhhH
Confidence            8754 4554 5789999999999999987433345899999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccc
Q psy210          358 LTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTN  437 (915)
Q Consensus       358 ltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~  437 (915)
                      +||||+|+|||++++|+||++++|||++|+.||+|+||||+..             +||||+||+|++++||++|||||+
T Consensus       264 ~tR~a~alreV~L~~gepp~~~gypP~~fS~l~~llERag~~~-------------~GSITai~tVl~~gdD~~dpi~d~  330 (442)
T PRK06315        264 VTRFARALREVGLAAGEPPARAGYTPSVFSTLPKLLERSGASD-------------KGTITAFYTVLVAGDDMNEPVADE  330 (442)
T ss_pred             HHHHHHHHHHhCcCCCCCccccCCCCchhhHhHHHHHHhcCCC-------------CcceeeeEEEEecCCCCCcccHHH
Confidence            9999999999999999999999999999999999999999852             799999999999999999999999


Q ss_pred             cccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCHHHHHHH
Q psy210          438 VISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDIVTKTQL  514 (915)
Q Consensus       438 ~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~~~~~~L  514 (915)
                      +++|+||||+|||+||++||||||||+.|+||+|+.++.++|++++.++|+.|++|+|+|+|+++|.   ++|+++|+++
T Consensus       331 ~~~i~dg~ivLsr~la~~g~~Paidv~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~e~li~~g~y~~g~d~~~d~ai  410 (442)
T PRK06315        331 VKSILDGHIVLSNALAQAYHYPAIDVLASISRLLTAIVPEEQRRIIGKAREVLAKYKANEMLIRIGEYRRGSDREVDFAI  410 (442)
T ss_pred             hhhhcceEEEEeccHHHcCCCCCccchhhhcccchhcCCHHHHHHHHHHHHHHHhhhhhHHHHHhcCCcCCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999995   9999999999


Q ss_pred             HhHHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          515 YNGEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       515 ~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      +++++|++||+|+.+|+.++++++..|..+
T Consensus       411 ~~~~~i~~fL~Q~~~e~~~~~~~~~~l~~~  440 (442)
T PRK06315        411 DHIDKLNRFLKQDIHEKTNYEEAAQQLRAI  440 (442)
T ss_pred             HHHHHHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999988754

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=100.00  E-value=7.4e-80  Score=659.40  Aligned_cols=271  Identities=26%  Similarity=0.372  Sum_probs=257.1

Q ss_pred             cceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCC
Q psy210          189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQT  268 (915)
Q Consensus       189 ~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~  268 (915)
                      ++++|+++++||||+|++|+|||+++++...++|+++.++||+++|..+++||+||||+||.|+|||||||++|||++|+
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            47899999999999999999999998877777899999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHhhc-CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhc
Q psy210          269 GKTTIAIDTIINQK-NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL  347 (915)
Q Consensus       269 GKt~l~l~~i~~~~-~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~  347 (915)
                      |||+|+.+++.+++ +.+..|||++||||++|+.+|++++++.++++||++|++++|+||.+|+++||+|+|+||||||+
T Consensus        81 GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~  160 (274)
T cd01133          81 GKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVALTGLTMAEYFRDE  160 (274)
T ss_pred             ChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHh
Confidence            99999655555543 33345999999999999999999999999999999999999999999999999999999999998


Q ss_pred             -CCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEec
Q psy210          348 -GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL  426 (915)
Q Consensus       348 -g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~  426 (915)
                       |+|||+++|||||||+|+||||+++||||+++||||++|+.|++|+||||+.             ++||||++|+|++|
T Consensus       161 ~g~~Vl~~~Dsltr~a~A~reis~~~ge~p~~~gyp~~~f~~~~~l~ERag~~-------------~~GSiT~~~~v~~~  227 (274)
T cd01133         161 EGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGALQERITST-------------KKGSITSVQAVYVP  227 (274)
T ss_pred             cCCeEEEEEeChhHHHHHHHHHHHHcCCCCCCcCcCccHHHHHHHHHHHhcCC-------------CCcccceEEEEEec
Confidence             9999999999999999999999999999999999999999999999999973             17999999999999


Q ss_pred             CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccc
Q psy210          427 EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGG  472 (915)
Q Consensus       427 ~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~  472 (915)
                      +||++|||||++++|+||||+|||+||++||||||||+.|+||+|.
T Consensus       228 ~dD~~dpi~~~~~~i~dg~ivLsr~la~~g~~PAId~~~S~SR~~~  273 (274)
T cd01133         228 ADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRILD  273 (274)
T ss_pred             CCCCCCchHHHHHHhcceEEEEcHHHHhCCCCCCcCCccchhcccC
Confidence            9999999999999999999999999999999999999999999985

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.

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=100.00  E-value=2.7e-78  Score=664.50  Aligned_cols=298  Identities=34%  Similarity=0.586  Sum_probs=287.8

Q ss_pred             cccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCC
Q psy210          614 PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGV  693 (915)
Q Consensus       614 ~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~  693 (915)
                      ++++|||+++||||+|++|+|||+.+++...+++|++..+|++++|.++++++.||+++||.++|+++|||++|||++|+
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            46899999999999999999999998876677899999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC
Q psy210          694 GKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS  773 (915)
Q Consensus       694 GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~  773 (915)
                      |||+|+.+|+++..   ++++++++||||++|+++|+++..+.+.++||+||++|+|+||.+|++++++|+++||||||+
T Consensus        81 GKTtLl~~Ia~~~~---~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~~a~~~AEyfr~~  157 (326)
T cd01136          81 GKSTLLGMIARGTT---ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRDQ  157 (326)
T ss_pred             ChHHHHHHHhCCCC---CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHHHHHHHHHHHHHc
Confidence            99999998887643   578999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCccccccc
Q psy210          774 GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFT  853 (915)
Q Consensus       774 g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~  853 (915)
                      |||||+++||+||||+|+|||++++||+|+++||||++|++|++|+||+|+.++||||+|+||++|+||++|||++++++
T Consensus       158 g~~Vll~~Dsltr~a~A~rei~~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~GSIT~i~tv~~~gdd~~dpi~~~~~~  237 (326)
T cd01136         158 GKDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAGNSDKGSITAFYTVLVEGDDLNEPIADAVRS  237 (326)
T ss_pred             CCCeEEEeccchHHHHHHHHHHHhcCCCCCcCCcChHHHHHhHHHHHHhcCCCCCCeeeeeeeeecCCCCCcchHHhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          854 HLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       854 i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ++||||+|||+||++||||||||+.|+||+| +.+++++|+++++++|++|++|+|+|++++
T Consensus       238 ~~dg~ivL~r~la~~g~~PAid~~~S~SR~~-~~~~~~~~~~~a~~~r~~l~~y~e~~~~i~  298 (326)
T cd01136         238 ILDGHIVLSRALAAAGHYPAIDVLKSISRLM-NAVVTPEHKEAARKLRELLSAYQEVEDLIR  298 (326)
T ss_pred             ccceEEEEcCcHHHcCCCCCcccccccccCc-cccCCHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            9999999999999999999999999999999 578999999999999999999999999863

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.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=6.8e-78  Score=680.91  Aligned_cols=328  Identities=31%  Similarity=0.430  Sum_probs=312.4

Q ss_pred             hhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIF  661 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~  661 (915)
                      .+..++++.+.+++|++++||+.|++|..+++++++|||+++||||+|++|+|+|+++++...+++|++.++|++++|..
T Consensus        56 eV~~~~~~~~~~~~~~~~~gi~~g~~v~~~~~~~~v~vg~~~lGrV~d~~G~piD~~~~~~~~~~~~i~~~~~~~~~r~~  135 (432)
T PRK06793         56 EVIAIEKENNMLLPFEQTEKVCYGDSVTLIAEDVVIPRGNHLLGKVLSANGEVLNEEAENIPLQKIKLDAPPIHAFEREE  135 (432)
T ss_pred             EEEEecCCcEEEEEccCccCCCCCCEEEECCCccEEEcCHhhccCEECcCCccCCCCCCCCCcccccccCCCCCchheec
Confidence            34689999999999999999999999999999999999999999999999999999877655567899999999999999


Q ss_pred             ccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcccc
Q psy210          662 NNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDK  741 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~  741 (915)
                      +++++.||+++||.++|+++|||++|||++|+|||+|+.+|+++..   ++..++++||||++|++||++...++..++|
T Consensus       136 i~~~l~TGiraID~ll~I~~Gqri~I~G~sG~GKTtLl~~Ia~~~~---~~~gvI~~iGerg~ev~e~~~~~l~~~gl~~  212 (432)
T PRK06793        136 ITDVFETGIKSIDSMLTIGIGQKIGIFAGSGVGKSTLLGMIAKNAK---ADINVISLVGERGREVKDFIRKELGEEGMRK  212 (432)
T ss_pred             hhhccCCCCEEEeccceecCCcEEEEECCCCCChHHHHHHHhccCC---CCeEEEEeCCCCcccHHHHHHHHhhhcccce
Confidence            9999999999999999999999999999999999999999998763   5778899999999999999985444434999


Q ss_pred             EEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHH
Q psy210          742 VSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER  821 (915)
Q Consensus       742 ~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ER  821 (915)
                      +++|++|+|+|+.+|++++++|+++||||||+|+|||+++||+||||+|+|||++++||+|+. |||+++|+.|++|+||
T Consensus       213 tvvv~~tsd~s~~~r~ra~~~a~~iAEyfr~~G~~VLlilDslTr~a~A~reisl~~~e~p~~-G~~~~~~s~l~~L~ER  291 (432)
T PRK06793        213 SVVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFADARRSVDIAVKELPIG-GKTLLMESYMKKLLER  291 (432)
T ss_pred             eEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEecchHHHHHHHHHHHHHhcCCCCC-CeeeeeeccchhHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999996 9999999999999999


Q ss_pred             hcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHH
Q psy210          822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVK  901 (915)
Q Consensus       822 ag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r  901 (915)
                      +|+.++||||++|||++|+||++|||+|++++||||||||||+||++||||||||+.|+||+|+ .+++++|+++++++|
T Consensus       292 ag~~~~GSiT~~~tvlv~~dD~~dpI~d~~~si~DG~ivLsr~la~~g~~PAIDv~~S~SR~~~-~~~~~~~~~~a~~~r  370 (432)
T PRK06793        292 SGKTQKGSITGIYTVLVDGDDLNGPVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIME-EIVSPNHWQLANEMR  370 (432)
T ss_pred             hccCCCcceEEEEEEEecCCCCCCcchHHhhhhcceEEEEcHHHHhCCCCCccCCCcccCcCcc-ccCCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999995 899999999999999


Q ss_pred             HHHHccHhhhhcc
Q psy210          902 FYLQKYKELKDTS  914 (915)
Q Consensus       902 ~~l~~~~e~~~~~  914 (915)
                      ++|++|+|+|++.
T Consensus       371 ~~la~y~e~e~~i  383 (432)
T PRK06793        371 KILSIYKENELYF  383 (432)
T ss_pred             HHHHhChHHHHHH
Confidence            9999999999985

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

Probab=100.00  E-value=2.9e-78  Score=660.25  Aligned_cols=340  Identities=27%  Similarity=0.408  Sum_probs=327.0

Q ss_pred             cccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCC
Q psy210          574 KNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLP  653 (915)
Q Consensus       574 ~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~  653 (915)
                      ++.+.+..++++++++.|.++.+++...|+.||.|+.||+.++||||++++|||+|++|+|+|+++++......|++..+
T Consensus        54 ef~~~v~G~alnle~d~VG~vi~g~~~~i~eG~~v~~Tg~i~~Vpvg~~llGRVVn~lG~pidgkg~i~~~~~~~~e~~A  133 (504)
T COG0056          54 EFPGGVKGMALNLEEDSVGAVILGDYSDIKEGDEVKRTGRILEVPVGEELLGRVVDALGNPIDGKGPIDATKTRPVEKKA  133 (504)
T ss_pred             EecCCcEEEEEeccccceeEEEecCCccccCCcEEEeeCceEEEecchhhcceeecCCCCccCCCCCccccccCcccccc
Confidence            34455678899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHh
Q psy210          654 PKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM  733 (915)
Q Consensus       654 p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~  733 (915)
                      |..++|++++||++|||++||+|.|||||||.+|+|+++||||+++.+.+.|++. ..-.||||+||++...++.+++.|
T Consensus       134 pgv~~RksV~ePlqTGikaIDamiPIGRGQRELIIGDRQTGKTaIAidtIiNQk~-~~v~CIYVAIGQK~stva~vv~tL  212 (504)
T COG0056         134 PGVMDRKSVNEPLQTGIKAIDALIPIGRGQRELIIGDRQTGKTAIAIDTIINQKG-SGVKCIYVAIGQKRSTVANVVRTL  212 (504)
T ss_pred             CceecccccCchhhhhhHHHhhhcccCCCceEEEeccCcCCcchhhHHHHHhccc-CCcEEEEEEcccchHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999974 345799999999999999999999


Q ss_pred             hhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhH
Q psy210          734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE  813 (915)
Q Consensus       734 ~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~  813 (915)
                      +++|+|++|+||++++++|+..+|++||++|++||||+++|+|||+++||+|++|.||||||+++++||+|+.||+++|+
T Consensus       213 ~e~gAmdyTiVV~AsASd~a~lqYLaPy~g~a~aE~f~~~G~dvLIVyDDLsKhA~AYReiSLLlrRPPGREAyPGDVFY  292 (504)
T COG0056         213 EEHGAMDYTIVVAASASDSAPLQYLAPYAGCAMAEYFRDNGKDVLIVYDDLSKHAVAYREISLLLRRPPGREAYPGDVFY  292 (504)
T ss_pred             HHcCCccceEEEEecCCcchhhhhhhhhhhhHHHHHHHhcCCeEEEEecCchHHHHHHHHHHHHhcCCCCccCCCCceee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCC
Q psy210          814 EMGKLQERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIV  889 (915)
Q Consensus       814 ~l~~l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~  889 (915)
                      .|++|+|||++.    ++||||++|++.+.++|++.+||+|+.|||||||+|+.+|+++|+.||||+..|+||+.+ ..+
T Consensus       293 lHSrLLERAakl~~e~g~GSiTALPIIETqagDvSAyIpTNVISITDGQIfl~t~LFn~G~rPAInvGlSVSRvGs-sAQ  371 (504)
T COG0056         293 LHSRLLERAAKLSDELGGGSITALPIIETQAGDVSAYIPTNVISITDGQIFLETDLFNAGIRPAINVGLSVSRVGS-AAQ  371 (504)
T ss_pred             hhHHHHHHHHhhccccCCCceEeeeeEEeccCceeeecccceEEecCCcEEeehhhhhcCCCccccCCceeeccch-HHH
Confidence            999999999963    679999999999999999999999999999999999999999999999999999999985 456


Q ss_pred             CHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          890 GEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       890 ~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      .+..++++..+|..|++|+|++.+||
T Consensus       372 ~kamkkvag~lrl~laqYrel~afsq  397 (504)
T COG0056         372 IKAMKKVAGSLRLILAQYRELEAFSQ  397 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            68899999999999999999999986

>KOG1351|consensus

Probab=100.00  E-value=7.5e-77  Score=615.11  Aligned_cols=423  Identities=24%  Similarity=0.329  Sum_probs=391.8

Q ss_pred             eecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhcccccccc-CCCcccccCccceeccccccceeEeCC
Q psy210          127 DYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLT-QGQKCFCTEKIFEIPVGFELLGRIVNS  205 (915)
Q Consensus       127 ~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~-~G~~V~~tg~~~~vpvg~~lLGrviD~  205 (915)
                      |-+.-..+++.+++...+|..+.|||..+.|  +-+    ++++|+++.|+. ..+.|.+||+.+..|++++||||++|+
T Consensus        38 d~vkfp~y~eiv~ltlpdgt~r~gqvlev~g--~ka----vvqvfegtsgid~k~t~~eftg~~lr~pvsedmlgrifng  111 (489)
T KOG1351|consen   38 DKVKFPKYAEIVNLTLPDGSVRSGQVLEVSG--EKA----VVQVFEGTSGIDAKKTTVEFTGEILRTPVSEDMLGRIFNG  111 (489)
T ss_pred             ecccccchhhheEEecCCCCeecceEEEecC--Cee----EEEEeccccccccccceEEEecccccccccHHHhhhhhcC
Confidence            3344346889999999999999999999999  444    678999999998 778999999999999999999999999


Q ss_pred             CceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc---
Q psy210          206 KGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK---  282 (915)
Q Consensus       206 lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~---  282 (915)
                      .|+|||.++++.++.+.++++.|+||..|.++.|.++|||.+||.|+.|.||||++||+.+|..+..+| ..|++|.   
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            999999999999999999999999999999999999999999999999999999999999999999995 4566653   


Q ss_pred             -----------CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH-hcCCc
Q psy210          283 -----------NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQD  350 (915)
Q Consensus       283 -----------~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r-~~g~~  350 (915)
                                 ..|+.+||+++|-.-+..++|.++|++.|.|++++++.+.++||..+|..+|..|+|.||||+ .+++|
T Consensus       191 k~~~k~~~d~~~dnfaivfaamgvnmetarffk~dfeengsm~~v~lflnlandptieriitprlalt~aeflayq~ekh  270 (489)
T KOG1351|consen  191 KRPEKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKH  270 (489)
T ss_pred             ccCCcccccccccceeeeehhhcccHHHHHHHHhhHHhcCCccceEEEEecCCCCchhhhcchhhhHhHHHHHHHhhcCe
Confidence                       247889999999999999999999999999999999999999999999999999999999999 58999


Q ss_pred             EEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCC
Q psy210          351 CLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDV  430 (915)
Q Consensus       351 Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~  430 (915)
                      ||+|+.||+.||+|+||+|.+..|.|||+||||+||.++|.+|||||++++   +        +||||++|+++||.||+
T Consensus       271 vlviltdmssya~alrevsaareevpgrrg~pgymytdlatiyeragrveg---r--------~gsitqipiltmpnddi  339 (489)
T KOG1351|consen  271 VLVILTDMSSYADALREVSAAREEVPGRRGYPGYMYTDLATIYERAGRVEG---R--------NGSITQIPILTMPNDDI  339 (489)
T ss_pred             EEEEEeccHHHHHHHHHHHHhhhhCCCcCCCCceehhhHHHHHHHhccccc---C--------CCceeeeeeEecCCccc
Confidence            999999999999999999999999999999999999999999999999975   4        89999999999999999


Q ss_pred             CCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc-----ccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-
Q psy210          431 TSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-----QYKIVKKLSGDIRIMLAQYRELESFSKF-S-  503 (915)
Q Consensus       431 ~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-----~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-  503 (915)
                      ||||||.+++||+|||+.||+|+++.+||+||++.|+||+|.++     ..++|.++++|+++.|+-.++++.+-.. | 
T Consensus       340 thpipdltgyitegqiyvdrqlhnr~iyppinvlpslsrlmksaigegmtr~dh~dvsnqlya~yaigkdvqamkavvge  419 (489)
T KOG1351|consen  340 THPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSAIGEGMTRKDHSDVSNQLYACYAIGKDVQAMKAVVGE  419 (489)
T ss_pred             CCCCCcccceeecceEEEehhhhcccCCCCcccchhHHHHHHHHhcCCcccccchhhHHHHHHHHHhcchHHHHHHHhcc
Confidence            99999999999999999999999999999999999999999554     3599999999999999999999999765 6 


Q ss_pred             CCCCHHHHHHHHhHHHHH-HHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhh
Q psy210          504 SDLDIVTKTQLYNGEKIS-LLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRII  571 (915)
Q Consensus       504 ~~ld~~~~~~L~~~~~i~-~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~  571 (915)
                      +.|+.++..+|++-.+|+ .|+.|+.+|.+++.+++++.|    .+|...|.+-++++...+++.++.+
T Consensus       420 eals~ed~l~lefl~kfek~fi~qg~yenrtvfesldi~w----~llrifpreml~rip~~~ld~~y~r  484 (489)
T KOG1351|consen  420 EALSSEDLLYLEFLDKFEKNFISQGAYENRTVFESLDIAW----QLLRIFPREMLKRIPAKTLDEFYSR  484 (489)
T ss_pred             cccChhhhHHHHHHHHHHHHHHhcCCccchhHHHHHHHHH----HHHHHhHHHHHhhccHHHHHHhccc
Confidence            579999999999999996 699999999999999999999    5677778888888887776654443

>PRK07721 fliI flagellum-specific ATP synthase; Validated

Probab=100.00  E-value=6.6e-76  Score=670.27  Aligned_cols=332  Identities=30%  Similarity=0.484  Sum_probs=313.8

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      ...|| ..|.++.+.+++|+++.||+.|++|..+|+++++|+|+++||||+|++|+|+|+.+......++|++..+|+|+
T Consensus        55 ~~~EV-i~~~~~~~~l~~~~~~~gl~~g~~V~~tg~~~~v~vg~~llGRv~d~~G~plD~~~~~~~~~~~~i~~~~p~p~  133 (438)
T PRK07721         55 IKAEV-VGFKDEHVLLMPYTEVAEIAPGCLVEATGKPLEVKVGSGLIGQVLDALGEPLDGSALPKGLAPVSTDQDPPNPL  133 (438)
T ss_pred             EEEEE-EEEcCCEEEEEEccCccCCCCCCEEEECCCccEEEechhhcCCEECcCCCccCCCCCCCccccCCccCCCCChh
Confidence            34566 58899999999999999999999999999999999999999999999999999887544446689999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +|.+++++++||+++||.++|+++||+++|+|++|+|||+|+.+|++...   ++..++.++|||++|+.+|+++.....
T Consensus       134 ~R~~i~~~l~tg~~vid~l~~i~~Gq~i~I~G~sG~GKStLl~~I~~~~~---~~~gvI~~~Gerg~ev~e~~~~~l~~~  210 (438)
T PRK07721        134 KRPPIREPMEVGVRAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIARNTS---ADLNVIALIGERGREVREFIERDLGPE  210 (438)
T ss_pred             hccCcccccccchhhhheeeeecCCcEEEEECCCCCCHHHHHHHHhcccC---CCeEEEEEEecCCccHHHHHHhhcChh
Confidence            99999999999999999999999999999999999999999998887543   577899999999999999999755555


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      .++|+++|++|+|+||.+|++++|+|+++||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.+++
T Consensus       211 ~l~r~v~vv~~~~~~~~~r~~~~~~a~~iAEyfr~~g~~Vll~~Dsltr~A~A~rEisl~~ge~P~~~G~dp~~~~~l~~  290 (438)
T PRK07721        211 GLKRSIVVVATSDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIGLAVGEPPTTKGYTPSVFAILPK  290 (438)
T ss_pred             hhcCeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCcEEEEEeChHHHHHHHHHHHHhcCCCCccccCCHHHHHHHHH
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHH
Q psy210          818 LQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVA  897 (915)
Q Consensus       818 l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~  897 (915)
                      ++||+++.+.||||+|+||+++++|++||++|++++++||||+||++|+++||||||||+.|+||+|+ .+++++|++++
T Consensus       291 ller~~~~~~GsIT~~~TVlv~~hdm~e~i~d~v~~i~dG~Ivls~~la~~g~~PAIdv~~S~SR~~~-~~~~~~~~~~a  369 (438)
T PRK07721        291 LLERTGTNASGSITAFYTVLVDGDDMNEPIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVMN-HIVSPEHKEAA  369 (438)
T ss_pred             HHHHhcCCCCCCeeeEEEEEEECCCCCchhhhhEEEecCEEEEEeccHHHCCCCCccCCccccccccc-ccCCHHHHHHH
Confidence            99999976789999999999999999999999999999999999999999999999999999999995 79999999999


Q ss_pred             HHHHHHHHccHhhhhcc
Q psy210          898 NEVKFYLQKYKELKDTS  914 (915)
Q Consensus       898 ~~~r~~l~~~~e~~~~~  914 (915)
                      +++|++|++|+|+|++.
T Consensus       370 ~~~r~~l~~y~e~~~li  386 (438)
T PRK07721        370 NRFRELLSTYQNSEDLI  386 (438)
T ss_pred             HHHHHHHHHhHHHHHHH
Confidence            99999999999999985

>PRK06315 type III secretion system ATPase; Provisional

Probab=100.00  E-value=6.3e-76  Score=666.61  Aligned_cols=333  Identities=34%  Similarity=0.520  Sum_probs=314.3

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCC--CCCCC-CCCCCccCCCCC
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDN--KGEIN-SKKKSPIHTLPP  654 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~--~~~~~-~~~~~pi~~~~p  654 (915)
                      ...|| ..|+++.+.+++|+++.||+.|+.|+.+|+++++|+|++|||||+|++|+|+|+  ++++. ..+++|++..||
T Consensus        58 ~~~eV-v~~~~~~~~l~~~~~~~gi~~g~~V~~~g~~~~v~vg~~llGrv~d~~G~pld~~~~~~~~~~~~~~~i~~~~~  136 (442)
T PRK06315         58 LVTEV-VGFTQNFVFLSPLGELTGVSPSSEVIPTGLPLHIRAGNGLLGRVLNGLGEPIDTETKGPLENVDETYPIFRAPP  136 (442)
T ss_pred             EEEEE-EEEcCCeEEEEEccCCcCCCCCCEEEeCCCccEEEecccccCCEEeccCcccccccCCCcccccceeeeecCCC
Confidence            34455 589999999999999999999999999999999999999999999999999998  66654 335689999999


Q ss_pred             CccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhh
Q psy210          655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK  734 (915)
Q Consensus       655 ~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~  734 (915)
                      +|++|.+++++++|||++||.++|+++|||++|||++|+|||+|+.+|++++..  .++.|+++||||++|+.+|.++..
T Consensus       137 ~~~~R~~~~e~l~TGi~aID~~l~i~~Gq~i~I~G~sG~GKStLl~~I~~~~~~--~~~~vi~liGerg~ev~~~~~~~l  214 (442)
T PRK06315        137 DPLHRAKLRTILSTGVRCIDGMLTVARGQRIGIFAGAGVGKSSLLGMIARNAEE--ADVNVIALIGERGREVREFIEGDL  214 (442)
T ss_pred             ChHHcccccccccceEEEEeccccccCCcEEEEECCCCCCcchHHHHhhccccc--CCceEEEEECCCchHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999987632  366789999999999999998744


Q ss_pred             hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHH
Q psy210          735 ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE  814 (915)
Q Consensus       735 ~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~  814 (915)
                      .+..++++++|++||++||.+|+.++++++++|||||++|+|||+++||+||||+|+|||++++||||++++|||++||.
T Consensus       215 ~~~g~~~svvvvats~q~p~~rlnp~~va~~IAE~~r~~g~~Vl~~~Ds~tR~a~alreV~L~~gepp~~~gypP~~fS~  294 (442)
T PRK06315        215 GEEGMKRSVIVVSTSDQSSQLRLNAAYVGTAIAEYFRDQGKTVVLMMDSVTRFARALREVGLAAGEPPARAGYTPSVFST  294 (442)
T ss_pred             HhcCCceEEEEEeCCCCCHHHHhhHHHHHHHHHHHHHHcCCCcchhhhHHHHHHHHHHHhCcCCCCCccccCCCCchhhH
Confidence            43458899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHH
Q psy210          815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHY  894 (915)
Q Consensus       815 l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~  894 (915)
                      |++|+||||+.++||||+||||++++||++|||+|++++|+||||+|||+||++||||||||+.|+||+|+ .+++++|+
T Consensus       295 l~~llERag~~~~GSITai~tVl~~gdD~~dpi~d~~~~i~dg~ivLsr~la~~g~~Paidv~~S~SR~~~-~~~~~~~~  373 (442)
T PRK06315        295 LPKLLERSGASDKGTITAFYTVLVAGDDMNEPVADEVKSILDGHIVLSNALAQAYHYPAIDVLASISRLLT-AIVPEEQR  373 (442)
T ss_pred             hHHHHHHhcCCCCcceeeeEEEEecCCCCCcccHHHhhhhcceEEEEeccHHHcCCCCCccchhhhcccch-hcCCHHHH
Confidence            99999999998999999999999999999999999999999999999999999999999999999999994 78999999


Q ss_pred             HHHHHHHHHHHccHhhhhcc
Q psy210          895 KVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       895 ~~~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++++|++|++|+|+|+++
T Consensus       374 ~~a~~~r~~l~~y~e~e~li  393 (442)
T PRK06315        374 RIIGKAREVLAKYKANEMLI  393 (442)
T ss_pred             HHHHHHHHHHHhhhhhHHHH
Confidence            99999999999999999986

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=100.00  E-value=3.2e-74  Score=626.67  Aligned_cols=237  Identities=30%  Similarity=0.457  Sum_probs=226.9

Q ss_pred             CCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCC
Q psy210          643 SKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGER  722 (915)
Q Consensus       643 ~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer  722 (915)
                      ..+.||++.++|++ +|..+++||.||||+||+|+||+||||++|||++|+|||+|+++|+++.   +.|++||++||||
T Consensus       119 ~~~~~Pv~~~~P~~-~r~~~~~pL~TGirvID~l~Pi~kGqr~~I~G~~G~GKT~L~~~Iak~~---~~dvvVyv~iGER  194 (369)
T cd01134         119 MVQKWPVRQPRPVK-EKLPPNEPLLTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVIQQSLSKYS---NSDIVIYVGCGER  194 (369)
T ss_pred             cceeeecccCCCcc-ccCCCCCchhccchhhhccccccCCCEEEEECCCCCChHHHHHHHHhCC---CCCEEEEEEeCCC
Confidence            34679999988877 9999999999999999999999999999999999999999999999874   3689999999999


Q ss_pred             CchHHHHHHHhh-------hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhh
Q psy210          723 SREGNDFYHEMK-------ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVS  795 (915)
Q Consensus       723 ~~ev~e~~~~~~-------~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis  795 (915)
                      ++|++||+++|+       ++++|+|||+|+||||+||.+|++++|+|+|+||||||+|+|||+++||+||||+|+||||
T Consensus       195 g~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~REIs  274 (369)
T cd01134         195 GNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALREIS  274 (369)
T ss_pred             hHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHHHHH
Confidence            999999999986       3678999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCCCCCCCCcchhhHHHHHHHHHhcCC-------CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhc
Q psy210          796 AMLGRTPSAVGYQPTLAEEMGKLQERISST-------KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAEL  868 (915)
Q Consensus       796 ~~~ge~p~~~gyp~~l~~~l~~l~ERag~~-------~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~  868 (915)
                      +++||+|+++|||+|+|++|++||||||+.       ++||||++++|++++||++|||++++++|+||||+|||+||++
T Consensus       275 ~~l~E~P~~~GYP~yl~s~La~~yERAG~~~~~~~~~~~GSIT~i~~V~~~g~D~sdPV~~~t~~i~dg~i~Lsr~La~~  354 (369)
T cd01134         275 GRLEEMPGEEGYPAYLGARLASFYERAGRVKCLGSPGREGSVTIVGAVSPPGGDFSEPVTQATLRIVQVFWGLDKKLAQR  354 (369)
T ss_pred             HhcCCCCCccCcCccHHHHHHHHHHhcccccccCCCCCCccEEEEEEEEccCCCcCcchHHhhHhhcceEEEECHHHHhC
Confidence            999999999999999999999999999963       4699999999999999999999999999999999999999999


Q ss_pred             CCCccccCCCCcccc
Q psy210          869 GIYPAIDPLESYSKQ  883 (915)
Q Consensus       869 g~~PAIdv~~S~SR~  883 (915)
                      ||||||||+.|+||+
T Consensus       355 g~yPAId~l~S~Sry  369 (369)
T cd01134         355 RHFPSINWLISYSKY  369 (369)
T ss_pred             CCCCCcCCcccccCC
Confidence            999999999999995

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.

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=100.00  E-value=3e-71  Score=592.84  Aligned_cols=379  Identities=23%  Similarity=0.314  Sum_probs=352.6

Q ss_pred             ccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeecCCCccccc--ccccccccCCCCCcccccCcccc
Q psy210          165 GFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLL  242 (915)
Q Consensus       165 Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~  242 (915)
                      -|.+..++.+.|+..|+.|..||+|+++|+|+..+||++|.+|+|||+.+|+...  .+|+++.++|...+...-+|.|+
T Consensus        53 ~VR~Iam~~t~gl~rg~~v~dtg~pi~VPVG~~~lgri~nvlG~~iD~~~~~~~~~~~~~~Ih~~~p~~~e~~~~~EIle  132 (468)
T COG0055          53 VVRTIAMGSTDGLVRGLEVIDTGKPISVPVGKGTLGRIFNVLGEPIDEKGPIKAEDFEKWPIHRKAPSFEELSTKTEILE  132 (468)
T ss_pred             eEEEEEecCccCcccCcEEecCCCceEEecchhhcccchhccCCcccccCCCCccccceeeccCCCCchhhcccchhhhh
Confidence            3566677999999999999999999999999999999999999999999988865  88999999999999999999999


Q ss_pred             ccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEe
Q psy210          243 TGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAA  321 (915)
Q Consensus       243 TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~  321 (915)
                      ||||+||.|.|+.||.|+|+||++|+|||+|+++.|.|- +.++...||+++|||.||..+++.++++++++++|++|..
T Consensus       133 TGIKVIDll~P~~kGgKiGLFGGAGVGKTVl~~ELI~Nia~~h~g~SVFaGvGERtREGndLy~Em~es~vl~ktalv~g  212 (468)
T COG0055         133 TGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFG  212 (468)
T ss_pred             hCceEEEEecccccCceeeeeccCCccceeeHHHHHHHHHHHcCCeEEEEeccccccchHHHHHHHHhcCCCCceeEEEe
Confidence            999999999999999999999999999999977777764 4566678999999999999999999999999999999999


Q ss_pred             cCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhccc
Q psy210          322 TAADSAAEQYISPYTGCTIGEYFRD-LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN  400 (915)
Q Consensus       322 ~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~  400 (915)
                      .+++||..|.+.+.+|+|+|||||| +|+|||+++|++.||.+|-+|+|.++|++|+..||+|++-+....|.||-.   
T Consensus       213 QMNEpPGaR~RValtGlT~AEyfRD~~gqdVLlFIDNIfRftQAGsEVSalLGr~PSavGYQpTLatemg~lQERIt---  289 (468)
T COG0055         213 QMNEPPGARMRVALTGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERIT---  289 (468)
T ss_pred             ecCCCCcceeeehhhhhhHHHHhhcccCCeEEEEehhhhHHhhcchHHHHHhccCccccccCchhHHHHHHHHHHHh---
Confidence            9999999999999999999999997 599999999999999999999999999999999999999999999999943   


Q ss_pred             ccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccc-ccccHHH
Q psy210          401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGG-AAQYKIV  479 (915)
Q Consensus       401 ~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~-~~~~~~~  479 (915)
                                ++++||||.+++|++|.||+|||.|..+.+++|+.++|||++|+.|+||||||+.|.||... ...-++|
T Consensus       290 ----------stk~GSITSiQavyvPaDDlTDPapattFaHLDat~vLsR~ia~~GIyPAvDPL~StSr~l~p~ivGe~H  359 (468)
T COG0055         290 ----------STKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRQIAALGIYPAVDPLDSTSRALDPKIVGEEH  359 (468)
T ss_pred             ----------cCCCCceEEEEEEEeccccCCCcchhhhhhhcccceeeeHhHHhcCCCcccCcccccccccCcccccHHH
Confidence                      45589999999999999999999999999999999999999999999999999999999984 4566999


Q ss_pred             HHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHHHhHHHHHHHhhcCCCC----------CccHHHHHHHHHHHhcc
Q psy210          480 KKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQLYNGEKISLLMKQKPHE----------NYSIVELIIILLIIKNR  547 (915)
Q Consensus       480 ~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~i~~fL~Q~~~e----------~~s~ee~l~~L~ai~~G  547 (915)
                      .++|.+.++.|++|+|++|++.+ | ++|+++++..++++++|+.||.|+.+-          ..++++++.....+..|
T Consensus       360 y~va~~vq~iLqrYkeLqDIIaILGmdELseedk~~V~rArki~~FlSQpF~vAE~FTg~pG~~V~l~dti~~fk~Il~G  439 (468)
T COG0055         360 YEVAREVQSILQRYKELQDIIAILGMDELSEEDKLTVARARKIQRFLSQPFFVAEVFTGSPGKYVPLKDTIRGFKRILEG  439 (468)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhCchhcChhHHHHHHHHHHHHHHhcCcchhhheecCCCceeeeHHHHHHHHHHHhCC
Confidence            99999999999999999999985 6 799999999999999999999998753          34788888888888888


Q ss_pred             cccccchhh
Q psy210          548 FFFKIPIKQ  556 (915)
Q Consensus       548 ~Ld~vp~~e  556 (915)
                      -++.+|...
T Consensus       440 ~yd~~pE~a  448 (468)
T COG0055         440 KYDHLPEQA  448 (468)
T ss_pred             CcccCCHHH
Confidence            888887543

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=100.00  E-value=2.1e-71  Score=604.60  Aligned_cols=246  Identities=28%  Similarity=0.388  Sum_probs=232.3

Q ss_pred             ccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeecc
Q psy210          216 FLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQ  295 (915)
Q Consensus       216 ~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGe  295 (915)
                      +...++||++.++|++ +|..+++||+||||+||+|+||++|||++|||++|+|||+| +++|++|++.|+ |||++|||
T Consensus       117 ~~~~~~~Pv~~~~P~~-~r~~~~~pL~TGirvID~l~Pi~kGqr~~I~G~~G~GKT~L-~~~Iak~~~~dv-vVyv~iGE  193 (369)
T cd01134         117 ITMVQKWPVRQPRPVK-EKLPPNEPLLTGQRVLDTLFPVVKGGTAAIPGPFGCGKTVI-QQSLSKYSNSDI-VIYVGCGE  193 (369)
T ss_pred             cccceeeecccCCCcc-ccCCCCCchhccchhhhccccccCCCEEEEECCCCCChHHH-HHHHHhCCCCCE-EEEEEeCC
Confidence            3444678999999987 99999999999999999999999999999999999999999 688999999997 89999999


Q ss_pred             chhhHHHHHHHHh-------ccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHH
Q psy210          296 KISSLINVINKLK-------YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI  368 (915)
Q Consensus       296 r~~ev~~~~~~l~-------~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~rei  368 (915)
                      |++|+.+|+++|+       +.++|+||++|+||+|+|+.+|++++|+|+|+||||||+|+|||+++||+||||+|+|||
T Consensus       194 Rg~Ev~e~l~ef~~l~~~~~~~~~m~rtvlV~nts~~p~~~R~~s~yta~tiAEYfrd~G~dVll~~Ds~tR~A~A~REI  273 (369)
T cd01134         194 RGNEMTEVLEEFPELTDPVTGEPLMKRTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYNVALMADSTSRWAEALREI  273 (369)
T ss_pred             ChHHHHHHHHHHHhhccccccCCccceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcChhHHHHHHHHH
Confidence            9999999999986       467799999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEe
Q psy210          369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFL  448 (915)
Q Consensus       369 s~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~L  448 (915)
                      |++++|||+++|||+|+|+.+|++|||||+++. +|.     .+++||||++++|++|+||++|||++++++|+||||+|
T Consensus       274 s~~l~E~P~~~GYP~yl~s~La~~yERAG~~~~-~~~-----~~~~GSIT~i~~V~~~g~D~sdPV~~~t~~i~dg~i~L  347 (369)
T cd01134         274 SGRLEEMPGEEGYPAYLGARLASFYERAGRVKC-LGS-----PGREGSVTIVGAVSPPGGDFSEPVTQATLRIVQVFWGL  347 (369)
T ss_pred             HHhcCCCCCccCcCccHHHHHHHHHHhcccccc-cCC-----CCCCccEEEEEEEEccCCCcCcchHHhhHhhcceEEEE
Confidence            999999999999999999999999999999864 221     23479999999999999999999999999999999999


Q ss_pred             ehhhhhcCCCCeeeecCCcccc
Q psy210          449 DTNLFNSNYRPAINVGLSVSRV  470 (915)
Q Consensus       449 sr~la~~g~~PaId~~~S~SR~  470 (915)
                      ||+||++||||||||+.|+||+
T Consensus       348 sr~La~~g~yPAId~l~S~Sry  369 (369)
T cd01134         348 DKKLAQRRHFPSINWLISYSKY  369 (369)
T ss_pred             CHHHHhCCCCCCcCCcccccCC
Confidence            9999999999999999999996

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=1.1e-70  Score=673.43  Aligned_cols=260  Identities=22%  Similarity=0.301  Sum_probs=238.4

Q ss_pred             HHhhcCCCeEEEEEeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCc
Q psy210          278 IINQKNKNVICIYVCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQD  350 (915)
Q Consensus       278 i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~  350 (915)
                      |++++++|+ |||++||||++|+++|++++.+       .++|+|||+|+||||+|+++|++++|+|+|+||||||+|+|
T Consensus       676 la~~~~adi-~V~~~iGERg~Ev~e~l~~~~~l~~~~~g~~~m~rtvlv~~ts~~p~~~R~~s~y~a~tiAEyfrd~G~~  754 (1017)
T PRK14698        676 LAKWSDAQV-VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYD  754 (1017)
T ss_pred             HhhccCCCE-EEEEeeccchHHHHHHHHHHHhhcccccCccccccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            334456675 8999999999999999999955       67899999999999999999999999999999999999999


Q ss_pred             EEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCC
Q psy210          351 CLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDV  430 (915)
Q Consensus       351 Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~  430 (915)
                      ||+++||+||||+|+||||+++||||+++|||||+|+.+|++|||||++.. +|+     ++++||||++++|++|+||+
T Consensus       755 Vll~~Ds~sR~A~A~REis~~l~e~P~~~gyP~~l~s~L~~~~ERaG~~~~-l~~-----~~~~GSIT~i~~V~~~g~D~  828 (1017)
T PRK14698        755 VALMADSTSRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVT-LGS-----DYRVGSVSVIGAVSPPGGDF  828 (1017)
T ss_pred             EEEEeccchHHHHHHHHHHHhcCCCCCCCCcCccHHHHHHHHHHhccCCcc-cCC-----CCCCcceEEEEEEECCCCCC
Confidence            999999999999999999999999999999999999999999999999753 222     23479999999999999999


Q ss_pred             CCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc-------ccHHHHHHHHHHHHHHHhhHHHHhhhhc-
Q psy210          431 TSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-------QYKIVKKLSGDIRIMLAQYRELESFSKF-  502 (915)
Q Consensus       431 ~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-------~~~~~~~~a~~lr~~la~~~e~e~l~~l-  502 (915)
                      +||||+++++|+||||+|||+||++||||||||+.|+||++...       ..++|.+++.+++.+|++|+|+++++++ 
T Consensus       829 s~Pv~~~~~~i~dg~i~L~~~La~~g~~PAId~l~S~Sr~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~el~~~i~l~  908 (1017)
T PRK14698        829 SEPVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNVDPEWKAMRDKAMELLQKEAELQEIVRIV  908 (1017)
T ss_pred             CCcHHHHHHHHhCcEEecCHHHHhCCCCCCcCcccchhhhcccccchhccccCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999876       6799999999999999999999999999 


Q ss_pred             cC-CCCHHHHHHHHhHHHHH-HHhhcCCCCC----ccHHHHHHHHHHH
Q psy210          503 SS-DLDIVTKTQLYNGEKIS-LLMKQKPHEN----YSIVELIIILLII  544 (915)
Q Consensus       503 G~-~ld~~~~~~L~~~~~i~-~fL~Q~~~e~----~s~ee~l~~L~ai  544 (915)
                      |. .+++.++..+.+++.|+ .||+|+.+++    .++++++..|+.+
T Consensus       909 g~~~l~~~d~~~~~~~~~i~e~fL~Q~~~~~~d~~~~~~~~~~~l~~i  956 (1017)
T PRK14698        909 GPDALPERERAILLVARMLREDYLQQDAFDEVDTYCPPEKQVTMMRVL  956 (1017)
T ss_pred             CCCCCCHHHHHHHHHhHHHHhccCCCCCCCccccCCCHHHHHHHHHHH
Confidence            44 68888888888888885 6999999666    7999999998875

>KOG1350|consensus

Probab=100.00  E-value=1e-71  Score=582.11  Aligned_cols=337  Identities=67%  Similarity=1.050  Sum_probs=330.2

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS  657 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~  657 (915)
                      .++||.++++++.|+++.++.|+||.+|..|..+|.|+++|||++.||||+|+.|+|+|+++++....+.|+|..+|.+.
T Consensus        87 lvlEV~qhlG~n~VR~iAMdgTEGLvRG~~VlDtG~Pi~ipVG~~tLGRI~NViGePiDerGpi~s~~~~~IHaeaP~f~  166 (521)
T KOG1350|consen   87 LVLEVAQHLGENTVRTIAMDGTEGLVRGQKVLDTGYPISIPVGPETLGRIMNVIGEPIDERGPIKSKKYSPIHAEAPEFV  166 (521)
T ss_pred             eeeHHHHHhCcCeEEEEEecCchhhhcCcccccCCCceeeecCHHHHhhHHHhcCCcccccCCcccccccccccCChhHh
Confidence            68899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC
Q psy210          658 NQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN  737 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~  737 (915)
                      +-....|.|.||||++|+|.|..||.|+|+||++|+|||+|.+++++|+++.|.+..||+++|||.||..++++++.|.|
T Consensus       167 e~s~~~eIl~TGIKVvDLLAPYakGGKIGLFGGAGVGKTVlImELINNiAKaHGGySVF~GvGERTREGNDLY~EM~E~g  246 (521)
T KOG1350|consen  167 EMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMIESG  246 (521)
T ss_pred             hhcccHHHHhhcceeeeeecccccCCeeeeeccCCccceeeHHHHHHHHHHhcCCeEEeeccccccccccHHHHHHHhcC
Confidence            99888999999999999999999999999999999999999999999999999999999999999999999999999977


Q ss_pred             cc------ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcch
Q psy210          738 VL------DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPT  810 (915)
Q Consensus       738 ~~------~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~  810 (915)
                      ++      .|..+|+.++|+||..|.|++.+++|+||||||+ |.|||+++|+++||.+|..|+|.++|++|+..||+|.
T Consensus       247 VI~l~~~~SKvaLV~GQMNePPGARaRV~LTgLTvAEYFRD~egQDVLLFIDNIFRFtQAGSEVSALLGRiPSAVGYQPT  326 (521)
T KOG1350|consen  247 VINLEGETSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPT  326 (521)
T ss_pred             eeeccCCcceEEEEeeccCCCCCceeeeeeecccHHHHhhccccceEEEeehhhhhhhccchHHHHHhccCccccccCcc
Confidence            64      5789999999999999999999999999999998 9999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCC
Q psy210          811 LAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVG  890 (915)
Q Consensus       811 l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~  890 (915)
                      +..++..+.||...+++||||++++|++|+||.+||.|..+|+++|.+-||||.+++.|+|||+|++.|.||+|+|.++|
T Consensus       327 LaTdMG~mQERITtTkkGSiTSvQAvYVPADDLtDPaPattFaHLDAttVLSR~iaelgIYPAVDPLDStSrimdp~ivG  406 (521)
T KOG1350|consen  327 LATDMGTMQERITTTKKGSITSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGIAELGIYPAVDPLDSTSRIMDPNIVG  406 (521)
T ss_pred             cccchhhhhHhhhccccCceeEEEEEEeehhccCCCCccceeeccchhhhhhhhhHhcCCccccCCccccccccCccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHccHhhhhcc
Q psy210          891 EEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       891 ~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      ++|+.+|+.++++|+.|++|+||.
T Consensus       407 ~eHY~vA~~Vqk~LQ~YKsLQDII  430 (521)
T KOG1350|consen  407 EEHYNVARGVQKTLQDYKSLQDII  430 (521)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999974

>PRK12608 transcription termination factor Rho; Provisional

Probab=100.00  E-value=1.1e-69  Score=599.60  Aligned_cols=325  Identities=19%  Similarity=0.256  Sum_probs=301.3

Q ss_pred             HHHHhhhcccccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCC
Q psy210          565 IKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSK  644 (915)
Q Consensus       565 i~~Lr~~~~~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~  644 (915)
                      .+|||..+.++.....+++  +..++++-      .||+.||.|..++++   ++++.+||||+|++|+|+|+..    .
T Consensus        30 ~gflr~~~~~~~~~~~d~y--v~~~~i~~------~~l~~Gd~V~~~~r~---~~~~~~LgrV~~~~G~p~d~~~----~   94 (380)
T PRK12608         30 FGFLRSARRNYLPSPDDVF--VPPALIRR------FNLRTGDVVEGVARP---RERYRVLVRVDSVNGTDPEKLA----R   94 (380)
T ss_pred             ceEeecCccCCCCCCCCee--eCHHHHHH------hCCCCCCEEEeccCC---CCChhheEEEeccCCcCchhcc----c
Confidence            4678888788888888887  77777774      489999999999988   9999999999999999999763    2


Q ss_pred             CCCccCCCCCCccccccccccc-cccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEEEecCC
Q psy210          645 KKSPIHTLPPKFSNQIFNNNIL-ETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFIGVGER  722 (915)
Q Consensus       645 ~~~pi~~~~p~~~~r~~~~e~l-~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~~iGer  722 (915)
                      ..++....|++|.+|.++.++. .+|+|+||+|+|||||||++|+|++|+|||+|++++++++.++++++ +++++||||
T Consensus        95 ~~~~~~~~pi~p~~R~~ie~~~~~~~~RvID~l~PiGkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER  174 (380)
T PRK12608         95 RPHFDDLTPLHPRERLRLETGSDDLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDER  174 (380)
T ss_pred             ccCcCcCCCCCccccccccccCcchhHhhhhheeecCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCC
Confidence            3345666777899999998888 99999999999999999999999999999999999999998888887 588899999


Q ss_pred             CchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCC
Q psy210          723 SREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTP  802 (915)
Q Consensus       723 ~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p  802 (915)
                      ++|++||++.+..       +++++++|+|+..|.+++++++++||||+++|+||+|++||+||||+||||+++++||+|
T Consensus       175 ~~EV~df~~~i~~-------~Vvast~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A~A~rei~~~~G~~~  247 (380)
T PRK12608        175 PEEVTDMRRSVKG-------EVYASTFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNEVESSGRTL  247 (380)
T ss_pred             CCCHHHHHHHHhh-------hEEeecCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHHHHHHHhhhcccCCCC
Confidence            9999999999853       688999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcchhhHHHHHHHHHhcCCC-CCceeEEEEEEec-CCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCc
Q psy210          803 SAVGYQPTLAEEMGKLQERISSTK-NGTITSVQAIYVP-ADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESY  880 (915)
Q Consensus       803 ~~~gyp~~l~~~l~~l~ERag~~~-~GSiT~i~~v~~~-~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~  880 (915)
                      + +||||++|+.+++|+||||+.+ +||||+|+||+++ ++|++|||.+++++++||||||||+||++|||||||+++|.
T Consensus       248 s-~G~~~s~~~~~~rl~~~A~~~~~~GSiT~i~TvLvetg~~mdd~I~ee~kg~~dg~ivLsR~lA~~~~fPAIDi~~S~  326 (380)
T PRK12608        248 S-GGVDARALQRPKRLFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKRVFPAIDIAKSG  326 (380)
T ss_pred             C-CCcChHHHhhhHHHHHhcCCCCCCcchhheEEEEEecCCCCCcchHHHhcccCCCeEEECHHHHhCCCCCccCccccc
Confidence            9 8999999999999999999865 8999999999999 78889999999999999999999999999999999999999


Q ss_pred             ccccCCCCCCHHHHHHHHHHHHHHHccHhhhhc
Q psy210          881 SKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT  913 (915)
Q Consensus       881 SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~  913 (915)
                      ||+| +.+++++|++.++++|++|+.|++.|.+
T Consensus       327 sR~~-~~l~~~~~~~~~~~~R~~l~~~~~~e~~  358 (380)
T PRK12608        327 TRRE-ELLLDSKELEKVRRLRRALASRKPVEAM  358 (380)
T ss_pred             Ccch-hhcCCHHHHHHHHHHHHHHHccCHHHHH
Confidence            9999 5899999999999999999999999865

>PRK14698 V-type ATP synthase subunit A; Provisional

Probab=100.00  E-value=1.2e-69  Score=664.16  Aligned_cols=205  Identities=29%  Similarity=0.443  Sum_probs=197.2

Q ss_pred             CCcEEEEEEecCCCchHHHHHHHhhh-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEec
Q psy210          710 HKGCSVFIGVGERSREGNDFYHEMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFID  782 (915)
Q Consensus       710 ~~~~~v~~~iGer~~ev~e~~~~~~~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~D  782 (915)
                      ++|+|||++||||++||+||++++.+       .+.|+|||+|+||||+||.+|++++|+|+|+||||||+|+|||+++|
T Consensus       681 ~adi~V~~~iGERg~Ev~e~l~~~~~l~~~~~g~~~m~rtvlv~~ts~~p~~~R~~s~y~a~tiAEyfrd~G~~Vll~~D  760 (1017)
T PRK14698        681 DAQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMAD  760 (1017)
T ss_pred             CCCEEEEEeeccchHHHHHHHHHHHhhcccccCccccccEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEec
Confidence            45899999999999999999999954       78899999999999999999999999999999999999999999999


Q ss_pred             chhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC-------CCCceeEEEEEEecCCCCCCCccccccccc
Q psy210          783 NIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-------KNGTITSVQAIYVPADDLTDPSPSTTFTHL  855 (915)
Q Consensus       783 s~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~-------~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~  855 (915)
                      |+||||+|+||||+++||||+++|||||||+.|++||||||+.       ++||||++++|++|+||++|||++++++|+
T Consensus       761 s~sR~A~A~REis~~l~e~P~~~gyP~~l~s~L~~~~ERaG~~~~l~~~~~~GSIT~i~~V~~~g~D~s~Pv~~~~~~i~  840 (1017)
T PRK14698        761 STSRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVV  840 (1017)
T ss_pred             cchHHHHHHHHHHHhcCCCCCCCCcCccHHHHHHHHHHhccCCcccCCCCCCcceEEEEEEECCCCCCCCcHHHHHHHHh
Confidence            9999999999999999999999999999999999999999973       579999999999999999999999999999


Q ss_pred             CcEEEeeHHHHhcCCCccccCCCCcccccCCCC-------CCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          856 DSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI-------VGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       856 dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~-------~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ||||+|||+||++||||||||+.|+||+|+ .+       ++++|.+++++++++|++|+|+++|++
T Consensus       841 dg~i~L~~~La~~g~~PAId~l~S~Sr~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~el~~~i~  906 (1017)
T PRK14698        841 KVFWALDADLARRRHFPAINWLTSYSLYVD-AVKDWWHKNVDPEWKAMRDKAMELLQKEAELQEIVR  906 (1017)
T ss_pred             CcEEecCHHHHhCCCCCCcCcccchhhhcc-cccchhccccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999995 44       689999999999999999999999874

>COG1156 NtpB Archaeal/vacuolar-type H+-ATPase subunit B [Energy production and conversion]

Probab=100.00  E-value=2e-67  Score=569.04  Aligned_cols=331  Identities=27%  Similarity=0.433  Sum_probs=314.4

Q ss_pred             hhccccceeeeccccCccCcccCCe-EEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccccc
Q psy210          583 QQQIGENIVRTIAFGNTNGIKRNTI-VVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIF  661 (915)
Q Consensus       583 ~~~l~~~~v~l~~~~~~~gl~~G~~-V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~  661 (915)
                      +..++.+.+.+++|+.|.||...+. |+++|+++++|+++++|||++|+.|+|||+++.+..+++.++.+.|.||..|..
T Consensus        46 Vle~~~~~a~vQVfegT~Gl~~~~t~vrF~g~~l~i~vs~dllGRifnG~G~PiDggp~i~~e~~~dI~g~~~NP~aR~y  125 (463)
T COG1156          46 VLEVRGDKAVVQVFEGTSGLDTKGTTVRFTGETLKIPVSEDLLGRIFNGSGKPIDGGPEIVPEDRLDINGAPINPYARIY  125 (463)
T ss_pred             EeeccCceEEEEEeecccCCCCCCceEEEeCceEEEeecHHhhhhhhcCCCCcCCCCCcCCCCcccccCCCCCCchhhhC
Confidence            3567889999999999999998777 999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcC---CcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          662 NNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH---KGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~---~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      +.++++|||++||+|+++.||||.+||+++|.+++.|+.+|+++.....   .-.+||+++|-..+|...|.+++++.|+
T Consensus       126 P~efIqTgIsaIDg~NtLvrgQKlPIFSgSGlphN~LaaqIarQA~v~~~~e~favVfaamGit~eea~fF~~~fe~tGa  205 (463)
T COG1156         126 PEEFIQTGISAIDGMNTLVRGQKLPIFSGSGLPHNELAAQIARQATVDGEEEEFAVVFAAMGITHEEALFFMDEFEETGA  205 (463)
T ss_pred             hhhHhhcCccHHhhhhhhhcccccccccCCCCchHHHHHHHHHhcccCCCccceeEEEeecCccHHHHHHHHHHHHhhhh
Confidence            9999999999999999999999999999999999999999999754321   1258999999999999999999999999


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      ++|+++|.|.+|+|+.+|+.+|.+|+|.||||+.+ ++|||+++.|||.||+|+||||.+.+|.|+++|||+|+|++|+.
T Consensus       206 l~r~vlflnlA~dp~vEri~tPr~aLt~AEylA~e~~~hVLVilTDMTnyceALREIsaareeVPgrRGYPGymYTdLat  285 (463)
T COG1156         206 LDRAVLFLNLADDPAVERIITPRMALTVAEYLAFEKDMHVLVILTDMTNYCEALREISAAREEVPGRRGYPGYMYTDLAT  285 (463)
T ss_pred             hhhhHhhhhccCCCceeEecchhHHHHHHHHHhccCCceEEEEEcchhHHHHHHHHHHhhhccCCCcCCCcchHHHHHHH
Confidence            99999999999999999999999999999999987 89999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCC-----
Q psy210          818 LQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVG-----  890 (915)
Q Consensus       818 l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~-----  890 (915)
                      +|||||+.  ++||||.+++.++|+||+||||||+|.+||+|||+|||+|+++|+||+||++.|+||+|+ ..+|     
T Consensus       286 iYErAg~i~g~~GSiTqipIlTMP~DDITHPIPDlTGYITEGQivl~r~l~~~gIyPpi~vlpSLSRL~~-~giG~g~TR  364 (463)
T COG1156         286 IYERAGRIRGRKGSITQIPILTMPGDDITHPIPDLTGYITEGQIVLSRDLHRKGIYPPINVLPSLSRLMK-DGIGEGKTR  364 (463)
T ss_pred             HHHhhceeccCCCceEEEEeeecCCCCcCCCCCcccceeccceEEEEhhcccCCcCCCccccccHHHHhh-cccCCCccc
Confidence            99999974  589999999999999999999999999999999999999999999999999999999995 5555     


Q ss_pred             HHHHHHHHHHHHHHHccHhhhhcc
Q psy210          891 EEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       891 ~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      ++|.++++++.+.|++.++++++.
T Consensus       365 eDH~~~snql~a~YA~g~d~r~l~  388 (463)
T COG1156         365 EDHGDVSNQLYAAYAEGRDLRELV  388 (463)
T ss_pred             cccHHHHHHHHHHHhcchhHHHHH
Confidence            589999999999999999998864

>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=8.3e-66  Score=537.50  Aligned_cols=211  Identities=45%  Similarity=0.754  Sum_probs=202.6

Q ss_pred             ccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEE
Q psy210          668 TGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYG  747 (915)
Q Consensus       668 TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~  747 (915)
                      ||||+||+|+|||||||++|||++|+|||+|+++|++++.   .|++||++||||++|++||+++++++++++||++|++
T Consensus         1 TGir~ID~l~Pig~Gqr~~I~g~~g~GKt~Ll~~i~~~~~---~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~   77 (215)
T PF00006_consen    1 TGIRAIDLLFPIGRGQRIGIFGGAGVGKTVLLQEIANNQD---ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAA   77 (215)
T ss_dssp             -SHHHHHHHSCEETTSEEEEEESTTSSHHHHHHHHHHHCT---TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEE
T ss_pred             CCCceeccccccccCCEEEEEcCcccccchhhHHHHhccc---ccceeeeeccccchhHHHHHHHHhhcccccccccccc
Confidence            8999999999999999999999999999999999999975   4788999999999999999999999999999999999


Q ss_pred             cCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC--
Q psy210          748 QMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST--  825 (915)
Q Consensus       748 t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~--  825 (915)
                      |+|+||.+|++++++|+++||||||+|||||+++||+||||+|+|||++++||+|+++|||+++|+.+++|+||+|+.  
T Consensus        78 t~~~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dsltr~a~A~reis~~~g~~p~~~Gyp~~~~~~l~~l~ERag~~~~  157 (215)
T PF00006_consen   78 TSDEPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLTRWAQAYREISLLLGEPPGREGYPPSLFSDLASLYERAGKVNS  157 (215)
T ss_dssp             ETTS-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHHHHHHHHHHHHHHTTSSBBGGGSBTTHHHHHHHHHTTSEEBST
T ss_pred             cchhhHHHHhhhhccchhhhHHHhhcCCceeehhhhhHHHHHHHHhhhcccccccccccccchhccchhhHHHHhhcccc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999987  


Q ss_pred             --CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcc
Q psy210          826 --KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS  881 (915)
Q Consensus       826 --~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~S  881 (915)
                        ++||||++++|++|+||++|||++++++++||||+|||+||++||||||||++|+|
T Consensus       158 ~~~~GSIT~~~~v~~~~~d~~~pi~~~~~~~~dg~i~L~r~la~~~~~PAId~~~S~S  215 (215)
T PF00006_consen  158 EEGGGSITAIPTVLVPGDDITDPIPDNTKSILDGHIVLSRKLAERGIFPAIDVLKSVS  215 (215)
T ss_dssp             TTTSEEEEEEEEEEESTTBTTSHHHHHHHTTSSEEEEB-HHHHHTT-SS-BETTTEEE
T ss_pred             ccCCceeeeecccccccccccchHHHHHHhhcceEEEeCHHHHhCCCCCccCCccCCC
Confidence              89999999999999999999999999999999999999999999999999999997

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 ....

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=100.00  E-value=1.5e-64  Score=558.30  Aligned_cols=338  Identities=17%  Similarity=0.246  Sum_probs=297.6

Q ss_pred             hcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCccc
Q psy210          545 KNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTL  624 (915)
Q Consensus       545 ~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lL  624 (915)
                      ..|+|+.++.         =.+|||....++.....+++  ++.++++-+      +|+.||.|.+.-++.+-.-...-|
T Consensus        51 ~~g~le~~~~---------g~gflr~~~~~y~~~~~d~y--vs~~~ir~~------~lr~gd~v~g~~r~~~~~e~~~~l  113 (416)
T PRK09376         51 GEGVLEILPD---------GFGFLRSPDANYLPGPDDIY--VSPSQIRRF------NLRTGDTVEGKIRPPKEGERYFAL  113 (416)
T ss_pred             EEEEEEEcCC---------CCeEEeCCCcCCCCCCCCee--eCHHHHHhc------CCCCCCEEEEEeeCCCCCCCccce
Confidence            3477765542         24678887778888888887  788888755      799999999877765433333356


Q ss_pred             ceEEcccCccCCCCCCCCCCCCCccCCCCC-Cccccccccc--cccccceeeecccccccCCeeeeccCCCCChhhHHHH
Q psy210          625 GRILNVLGDPIDNKGEINSKKKSPIHTLPP-KFSNQIFNNN--ILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME  701 (915)
Q Consensus       625 GrV~d~~G~pid~~~~~~~~~~~pi~~~~p-~~~~r~~~~e--~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~  701 (915)
                      -+|..++|.+.+.     ..++.+++..+| +|.+|..+.+  ++.||+|+||+|+|||||||++||||+|+|||||+++
T Consensus       114 ~~v~~vng~~~~~-----~~~r~~f~~l~p~~p~~R~~le~~~~~~~~~rvID~l~PIGkGQR~lIvgppGvGKTTLaK~  188 (416)
T PRK09376        114 LKVETVNGEDPEK-----ARNRPLFENLTPLYPNERLRLETGNPEDLSTRIIDLIAPIGKGQRGLIVAPPKAGKTVLLQN  188 (416)
T ss_pred             EEEeeeCCCCHHH-----hcCCCCcccCCCCChhhcccccCCCCcccceeeeeeecccccCceEEEeCCCCCChhHHHHH
Confidence            6899998887763     235566666544 5666777776  6999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCcEE-EEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEE
Q psy210          702 LIRNIAIEHKGCS-VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLF  780 (915)
Q Consensus       702 i~~~~~~~~~~~~-v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~  780 (915)
                      |++++..+|.|++ ++++||||++|++++++++.       .+||+||+|+||..|+++++.++++||||+++|+||+|+
T Consensus       189 Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIl-------g~vv~st~d~~~~~~~~~a~~~ie~Ae~~~e~G~dVlL~  261 (416)
T PRK09376        189 IANSITTNHPEVHLIVLLIDERPEEVTDMQRSVK-------GEVVASTFDEPAERHVQVAEMVIEKAKRLVEHGKDVVIL  261 (416)
T ss_pred             HHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhc-------CcEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEE
Confidence            9999887778876 55699999999999999985       379999999999999999999999999999999999999


Q ss_pred             ecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC-CCCceeEEEEEEec-CCCCCCCcccccccccCcE
Q psy210          781 IDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-KNGTITSVQAIYVP-ADDLTDPSPSTTFTHLDST  858 (915)
Q Consensus       781 ~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~-~~GSiT~i~~v~~~-~~d~~dpi~~~~~~i~dg~  858 (915)
                      +||+||||+||||+++++||+|+ +||+|+.++.+++|+|||++. ++||||+|+||+++ ++++.|||.+++.++.|||
T Consensus       262 iDsItR~arAqrev~~~sG~~~s-gG~~~~~~~~~~r~f~~Arn~e~~GSlT~i~T~LvetGs~mdd~I~ee~kg~~n~~  340 (416)
T PRK09376        262 LDSITRLARAYNTVVPSSGKVLS-GGVDANALHRPKRFFGAARNIEEGGSLTIIATALIDTGSRMDEVIFEEFKGTGNME  340 (416)
T ss_pred             EEChHHHHHHHHhhhhccCCCCC-CCCChhHhhhhHHHHHhhcCCCCCcceEEEEEEEecCCCCCCccHHHHHhhhcCce
Confidence            99999999999999999999999 899999999999999999986 79999999999999 7778899999999999999


Q ss_pred             EEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccHhhhhc
Q psy210          859 IVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT  913 (915)
Q Consensus       859 ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~  913 (915)
                      |+|||+||++||||||||++|.||++ +.+++++|++.++++|++|+.|++.|.+
T Consensus       341 ivLdR~lA~~r~fPAIDi~~S~sR~~-~~l~~~~~~~~~~~lR~~l~~~~~~e~~  394 (416)
T PRK09376        341 LHLDRKLAEKRIFPAIDINRSGTRKE-ELLLSPEELQKVWILRKILSPMDEVEAM  394 (416)
T ss_pred             EeECHHHHhcCCCCccCccccccccc-cccCCHHHHHHHHHHHHHHHccCcHHHH
Confidence            99999999999999999999999998 5899999999999999999999988764

>PRK12678 transcription termination factor Rho; Provisional

Probab=100.00  E-value=1.3e-63  Score=565.34  Aligned_cols=321  Identities=21%  Similarity=0.267  Sum_probs=274.9

Q ss_pred             HHHHhhhcccccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccC------CCcccceEEcccCccCCCC
Q psy210          565 IKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPV------GDCTLGRILNVLGDPIDNK  638 (915)
Q Consensus       565 i~~Lr~~~~~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~v------g~~lLGrV~d~~G~pid~~  638 (915)
                      .+||+..  .|+....+++  +..++++-      .||+.||.|...-++.+-.-      ...-|-+|-.++|.+.+. 
T Consensus       306 ~gFlR~~--~y~~~~~Dvy--vs~~qirr------~~Lr~Gd~v~G~vr~p~~~e~~~~r~k~~~l~~v~~vNg~~~e~-  374 (672)
T PRK12678        306 YAFVRTS--GYLPGPNDVY--VSMNQVRK------NGLRKGDAVTGAVRAPREGEQGNQRQKFNPLVRLDSVNGMSPEE-  374 (672)
T ss_pred             eeEeeCC--CCCCCCCCee--eCHHHHHH------cCCCCCCEEEEeecCCCCCccccccceeeeeeeEeeeCCCChHH-
Confidence            4466653  5666667776  66666664      58999999997655433222      112556777777766653 


Q ss_pred             CCCCCCCCCccCCCCC-Ccccccccc-ccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEE-E
Q psy210          639 GEINSKKKSPIHTLPP-KFSNQIFNN-NILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCS-V  715 (915)
Q Consensus       639 ~~~~~~~~~pi~~~~p-~~~~r~~~~-e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~-v  715 (915)
                          ..++.+|+..+| +|.+|..+. +++.||+|+||+|+|||||||++||||+|+|||+||++|++++.++|+++. +
T Consensus       375 ----~~~r~~F~~Ltp~~P~~R~~le~e~~~~giRvIDll~PIGkGQR~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~i  450 (672)
T PRK12678        375 ----AKKRPEFGKLTPLYPNERLRLETEPKKLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITTNNPECHLM  450 (672)
T ss_pred             ----hccCCCcccCCCCChHHhcccccCcccccceeeeeecccccCCEeEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEE
Confidence                345666766555 556677776 799999999999999999999999999999999999999999888888874 5


Q ss_pred             EEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhh
Q psy210          716 FIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVS  795 (915)
Q Consensus       716 ~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis  795 (915)
                      |+|||||++||++|.+.+       +..||++|+|+||..|++++|+|+++||||+|+|+|||||+|||||||+||||++
T Consensus       451 vvLIgERpeEVtdm~rsV-------kgeVVasT~D~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSlTR~ArAyrev~  523 (672)
T PRK12678        451 VVLVDERPEEVTDMQRSV-------KGEVIASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSITRLGRAYNLAA  523 (672)
T ss_pred             EEEEeCchhhHHHHHHhc-------cceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCchHHHHHHHHhh
Confidence            779999999999986554       3349999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCC-----CCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEec-CCCCCCCcccccccccCcEEEeeHHHHhcC
Q psy210          796 AMLGR-----TPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVP-ADDLTDPSPSTTFTHLDSTIVLSRQIAELG  869 (915)
Q Consensus       796 ~~~ge-----~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~-~~d~~dpi~~~~~~i~dg~ivLsr~La~~g  869 (915)
                      +++|+     +|+..+|||++|+.+++++|+     +||||+|+||+++ ++++.+||.++..++.||||+|||+||++|
T Consensus       524 ~~sGr~lSGG~d~~a~ypP~~F~~~AR~iE~-----gGSLTii~TvLVETGS~mDd~Ifeefkgtgn~elvLsR~LAerr  598 (672)
T PRK12678        524 PASGRILSGGVDSTALYPPKRFFGAARNIEN-----GGSLTIIATALVETGSKMDEVIFEEFKGTGNMELKLDRKLADKR  598 (672)
T ss_pred             cCCCCccCCCCchhhccCccHHHHHHHhhcc-----CccceeeEEEEeccCCccCcchHHHHhhccCceeeECHHHHhCC
Confidence            99999     688999999999999999984     8999999999999 555668999999999999999999999999


Q ss_pred             CCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccHhhhhc
Q psy210          870 IYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT  913 (915)
Q Consensus       870 ~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~  913 (915)
                      |||||||++|+||++ ..+++++|++.++++|++|+.|...+.|
T Consensus       599 ifPAIDv~~S~SR~e-e~l~~~~e~~~~~~lRr~l~~~~~~~a~  641 (672)
T PRK12678        599 IFPAVDVNASGTRKE-ELLLSPDELAIVHKLRRVLSGLDSQQAI  641 (672)
T ss_pred             CCCccCCCcCccccc-hhhCCHHHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999 5899999999999999999999887654

>PRK12608 transcription termination factor Rho; Provisional

Probab=100.00  E-value=4.8e-63  Score=546.82  Aligned_cols=319  Identities=18%  Similarity=0.192  Sum_probs=287.9

Q ss_pred             cccccccCCCcccccCccceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccc-cccceeeec
Q psy210          172 DDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPL-LTGIKSIDS  250 (915)
Q Consensus       172 ~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l-~TGi~aiD~  250 (915)
                      -...+++.|+.|.+++++   ++++.+||||+|.+|+|+|+..    ......+..|++|.+|..+.++. .+|+|+||.
T Consensus        54 i~~~~l~~Gd~V~~~~r~---~~~~~~LgrV~~~~G~p~d~~~----~~~~~~~~~pi~p~~R~~ie~~~~~~~~RvID~  126 (380)
T PRK12608         54 IRRFNLRTGDVVEGVARP---RERYRVLVRVDSVNGTDPEKLA----RRPHFDDLTPLHPRERLRLETGSDDLSMRVVDL  126 (380)
T ss_pred             HHHhCCCCCCEEEeccCC---CCChhheEEEeccCCcCchhcc----cccCcCcCCCCCccccccccccCcchhHhhhhh
Confidence            345689999999999987   9999999999999999999873    22345677889999999999999 999999999


Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCH
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSA  327 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~  327 (915)
                      |.|||+|||++|+|++|+|||+| +.+|++.   ++.+++|+|++||||++|+.+|++.+..       +++++++|+++
T Consensus       127 l~PiGkGQR~LIvG~pGtGKTTL-l~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~-------~Vvast~de~~  198 (380)
T PRK12608        127 VAPIGKGQRGLIVAPPRAGKTVL-LQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKG-------EVYASTFDRPP  198 (380)
T ss_pred             eeecCCCceEEEECCCCCCHHHH-HHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhh-------hEEeecCCCCH
Confidence            99999999999999999999999 5666653   3458889999999999999999999853       78888999999


Q ss_pred             HHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchh
Q psy210          328 AEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK  407 (915)
Q Consensus       328 ~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~  407 (915)
                      ..+..+.++++++||||+++|+||++++||+||||+||||++++.||||+ +|||+++|+.+++|+||||++++      
T Consensus       199 ~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr~A~A~rei~~~~G~~~s-~G~~~s~~~~~~rl~~~A~~~~~------  271 (380)
T PRK12608        199 DEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNEVESSGRTLS-GGVDARALQRPKRLFGAARNIEE------  271 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHHHHHHHHhhhcccCCCCC-CCcChHHHhhhHHHHHhcCCCCC------
Confidence            99999999999999999999999999999999999999999999999999 89999999999999999999753      


Q ss_pred             hhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHH
Q psy210          408 KIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDI  486 (915)
Q Consensus       408 ~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~l  486 (915)
                            +||||+|+||+++ |+||+|||+|++++++||||+|||+||++|||||||+++|.||.+....+++|.+.++.+
T Consensus       272 ------~GSiT~i~TvLvetg~~mdd~I~ee~kg~~dg~ivLsR~lA~~~~fPAIDi~~S~sR~~~~l~~~~~~~~~~~~  345 (380)
T PRK12608        272 ------GGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKRVFPAIDIAKSGTRREELLLDSKELEKVRRL  345 (380)
T ss_pred             ------CcchhheEEEEEecCCCCCcchHHHhcccCCCeEEECHHHHhCCCCCccCcccccCcchhhcCCHHHHHHHHHH
Confidence                  7999999999999 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhc
Q psy210          487 RIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQ  526 (915)
Q Consensus       487 r~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q  526 (915)
                      |+.|+.|++.+.+-.+-        ..|++.+.-.+||++
T Consensus       346 R~~l~~~~~~e~~~~~~--------~~~~~~~~n~~~~~~  377 (380)
T PRK12608        346 RRALASRKPVEAMEALL--------EKLRETPDNAEFLNS  377 (380)
T ss_pred             HHHHHccCHHHHHHHHH--------HHHhcCCCHHHHHHh
Confidence            99999999988876443        233444444455554

>KOG1350|consensus

Probab=100.00  E-value=1e-62  Score=514.67  Aligned_cols=403  Identities=23%  Similarity=0.319  Sum_probs=355.7

Q ss_pred             hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceee
Q psy210          131 PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFI  210 (915)
Q Consensus       131 p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~Pi  210 (915)
                      |..||. |+++..+... .=+|.---|  +   ..+.+..+..+.|+..|.+|..||.|.++|+|...|||++|.+|+||
T Consensus        72 P~ilNa-Lev~~~~~~l-vlEV~qhlG--~---n~VR~iAMdgTEGLvRG~~VlDtG~Pi~ipVG~~tLGRI~NViGePi  144 (521)
T KOG1350|consen   72 PPILNA-LEVKGRDTRL-VLEVAQHLG--E---NTVRTIAMDGTEGLVRGQKVLDTGYPISIPVGPETLGRIMNVIGEPI  144 (521)
T ss_pred             cchhhc-eeecCCCcee-eeHHHHHhC--c---CeEEEEEecCchhhhcCcccccCCCceeeecCHHHHhhHHHhcCCcc
Confidence            766664 6667666551 111111112  2   23566677899999999999999999999999999999999999999


Q ss_pred             cCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh-cCCCeEEE
Q psy210          211 DNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICI  289 (915)
Q Consensus       211 D~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V  289 (915)
                      |..+|+....+.+++..+|...+-..-.|.|.||||++|.|.|..||.|+|+||++|+|||+|.++.|.|- +.++-..|
T Consensus       145 DerGpi~s~~~~~IHaeaP~f~e~s~~~eIl~TGIKVvDLLAPYakGGKIGLFGGAGVGKTVlImELINNiAKaHGGySV  224 (521)
T KOG1350|consen  145 DERGPIKSKKYSPIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSV  224 (521)
T ss_pred             cccCCcccccccccccCChhHhhhcccHHHHhhcceeeeeecccccCCeeeeeccCCccceeeHHHHHHHHHHhcCCeEE
Confidence            99999999999999999999999888889999999999999999999999999999999999976766663 56677799


Q ss_pred             EEeeccchhhHHHHHHHHhccCCc------ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEEeccchhHH
Q psy210          290 YVCIGQKISSLINVINKLKYYNCM------DYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLIIYDDLTKHA  362 (915)
Q Consensus       290 ~~~iGer~~ev~~~~~~l~~~~~~------~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~~Ddltr~a  362 (915)
                      |+++|||.||.++++.++.+.|++      ++..+|...+++||..|.+.+.+++|+|||||| .|+|||+++|++.||.
T Consensus       225 F~GvGERTREGNDLY~EM~E~gVI~l~~~~SKvaLV~GQMNePPGARaRV~LTgLTvAEYFRD~egQDVLLFIDNIFRFt  304 (521)
T KOG1350|consen  225 FAGVGERTREGNDLYHEMIESGVINLEGETSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFT  304 (521)
T ss_pred             eeccccccccccHHHHHHHhcCeeeccCCcceEEEEeeccCCCCCceeeeeeecccHHHHhhccccceEEEeehhhhhhh
Confidence            999999999999999999998874      688999999999999999999999999999997 6999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccccc
Q psy210          363 WAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISIT  442 (915)
Q Consensus       363 ~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~  442 (915)
                      +|-.|+|.++||+|+..||+|.+-.++..+.||-.             ++++||||.+++|++|.||++||.|..+.+++
T Consensus       305 QAGSEVSALLGRiPSAVGYQPTLaTdMG~mQERIT-------------tTkkGSiTSvQAvYVPADDLtDPaPattFaHL  371 (521)
T KOG1350|consen  305 QAGSEVSALLGRIPSAVGYQPTLATDMGTMQERIT-------------TTKKGSITSVQAVYVPADDLTDPAPATTFAHL  371 (521)
T ss_pred             ccchHHHHHhccCccccccCcccccchhhhhHhhh-------------ccccCceeEEEEEEeehhccCCCCccceeecc
Confidence            99999999999999999999999999999999844             44589999999999999999999999999999


Q ss_pred             CcEEEeehhhhhcCCCCeeeecCCcccccc-ccccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHHHhHHH
Q psy210          443 DGQIFLDTNLFNSNYRPAINVGLSVSRVGG-AAQYKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQLYNGEK  519 (915)
Q Consensus       443 dgqi~Lsr~la~~g~~PaId~~~S~SR~~~-~~~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~  519 (915)
                      |..-+|||.+++.|+|||+||+.|.||+|. .+.-++|+.+|..+.+.|+.|+.+++++.+ | ++|+++++..++++++
T Consensus       372 DAttVLSR~iaelgIYPAVDPLDStSrimdp~ivG~eHY~vA~~Vqk~LQ~YKsLQDIIAILGmDELSEeDkLTV~RARK  451 (521)
T KOG1350|consen  372 DATTVLSRGIAELGIYPAVDPLDSTSRIMDPNIVGEEHYNVARGVQKTLQDYKSLQDIIAILGMDELSEEDKLTVARARK  451 (521)
T ss_pred             chhhhhhhhhHhcCCccccCCccccccccCccccchHHHHHHHHHHHHHHHHHHHHHHHHHhCchhhchhhhhhHHHHHH
Confidence            999999999999999999999999999994 456699999999999999999999999985 6 6999999999999999


Q ss_pred             HHHHhhcCCCC----------CccHHHHHHHHHHHhcccccccc
Q psy210          520 ISLLMKQKPHE----------NYSIVELIIILLIIKNRFFFKIP  553 (915)
Q Consensus       520 i~~fL~Q~~~e----------~~s~ee~l~~L~ai~~G~Ld~vp  553 (915)
                      |++||.|++.-          ..++++++.-...+..|-+|.+|
T Consensus       452 iqRFLSQPF~VAEvFTG~~GklV~l~~ti~gF~~iL~Ge~D~lP  495 (521)
T KOG1350|consen  452 IQRFLSQPFQVAEVFTGHPGKLVPLEETIRGFKAILEGEYDHLP  495 (521)
T ss_pred             HHHHHcCchhhhhhhcCCCCceecHHHHHHHHHHHhcCcccCCc
Confidence            99999998642          23556666666666666666555

>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=5.7e-63  Score=516.18  Aligned_cols=215  Identities=44%  Similarity=0.699  Sum_probs=201.6

Q ss_pred             ccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEec
Q psy210          243 TGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAAT  322 (915)
Q Consensus       243 TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~  322 (915)
                      ||||+||.|+|||||||++|||++|+|||+| +.+|+++.+.|.. ||++||||++|+.+|++++++.++++|+++|+++
T Consensus         1 TGir~ID~l~Pig~Gqr~~I~g~~g~GKt~L-l~~i~~~~~~d~~-V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t   78 (215)
T PF00006_consen    1 TGIRAIDLLFPIGRGQRIGIFGGAGVGKTVL-LQEIANNQDADVV-VYALIGERGREVTEFIEELKGEGALERTVVVAAT   78 (215)
T ss_dssp             -SHHHHHHHSCEETTSEEEEEESTTSSHHHH-HHHHHHHCTTTEE-EEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEE
T ss_pred             CCCceeccccccccCCEEEEEcCcccccchh-hHHHHhcccccce-eeeeccccchhHHHHHHHHhhccccccccccccc
Confidence            8999999999999999999999999999999 6777777677764 9999999999999999999999999999999999


Q ss_pred             CCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhccccc
Q psy210          323 AADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKY  402 (915)
Q Consensus       323 a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~  402 (915)
                      +|+|+.+|++++++||++||||||+|+|||+++|||||||+|+|||++++||||+++|||+++|+.+++|+||||++.. 
T Consensus        79 ~~~~~~~r~~~~~~a~t~AEyfrd~G~dVlli~Dsltr~a~A~reis~~~g~~p~~~Gyp~~~~~~l~~l~ERag~~~~-  157 (215)
T PF00006_consen   79 SDEPPAARYRAPYTALTIAEYFRDQGKDVLLIIDSLTRWAQAYREISLLLGEPPGREGYPPSLFSDLASLYERAGKVNS-  157 (215)
T ss_dssp             TTS-HHHHHHHHHHHHHHHHHHHHTTSEEEEEEETHHHHHHHHHHHHHHTTSSBBGGGSBTTHHHHHHHHHTTSEEBST-
T ss_pred             chhhHHHHhhhhccchhhhHHHhhcCCceeehhhhhHHHHHHHHhhhcccccccccccccchhccchhhHHHHhhcccc-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999999832 


Q ss_pred             ccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcc
Q psy210          403 FLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS  468 (915)
Q Consensus       403 ~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~S  468 (915)
                              .+++||||++++|++|+||++|||++++++|+||||+|||+||++||||||||+.|+|
T Consensus       158 --------~~~~GSIT~~~~v~~~~~d~~~pi~~~~~~~~dg~i~L~r~la~~~~~PAId~~~S~S  215 (215)
T PF00006_consen  158 --------EEGGGSITAIPTVLVPGDDITDPIPDNTKSILDGHIVLSRKLAERGIFPAIDVLKSVS  215 (215)
T ss_dssp             --------TTTSEEEEEEEEEEESTTBTTSHHHHHHHTTSSEEEEB-HHHHHTT-SS-BETTTEEE
T ss_pred             --------ccCCceeeeecccccccccccchHHHHHHhhcceEEEeCHHHHhCCCCCccCCccCCC
Confidence                    2248999999999999999999999999999999999999999999999999999987

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 ....

>KOG1351|consensus

Probab=100.00  E-value=7.3e-63  Score=511.08  Aligned_cols=329  Identities=27%  Similarity=0.425  Sum_probs=310.7

Q ss_pred             hccccceeeeccccCccCcc-cCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccc
Q psy210          584 QQIGENIVRTIAFGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFN  662 (915)
Q Consensus       584 ~~l~~~~v~l~~~~~~~gl~-~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~  662 (915)
                      +.++++.+..++|+.|+|+. ....|.+||..++.||++++||||+|+.|+|||.++++..+++..+.+.|.||..|-.+
T Consensus        64 lev~g~kavvqvfegtsgid~k~t~~eftg~~lr~pvsedmlgrifngsgkpid~gp~vl~edyldi~gqpinp~~riyp  143 (489)
T KOG1351|consen   64 LEVSGEKAVVQVFEGTSGIDAKKTTVEFTGEILRTPVSEDMLGRIFNGSGKPIDKGPPVLAEDYLDINGQPINPYARIYP  143 (489)
T ss_pred             EEecCCeeEEEEeccccccccccceEEEecccccccccHHHhhhhhcCCCCccCCCCCcChHHhhccCCCcCCcccccCh
Confidence            57789999999999999997 67889999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHH--Hh--------cCCc--EEEEEEecCCCchHHHHH
Q psy210          663 NNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI--AI--------EHKG--CSVFIGVGERSREGNDFY  730 (915)
Q Consensus       663 ~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~--~~--------~~~~--~~v~~~iGer~~ev~e~~  730 (915)
                      .|+++|||.+||.|+.|.||||++||+.+|.+++.++.+|+|..  .+        .|.|  .+||+++|..-+..+.|.
T Consensus       144 eemiqtgis~idvmnsiargqkipifsaaglphneiaaqicrqaglvk~~~k~~~d~~~dnfaivfaamgvnmetarffk  223 (489)
T KOG1351|consen  144 EEMIQTGISAIDVMNSIARGQKIPIFSAAGLPHNEIAAQICRQAGLVKRPEKDVHDGHEDNFAIVFAAMGVNMETARFFK  223 (489)
T ss_pred             HHHHHhCchHHhhhhHHhccCccceeecCCCChhHHHHHHHHhcCccccCCcccccccccceeeeehhhcccHHHHHHHH
Confidence            99999999999999999999999999999999999999999952  11        1111  589999999999999999


Q ss_pred             HHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcc
Q psy210          731 HEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP  809 (915)
Q Consensus       731 ~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~  809 (915)
                      ++|++.|.|+|.+++.+.+|+|..+|+..|..|++.||||+.+ +||||+++.|++.||+|+||+|.+..|.|+++|||+
T Consensus       224 ~dfeengsm~~v~lflnlandptieriitprlalt~aeflayq~ekhvlviltdmssya~alrevsaareevpgrrg~pg  303 (489)
T KOG1351|consen  224 QDFEENGSMERVCLFLNLANDPTIERIITPRLALTTAEFLAYQCEKHVLVILTDMSSYADALREVSAAREEVPGRRGYPG  303 (489)
T ss_pred             hhHHhcCCccceEEEEecCCCCchhhhcchhhhHhHHHHHHHhhcCeEEEEEeccHHHHHHHHHHHHhhhhCCCcCCCCc
Confidence            9999999999999999999999999999999999999999998 999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCC
Q psy210          810 TLAEEMGKLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPY  887 (915)
Q Consensus       810 ~l~~~l~~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~  887 (915)
                      |+|.+|+.+|||||+.  ++||||.++++++|.||++|||||.|.+||+|||+.||+|+++.+||+||++.|+||+|+..
T Consensus       304 ymytdlatiyeragrvegr~gsitqipiltmpnddithpipdltgyitegqiyvdrqlhnr~iyppinvlpslsrlmksa  383 (489)
T KOG1351|consen  304 YMYTDLATIYERAGRVEGRNGSITQIPILTMPNDDITHPIPDLTGYITEGQIYVDRQLHNRQIYPPINVLPSLSRLMKSA  383 (489)
T ss_pred             eehhhHHHHHHHhcccccCCCceeeeeeEecCCcccCCCCCcccceeecceEEEehhhhcccCCCCcccchhHHHHHHHH
Confidence            9999999999999974  68999999999999999999999999999999999999999999999999999999999643


Q ss_pred             CCC-----HHHHHHHHHHHHHHHccHhhhhc
Q psy210          888 IVG-----EEHYKVANEVKFYLQKYKELKDT  913 (915)
Q Consensus       888 ~~~-----~~~~~~~~~~r~~l~~~~e~~~~  913 (915)
                       +|     ++|.++++++...|+--++++.|
T Consensus       384 -igegmtr~dh~dvsnqlya~yaigkdvqam  413 (489)
T KOG1351|consen  384 -IGEGMTRKDHSDVSNQLYACYAIGKDVQAM  413 (489)
T ss_pred             -hcCCcccccchhhHHHHHHHHHhcchHHHH
Confidence             44     69999999999999988887765

>KOG1352|consensus

Probab=100.00  E-value=9.7e-64  Score=533.52  Aligned_cols=343  Identities=24%  Similarity=0.420  Sum_probs=308.5

Q ss_pred             HHHHHhhhcccccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCC----
Q psy210          564 IIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG----  639 (915)
Q Consensus       564 Li~~Lr~~~~~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~----  639 (915)
                      +.+..|--+.+++.   |+ ..++++.+.+++|++|+|+.+||+|..||+|+++.+|++++|.|+|+..||+....    
T Consensus        42 MYELVrVGh~~LvG---Ei-IrlegD~aTIQVYEeTsG~tVgDpvlrTgkPLsvELGPGimgsIfDGIQRPLk~I~~~s~  117 (618)
T KOG1352|consen   42 MYELVRVGHDELVG---EI-IRLEGDMATIQVYEETSGLTVGDPVLRTGKPLSVELGPGIMGSIFDGIQRPLKDISELSQ  117 (618)
T ss_pred             HHHHHHcchHhhhh---he-eEecCceeEEEEEeccCCcccCCchhhcCCcceEeeCcchhhhhhhhhhhhHHHHHHhcC
Confidence            44445555554432   33 57899999999999999999999999999999999999999999999999984310    


Q ss_pred             -----------CC-------------------------------------------------------------------
Q psy210          640 -----------EI-------------------------------------------------------------------  641 (915)
Q Consensus       640 -----------~~-------------------------------------------------------------------  641 (915)
                                 .+                                                                   
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                       00                                                                   


Q ss_pred             --------CCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE
Q psy210          642 --------NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC  713 (915)
Q Consensus       642 --------~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~  713 (915)
                              ..-+.||+.. |.+..+..+.+.||-||.|++|.|+||++|+...|.|..|||||++.+.+.+.   +|.|+
T Consensus       198 f~g~k~~~tmlq~WPVR~-pRPv~ekl~an~PLltGQRvLDalfPcVqGGTtaIPGAFGCGKTVISQsLSKY---SNSD~  273 (618)
T KOG1352|consen  198 FDGEKTKFTMLQTWPVRQ-PRPVTEKLPANHPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSKY---SNSDA  273 (618)
T ss_pred             ecCceeeEEEEEecccCC-CcchhhccCCCCcccccchHHHhhcchhcCCccccCcccccchHHHHHHHhhc---cCCCe
Confidence                    0015689964 55677888999999999999999999999999999999999999999999886   34799


Q ss_pred             EEEEEecCCCchHHHHHHHhhh---------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecch
Q psy210          714 SVFIGVGERSREGNDFYHEMKE---------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNI  784 (915)
Q Consensus       714 ~v~~~iGer~~ev~e~~~~~~~---------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~  784 (915)
                      +||++||||++|+.|++.+|.+         +.+|+||.+|+||||+|...|..+.|+++|+||||||+|+||-+|.||.
T Consensus       274 iiYVGCGERGNEMsEVL~dFPeLt~ev~G~~esiMKRT~LVANTSNMPVAAREASIYTGITlsEYfRDmG~nVsMmADSt  353 (618)
T KOG1352|consen  274 IIYVGCGERGNEMSEVLMDFPELTMEVDGKTESIMKRTALVANTSNMPVAAREASIYTGITLSEYFRDMGYNVSMMADST  353 (618)
T ss_pred             EEEEcccccchhHHHHHHhChhhEEecCCcchhhhhhhhhhhcCCCCchhhhhhhhhhcccHHHHHHhcCcceeeeecch
Confidence            9999999999999999999866         5689999999999999999999999999999999999999999999999


Q ss_pred             hhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcC-------CCCCceeEEEEEEecCCCCCCCcccccccccCc
Q psy210          785 YRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISS-------TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDS  857 (915)
Q Consensus       785 tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~-------~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg  857 (915)
                      +|||+|+||||..++|+|+..|||+||...|++||||||+       .+.||+|++++|++|+||++|||+.+|.+|++.
T Consensus       354 SRWAEALREISGRLaEMPADsGyPAYLgArLAsFYERAG~vkcLGsP~ReGsVsIVgAVSPpGGDFsDPVTsATLgIvQV  433 (618)
T KOG1352|consen  354 SRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGSPDREGSVSIVGAVSPPGGDFSDPVTSATLGIVQV  433 (618)
T ss_pred             hHHHHHHHHhhhhhhcCcCcCCCcHHHHHHHHHHHHhcCceeecCCCCcCceeEEEEeecCCCCCcCCcchhhhhheeee
Confidence            9999999999999999999999999999999999999985       478999999999999999999999999999999


Q ss_pred             EEEeeHHHHhcCCCccccCCCCcccccCCCC------CCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          858 TIVLSRQIAELGIYPAIDPLESYSKQLDPYI------VGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       858 ~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~------~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +|.||++||+|.|||.|||+.|+|++|.. +      ..+++..+..++|++|++.++|.+++|
T Consensus       434 FWGLDKKLAQRKHFPSiNwliSYSkY~~a-L~~~Ye~~~peF~~lRtk~keilq~eedl~eivQ  496 (618)
T KOG1352|consen  434 FWGLDKKLAQRKHFPSINWLISYSKYMRA-LDPFYEKNYPEFVVLRTKAKEILQEEEDLSEIVQ  496 (618)
T ss_pred             hhcccHHHHhhccCCccchhhhHHHHHHH-HHHHHHhcCCCccchHHHHHHHHhhhhhHHHHHH
Confidence            99999999999999999999999999842 1      235777899999999999999999875

>COG1155 NtpA Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]

Probab=100.00  E-value=1.7e-61  Score=536.31  Aligned_cols=332  Identities=27%  Similarity=0.404  Sum_probs=303.8

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCC--------------CCC---
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNK--------------GEI---  641 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~--------------~~~---  641 (915)
                      +.|+ ..+.++++.+++|++|.||++|++|.+||+|+++.+|+++|+.|+|+.+||++..              +++   
T Consensus        35 ~gEi-I~i~gd~a~iQVyE~T~Gi~~Ge~V~~Tg~pLsvELGPGll~~IyDGiQrPL~~i~e~sg~Fi~RGv~~p~Ldr~  113 (588)
T COG1155          35 IGEI-IRIEGNRATIQVYEDTAGIRPGEKVENTGRPLSVELGPGLLKSIYDGIQRPLDVIKETSGDFIARGLNPPALDRK  113 (588)
T ss_pred             eEEE-EEEeCCeEEEEEEeecCCCCCCCeeecCCCceEEEeCccHHhhhhhhccChHHHHHHHhhhHhhcCCCCCCCCcc
Confidence            3445 5789999999999999999999999999999999999999999999999998541              000   


Q ss_pred             -----------------------------------------------------------------------CCCCCCccC
Q psy210          642 -----------------------------------------------------------------------NSKKKSPIH  650 (915)
Q Consensus       642 -----------------------------------------------------------------------~~~~~~pi~  650 (915)
                                                                                             ...++||+.
T Consensus       114 ~kW~F~P~~~~Gd~V~~GdvlGtV~Et~~i~~imvpp~~~~~~v~~i~~~G~ytv~d~ia~v~~~~g~~~~~m~~~WPVR  193 (588)
T COG1155         114 KKWDFVPAVKKGDTVYPGDVLGTVQETSLITHRIMVPPGVSGKVTWIAEEGEYTVEDVIATVSTEGGEVDVQMMTTWPVR  193 (588)
T ss_pred             cccccccccccCCEeccCceEEEeccCCceEEEEeCCCCCceEEEEEecCCCceeeEEEEEEecCCCeEEEEEEEecccc
Confidence                                                                                   012679996


Q ss_pred             CCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHH
Q psy210          651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY  730 (915)
Q Consensus       651 ~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~  730 (915)
                      .+ .+..++.++.+||.||+|+||+|+|+.||+..+|.||.|+|||++.++++++..   .|++||++||||++|++|++
T Consensus       194 ~~-rp~~eKl~p~~Pl~TGqRviDt~FPvaKGGTaaiPGpFGsGKTV~qh~laK~sd---adiVVyigCGERGNEmtevL  269 (588)
T COG1155         194 KA-RPVKRKLPPEIPLVTGQRVIDTLFPVAKGGTAAVPGPFGSGKTVSQHTLSKLAD---GDIVIYVGCGERGNEMTEVL  269 (588)
T ss_pred             CC-ccccccCCCCCcccccceeehhhcccccCccccccCCCCCCcEehhhhhhhhcc---CCEEEEEecCCccchHHHHH
Confidence            54 456889999999999999999999999999999999999999999999999854   58999999999999999999


Q ss_pred             HHhhh-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCC
Q psy210          731 HEMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPS  803 (915)
Q Consensus       731 ~~~~~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~  803 (915)
                      .+|.+       ...|+||++|+||||+|.+.|+.+.|+|+|+||||||+|+||+++.||.+|||+|+||||..++|+|+
T Consensus       270 ~eFPeL~Dp~tg~~lm~RT~liaNTSnMPVAAREasIYtGiTiaEY~RDmGy~v~lmADSTSRWAEAlREisgRleEmPg  349 (588)
T COG1155         270 QEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIAEYYRDMGYDVALMADSTSRWAEALREISGRLEEMPG  349 (588)
T ss_pred             HhCccccCCCCCCcccceeeEeecCccchHHHhhhhhhhhhhHHHHHHhhhhhhHHhhchHHHHHHHHHHHhcccccCCc
Confidence            99876       35699999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcchhhHHHHHHHHHhcC-------CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccC
Q psy210          804 AVGYQPTLAEEMGKLQERISS-------TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP  876 (915)
Q Consensus       804 ~~gyp~~l~~~l~~l~ERag~-------~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv  876 (915)
                      .+|||+||.+.+++||||+|.       .+.||+|++++|+.+++|+++|++.+|+.+...+|-||++||+++|||||||
T Consensus       350 eegyPaYL~srlA~fYERaG~v~~~~~~~r~GsvtV~gaVSPpGGdfSEPVtq~Tlriv~vFw~Ld~~la~~rhfPaInw  429 (588)
T COG1155         350 EEGYPAYLGSRLAEFYERAGRVRLVSPEERFGSITVIGAVSPPGGDFSEPVTQNTLRVVRVFWALDAALANRRHFPSINW  429 (588)
T ss_pred             ccccchHHHHHHHHHHHhcCeeeecCCCcceEEEEEecCCCCCCCCcCcccchheeeeeeeecccchhhhhcccCcccCh
Confidence            999999999999999999995       2459999999999999999999999999999999999999999999999999


Q ss_pred             CCCcccccCC------CCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          877 LESYSKQLDP------YIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       877 ~~S~SR~~~~------~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +.|+|.+.+.      .-+++++.++..+++++|++..|++++++
T Consensus       430 l~syS~Y~~~~~~~~~~~v~~~~~~~r~~a~~~Lq~e~elqeiv~  474 (588)
T COG1155         430 LNSYSLYTEDLRSWYDENVSPEWGALRDQAMEILQRESELQEIVQ  474 (588)
T ss_pred             HHHHHHHHHHHHHHhhcccCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999998641      12567889999999999999999998864

>KOG1352|consensus

Probab=100.00  E-value=2.4e-60  Score=507.47  Aligned_cols=403  Identities=23%  Similarity=0.308  Sum_probs=355.2

Q ss_pred             EEeecChhhcccc------cccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccc
Q psy210          125 EYDYFDPRCLNQT------LNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFEL  198 (915)
Q Consensus       125 ~~~~~~p~~L~~~------le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~l  198 (915)
                      .|....|++..+.      +|+-......+.|+|+..+|  ..+    .+++++++.|+..||+|..||+|+++..|.++
T Consensus        24 v~~VSGPVV~a~~M~G~aMYELVrVGh~~LvGEiIrleg--D~a----TIQVYEeTsG~tVgDpvlrTgkPLsvELGPGi   97 (618)
T KOG1352|consen   24 VYSVSGPVVVAENMAGCAMYELVRVGHDELVGEIIRLEG--DMA----TIQVYEETSGLTVGDPVLRTGKPLSVELGPGI   97 (618)
T ss_pred             EEeccCceEehhcccchHHHHHHHcchHhhhhheeEecC--cee----EEEEEeccCCcccCCchhhcCCcceEeeCcch
Confidence            4555568776654      55666666678999999999  444    67899999999999999999999999999999


Q ss_pred             ceeEeCCCceeecCCCc-----------cccc------------------------------------------------
Q psy210          199 LGRIVNSKGEFIDNKKK-----------FLIK------------------------------------------------  219 (915)
Q Consensus       199 LGrviD~lG~PiD~~~~-----------~~~~------------------------------------------------  219 (915)
                      +|.++|++.||+.....           ..+.                                                
T Consensus        98 mgsIfDGIQRPLk~I~~~s~siyiPkGv~~~aL~r~~~weF~p~k~~vg~hitGGDiyg~V~ENsli~hki~lpPr~~Gt  177 (618)
T KOG1352|consen   98 MGSIFDGIQRPLKDISELSQSIYIPKGVNTPALDREIKWEFTPGKLRVGDHITGGDIYGSVFENSLIKHKILLPPRARGT  177 (618)
T ss_pred             hhhhhhhhhhhHHHHHHhcCcEeccCCCCccccCccceeecccceeeecceeecCceEEEeeccchhhceeecCCccCce
Confidence            99999999999853100           0000                                                


Q ss_pred             -------------------------------ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCC
Q psy210          220 -------------------------------NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQT  268 (915)
Q Consensus       220 -------------------------------~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~  268 (915)
                                                     +.||+..+.| ..+..+-+.||.||.|++|+|+||+.|...+|.|..||
T Consensus       178 vt~iAp~G~Y~~~d~vlE~Ef~g~k~~~tmlq~WPVR~pRP-v~ekl~an~PLltGQRvLDalfPcVqGGTtaIPGAFGC  256 (618)
T KOG1352|consen  178 VTYIAPAGNYTLDDVVLELEFDGEKTKFTMLQTWPVRQPRP-VTEKLPANHPLLTGQRVLDALFPCVQGGTTAIPGAFGC  256 (618)
T ss_pred             EEEEecCCccccccEEEEEeecCceeeEEEEEecccCCCcc-hhhccCCCCcccccchHHHhhcchhcCCccccCccccc
Confidence                                           4566665554 56678889999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhc---------cCCcceEEEEEecCCCCHHHhhhhhhhhhh
Q psy210          269 GKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY---------YNCMDYTVVVAATAADSAAEQYISPYTGCT  339 (915)
Q Consensus       269 GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~---------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~t  339 (915)
                      |||++ .|.+.+..|+|+ +||++||||++|+.|++.+|.+         ...|+||++|+||+++|.+.|.++.|+++|
T Consensus       257 GKTVI-SQsLSKYSNSD~-iiYVGCGERGNEMsEVL~dFPeLt~ev~G~~esiMKRT~LVANTSNMPVAAREASIYTGIT  334 (618)
T KOG1352|consen  257 GKTVI-SQSLSKYSNSDA-IIYVGCGERGNEMSEVLMDFPELTMEVDGKTESIMKRTALVANTSNMPVAAREASIYTGIT  334 (618)
T ss_pred             chHHH-HHHHhhccCCCe-EEEEcccccchhHHHHHHhChhhEEecCCcchhhhhhhhhhhcCCCCchhhhhhhhhhccc
Confidence            99999 799999999998 7899999999999999999876         345999999999999999999999999999


Q ss_pred             hHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccce
Q psy210          340 IGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA  419 (915)
Q Consensus       340 iAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~  419 (915)
                      ++|||||+|+||-.+.||.+|||+|+||||..++|+|+--|||.++-..+|..|||||+++ |+|+     +++.||+|+
T Consensus       335 lsEYfRDmG~nVsMmADStSRWAEALREISGRLaEMPADsGyPAYLgArLAsFYERAG~vk-cLGs-----P~ReGsVsI  408 (618)
T KOG1352|consen  335 LSEYFRDMGYNVSMMADSTSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVK-CLGS-----PDREGSVSI  408 (618)
T ss_pred             HHHHHHhcCcceeeeecchhHHHHHHHHhhhhhhcCcCcCCCcHHHHHHHHHHHHhcCcee-ecCC-----CCcCceeEE
Confidence            9999999999999999999999999999999999999999999999999999999999996 6886     688999999


Q ss_pred             eEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc------cHHHHHHHHHHHHHHHhh
Q psy210          420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ------YKIVKKLSGDIRIMLAQY  493 (915)
Q Consensus       420 ~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~------~~~~~~~a~~lr~~la~~  493 (915)
                      +++|++||||++||+.+.+.+|..-+|-||++||++.|||.|||+.|+|+++....      .++..-+-.+.|.++++-
T Consensus       409 VgAVSPpGGDFsDPVTsATLgIvQVFWGLDKKLAQRKHFPSiNwliSYSkY~~aL~~~Ye~~~peF~~lRtk~keilq~e  488 (618)
T KOG1352|consen  409 VGAVSPPGGDFSDPVTSATLGIVQVFWGLDKKLAQRKHFPSINWLISYSKYMRALDPFYEKNYPEFVVLRTKAKEILQEE  488 (618)
T ss_pred             EEeecCCCCCcCCcchhhhhheeeehhcccHHHHhhccCCccchhhhHHHHHHHHHHHHHhcCCCccchHHHHHHHHhhh
Confidence            99999999999999999999999888889999999999999999999999986553      255556677889999999


Q ss_pred             HHHHhhhhcc--CCCCHHHHHHHHhHHHH-HHHhhcCCCCCc----cHHHHHHHHH
Q psy210          494 RELESFSKFS--SDLDIVTKTQLYNGEKI-SLLMKQKPHENY----SIVELIIILL  542 (915)
Q Consensus       494 ~e~e~l~~lG--~~ld~~~~~~L~~~~~i-~~fL~Q~~~e~~----s~ee~l~~L~  542 (915)
                      .++.+++++.  +.|++.++..|+-++.| ++||+|+.++++    ++.+++..|.
T Consensus       489 edl~eivQLVGK~aL~etdKitLevaklik~DfLqQN~ys~YD~~CPfyKt~~Mlr  544 (618)
T KOG1352|consen  489 EDLSEIVQLVGKSALAETDKITLEVAKLIKDDFLQQNGYSPYDRFCPFYKTVGMLR  544 (618)
T ss_pred             hhHHHHHHHhhhhhhhhcchhhHHHHHHHHHHHHhhcCCCchhhcCchHHHHHHHH
Confidence            9999999974  68999999999999999 579999999887    4566655544

>TIGR00767 rho transcription termination factor Rho

Probab=100.00  E-value=4.1e-59  Score=518.05  Aligned_cols=338  Identities=16%  Similarity=0.241  Sum_probs=285.8

Q ss_pred             hcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCccc
Q psy210          545 KNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTL  624 (915)
Q Consensus       545 ~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lL  624 (915)
                      ..|+|+.++.         =.+|||....++.....+++  ++.++++-+      +|+.||.|.+..++..   +-+-+
T Consensus        51 ~~g~le~~~~---------g~gflr~~~~~~~~~~~d~y--vs~~~i~~~------~lr~gd~v~g~~R~~~---~~ER~  110 (415)
T TIGR00767        51 GEGVLEILPD---------GFGFLRSPDSSYLPGPDDIY--VSPSQIRRF------NLRTGDTIEGQIRSPK---EGERY  110 (415)
T ss_pred             EEEEEEEcCC---------CCeEEeCCCcCCCCCCCCee--eCHHHHHhc------CCCCCCEEEEEEeccc---cHhHH
Confidence            4477775542         24678888778888888888  888888865      7999999998655432   22222


Q ss_pred             ceEEcccCccCCCCCCCCCCCCCccCCCCCCcccccccc--ccccccceeeecccccccCCeeeeccCCCCChhhHHHHH
Q psy210          625 GRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNN--NILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMEL  702 (915)
Q Consensus       625 GrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~--e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i  702 (915)
                      -.+++.  +++++.++.....+..+....|.+++.+...  .+-..|+|+||+++|||+|||++|+|++|+|||+|+.+|
T Consensus       111 ~~Ll~v--~~vn~~~~e~~~~ri~Fe~LTf~YP~er~~Le~~~~~~~~R~id~~~pig~Gq~~~IvG~~g~GKTtL~~~i  188 (415)
T TIGR00767       111 FALLKV--ESVNGDDPEKAKNRVLFENLTPLYPNERLRLETSTEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVLLQKI  188 (415)
T ss_pred             HHHhCC--CccCCCCccccCCCeEEEEeeecCCCccceeecCccccceeeeeeEEEeCCCCEEEEECCCCCChhHHHHHH
Confidence            222332  2233333223344567777777776655433  245679999999999999999999999999999999999


Q ss_pred             HHHHHhcCCcEE-EEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEe
Q psy210          703 IRNIAIEHKGCS-VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFI  781 (915)
Q Consensus       703 ~~~~~~~~~~~~-v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~  781 (915)
                      ++++..+|.+++ ++++||||++|+++|++.+.       ++||++|+|+||..|.++++.++++||||+++|+||+|++
T Consensus       189 ~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIl-------g~Vvast~d~p~~~~~~va~~v~e~Ae~~~~~GkdVVLlI  261 (415)
T TIGR00767       189 AQAITRNHPEVELIVLLIDERPEEVTDMQRSVK-------GEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILL  261 (415)
T ss_pred             HHhhcccCCceEEEEEEcCCCCccHHHHHHHhh-------ceEEEecCCCChHHHHHHHHHHHHHHHHHHHcCCCeEEEE
Confidence            998877766654 55689999999999999983       4799999999999999999999999999999999999999


Q ss_pred             cchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC-CCCceeEEEEEEec-CCCCCCCcccccccccCcEE
Q psy210          782 DNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-KNGTITSVQAIYVP-ADDLTDPSPSTTFTHLDSTI  859 (915)
Q Consensus       782 Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~-~~GSiT~i~~v~~~-~~d~~dpi~~~~~~i~dg~i  859 (915)
                      ||+||||+||||+++++||+|+ +||||++|+.+++|+|||++. ++||||+|+||+++ +++++|||.++.+++.||||
T Consensus       262 DEitR~arAqrei~~~~G~~~s-~G~~~~~~~~~~~~~~~a~~~~~~GSiT~~~TvLvetg~~mdd~i~~e~kg~~~~~i  340 (415)
T TIGR00767       262 DSITRLARAYNTVTPASGKVLS-GGVDANALHRPKRFFGAARNIEEGGSLTIIATALIDTGSRMDEVIFEEFKGTGNMEL  340 (415)
T ss_pred             EChhHHHHHHHHhHhhcCCCCC-CCcChhhhcccHHHHhhcCCCCCCcchhheEEEEeccCCCCCcchHHHhccccCCeE
Confidence            9999999999999999999999 999999999999999999985 79999999999999 66778899999999999999


Q ss_pred             EeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccHhhhhc
Q psy210          860 VLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT  913 (915)
Q Consensus       860 vLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~  913 (915)
                      +|||+||++|||||||+++|.||++ +.+++++|++.++++|++|+.|.+.+.+
T Consensus       341 vL~r~la~~~~fPAidi~~S~sR~~-~~l~~~~~~~~~~~~r~~l~~~~~~~~~  393 (415)
T TIGR00767       341 HLDRKLADRRIFPAIDIKKSGTRKE-ELLLTPEELQKIWVLRKIISPMDSIEAM  393 (415)
T ss_pred             EECHHHHhCCCCCCcCcccccccch-hhcCCHHHHHHHHHHHHHHHcCCcHHHH
Confidence            9999999999999999999999999 5899999999999999999999988754

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=5.6e-59  Score=516.23  Aligned_cols=390  Identities=24%  Similarity=0.298  Sum_probs=343.7

Q ss_pred             ccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeecCC-----
Q psy210          139 NIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNK-----  213 (915)
Q Consensus       139 e~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~-----  213 (915)
                      ++-...+..+.|.|+.++|  .-    ..+++|+++.|+++|++|.+||+|+++-.|.++|+.++|++.|||+..     
T Consensus        25 ~~v~Vg~~~L~gEiI~i~g--d~----a~iQVyE~T~Gi~~Ge~V~~Tg~pLsvELGPGll~~IyDGiQrPL~~i~e~sg   98 (588)
T COG1155          25 DVVKVGEMGLIGEIIRIEG--NR----ATIQVYEDTAGIRPGEKVENTGRPLSVELGPGLLKSIYDGIQRPLDVIKETSG   98 (588)
T ss_pred             EEEEEcCCceeEEEEEEeC--Ce----EEEEEEeecCCCCCCCeeecCCCceEEEeCccHHhhhhhhccChHHHHHHHhh
Confidence            3444566778999999999  32    378999999999999999999999999999999999999999999731     


Q ss_pred             ---------Cccccc-----------------------------------------------------------------
Q psy210          214 ---------KKFLIK-----------------------------------------------------------------  219 (915)
Q Consensus       214 ---------~~~~~~-----------------------------------------------------------------  219 (915)
                               +++.-.                                                                 
T Consensus        99 ~Fi~RGv~~p~Ldr~~kW~F~P~~~~Gd~V~~GdvlGtV~Et~~i~~imvpp~~~~~~v~~i~~~G~ytv~d~ia~v~~~  178 (588)
T COG1155          99 DFIARGLNPPALDRKKKWDFVPAVKKGDTVYPGDVLGTVQETSLITHRIMVPPGVSGKVTWIAEEGEYTVEDVIATVSTE  178 (588)
T ss_pred             hHhhcCCCCCCCCcccccccccccccCCEeccCceEEEeccCCceEEEEeCCCCCceEEEEEecCCCceeeEEEEEEecC
Confidence                     000000                                                                 


Q ss_pred             ---------ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEE
Q psy210          220 ---------NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIY  290 (915)
Q Consensus       220 ---------~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~  290 (915)
                               ++||+..+.| ..++.++++||.||.|+||+|+|+.||+..+|.|+.|+|||++ .+.+++++++|+ +||
T Consensus       179 ~g~~~~~m~~~WPVR~~rp-~~eKl~p~~Pl~TGqRviDt~FPvaKGGTaaiPGpFGsGKTV~-qh~laK~sdadi-VVy  255 (588)
T COG1155         179 GGEVDVQMMTTWPVRKARP-VKRKLPPEIPLVTGQRVIDTLFPVAKGGTAAVPGPFGSGKTVS-QHTLSKLADGDI-VIY  255 (588)
T ss_pred             CCeEEEEEEEeccccCCcc-ccccCCCCCcccccceeehhhcccccCccccccCCCCCCcEeh-hhhhhhhccCCE-EEE
Confidence                     4677777666 4788999999999999999999999999999999999999999 899999999997 789


Q ss_pred             EeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          291 VCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       291 ~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      ++||||++|+++++.+|.+       ..+|+||++++||+++|.+.|+.+.|+|.|+||||||+|+||+++.||.+|||+
T Consensus       256 igCGERGNEmtevL~eFPeL~Dp~tg~~lm~RT~liaNTSnMPVAAREasIYtGiTiaEY~RDmGy~v~lmADSTSRWAE  335 (588)
T COG1155         256 VGCGERGNEMTEVLQEFPELKDPNTGQPLMDRTVLIANTSNMPVAAREASIYTGITIAEYYRDMGYDVALMADSTSRWAE  335 (588)
T ss_pred             EecCCccchHHHHHHhCccccCCCCCCcccceeeEeecCccchHHHhhhhhhhhhhHHHHHHhhhhhhHHhhchHHHHHH
Confidence            9999999999999999876       234899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccC
Q psy210          364 AYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITD  443 (915)
Q Consensus       364 A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~d  443 (915)
                      |+||||..++|+|+.+|||.++-+.+|+.|||||+.....+      .++.||+|++++|+.|++|+++|+..+|..+.-
T Consensus       336 AlREisgRleEmPgeegyPaYL~srlA~fYERaG~v~~~~~------~~r~GsvtV~gaVSPpGGdfSEPVtq~Tlriv~  409 (588)
T COG1155         336 ALREISGRLEEMPGEEGYPAYLGSRLAEFYERAGRVRLVSP------EERFGSITVIGAVSPPGGDFSEPVTQNTLRVVR  409 (588)
T ss_pred             HHHHHhcccccCCcccccchHHHHHHHHHHHhcCeeeecCC------CcceEEEEEecCCCCCCCCcCcccchheeeeee
Confidence            99999999999999999999999999999999999975332      455699999999999999999999999999999


Q ss_pred             cEEEeehhhhhcCCCCeeeecCCccccccccc-------cHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHH
Q psy210          444 GQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ-------YKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQL  514 (915)
Q Consensus       444 gqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~-------~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L  514 (915)
                      -++-||++||+++|||||||+.|+|.+-+...       .++-.++..++++.+.+-.+++.+.++ | +.+++.++.++
T Consensus       410 vFw~Ld~~la~~rhfPaInwl~syS~Y~~~~~~~~~~~v~~~~~~~r~~a~~~Lq~e~elqeiv~lVG~eal~e~~~~il  489 (588)
T COG1155         410 VFWALDAALANRRHFPSINWLNSYSLYTEDLRSWYDENVSPEWGALRDQAMEILQRESELQEIVQLVGYDALPEKEKSIL  489 (588)
T ss_pred             eecccchhhhhcccCcccChHHHHHHHHHHHHHHhhcccCchHHHHHHHHHHHHHHHHHHHHHHHHhCccccchHHHHHH
Confidence            99999999999999999999999999975443       344455566778889999999999997 4 68999999999


Q ss_pred             HhHHHHH-HHhhcCCCCCcc----HHHHHHHHHH
Q psy210          515 YNGEKIS-LLMKQKPHENYS----IVELIIILLI  543 (915)
Q Consensus       515 ~~~~~i~-~fL~Q~~~e~~s----~ee~l~~L~a  543 (915)
                      ..++.|+ .||+|+.+++++    +..+..+|..
T Consensus       490 ~va~~ire~fLqQnafd~vD~~~~~~kq~~mm~~  523 (588)
T COG1155         490 DVARIIREDFLQQNAFDEIDAYCSLRKQYLMLKA  523 (588)
T ss_pred             HHHHHHHHHHHhhcccCcccccCCHHHHHHHHHH
Confidence            9999995 799999999874    4555444443

>PRK12678 transcription termination factor Rho; Provisional

Probab=100.00  E-value=5.4e-58  Score=519.74  Aligned_cols=297  Identities=20%  Similarity=0.247  Sum_probs=256.1

Q ss_pred             cccccccCCCcccccCccceeccc-c--------ccceeEeCCCceeecCCCccccccccccc-ccCCCCCcccccC-cc
Q psy210          172 DDLKNLTQGQKCFCTEKIFEIPVG-F--------ELLGRIVNSKGEFIDNKKKFLIKNRETVE-KIAPGIMDRESVN-EP  240 (915)
Q Consensus       172 ~~~~gl~~G~~V~~tg~~~~vpvg-~--------~lLGrviD~lG~PiD~~~~~~~~~~~~i~-~~~~~~~~R~~~~-~~  240 (915)
                      .-..+|+.|+.|.+.-+   .|.. +        ..|-+|-...|     ..+.....+..++ -.|++|.+|..+. +|
T Consensus       328 irr~~Lr~Gd~v~G~vr---~p~~~e~~~~r~k~~~l~~v~~vNg-----~~~e~~~~r~~F~~Ltp~~P~~R~~le~e~  399 (672)
T PRK12678        328 VRKNGLRKGDAVTGAVR---APREGEQGNQRQKFNPLVRLDSVNG-----MSPEEAKKRPEFGKLTPLYPNERLRLETEP  399 (672)
T ss_pred             HHHcCCCCCCEEEEeec---CCCCCccccccceeeeeeeEeeeCC-----CChHHhccCCCcccCCCCChHHhcccccCc
Confidence            34457888888876422   2322 2        13334433333     3333333333333 3678999999999 89


Q ss_pred             ccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc---CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEE
Q psy210          241 LLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK---NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTV  317 (915)
Q Consensus       241 l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~---~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tv  317 (915)
                      +.||+++||+|+|||+|||.+|||++++|||+| |++|+|+.   +.++.|||++||||++||.+|.+.+       +..
T Consensus       400 ~~~giRvIDll~PIGkGQR~LIvgpp~aGKTtL-L~~IAn~i~~n~~~~~~ivvLIgERpeEVtdm~rsV-------kge  471 (672)
T PRK12678        400 KKLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTI-LQNIANAITTNNPECHLMVVLVDERPEEVTDMQRSV-------KGE  471 (672)
T ss_pred             ccccceeeeeecccccCCEeEEeCCCCCCHHHH-HHHHHHHHhhcCCCeEEEEEEEeCchhhHHHHHHhc-------cce
Confidence            999999999999999999999999999999999 78899975   7889999999999999999985433       124


Q ss_pred             EEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCC-----CCCCCcCCCchhhhhhhH
Q psy210          318 VVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRR-----PPGREAFPGDVFYLHSRL  392 (915)
Q Consensus       318 vv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~-----~p~~~gyp~~~~~~~~~l  392 (915)
                      ||++|+|+||..|++++|+||++||||+++|+||||++|||||||+||||++++.|+     +|+..+|||++|+.+|++
T Consensus       472 VVasT~D~p~~~~~~~a~~ai~~Ae~fre~G~dVlillDSlTR~ArAyrev~~~sGr~lSGG~d~~a~ypP~~F~~~AR~  551 (672)
T PRK12678        472 VIASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSITRLGRAYNLAAPASGRILSGGVDSTALYPPKRFFGAARN  551 (672)
T ss_pred             EEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCchHHHHHHHHhhcCCCCccCCCCchhhccCccHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999999999999     799999999999999999


Q ss_pred             HhhhhcccccccchhhhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccc
Q psy210          393 LERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVG  471 (915)
Q Consensus       393 ~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~  471 (915)
                      +|+                  +||||+|+||+++ +++|++||++++++++||||+|||+|+++||||||||+.|+||.+
T Consensus       552 iE~------------------gGSLTii~TvLVETGS~mDd~Ifeefkgtgn~elvLsR~LAerrifPAIDv~~S~SR~e  613 (672)
T PRK12678        552 IEN------------------GGSLTIIATALVETGSKMDEVIFEEFKGTGNMELKLDRKLADKRIFPAVDVNASGTRKE  613 (672)
T ss_pred             hcc------------------CccceeeEEEEeccCCccCcchHHHHhhccCceeeECHHHHhCCCCCccCCCcCccccc
Confidence            995                  6999999999999 788999999999999999999999999999999999999999999


Q ss_pred             cccccHHHHHHHHHHHHHHHhhHHHHhhhhc
Q psy210          472 GAAQYKIVKKLSGDIRIMLAQYRELESFSKF  502 (915)
Q Consensus       472 ~~~~~~~~~~~a~~lr~~la~~~e~e~l~~l  502 (915)
                      ..+..+++.+.++.||+.|+.|...+.+-.+
T Consensus       614 e~l~~~~e~~~~~~lRr~l~~~~~~~a~e~l  644 (672)
T PRK12678        614 ELLLSPDELAIVHKLRRVLSGLDSQQAIDLL  644 (672)
T ss_pred             hhhCCHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999999999999887766433

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=100.00  E-value=7.3e-57  Score=497.36  Aligned_cols=303  Identities=20%  Similarity=0.214  Sum_probs=264.3

Q ss_pred             cccccCCCcccccCccceeccccccceeEeCCCceeecCCCcccccccccc-cccCCCCCcccccCc--cccccceeeec
Q psy210          174 LKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETV-EKIAPGIMDRESVNE--PLLTGIKSIDS  250 (915)
Q Consensus       174 ~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i-~~~~~~~~~R~~~~~--~l~TGi~aiD~  250 (915)
                      .-+++.|+.|.+.-+++.-.-....|-+|-...|.+.+.     ...+... +-.|++|.+|..+.+  |+.||+|+||+
T Consensus        88 ~~~lr~gd~v~g~~r~~~~~e~~~~l~~v~~vng~~~~~-----~~~r~~f~~l~p~~p~~R~~le~~~~~~~~~rvID~  162 (416)
T PRK09376         88 RFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEK-----ARNRPLFENLTPLYPNERLRLETGNPEDLSTRIIDL  162 (416)
T ss_pred             hcCCCCCCEEEEEeeCCCCCCCccceEEEeeeCCCCHHH-----hcCCCCcccCCCCChhhcccccCCCCcccceeeeee
Confidence            446788888877544432222222444555555543332     2222222 246889999999998  89999999999


Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc---CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCH
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK---NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSA  327 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~---~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~  327 (915)
                      |+|||+|||.+|||++|+||||| +.+|+++.   +.|++|++++||||++|+.++++.+.       .++|++|+|+||
T Consensus       163 l~PIGkGQR~lIvgppGvGKTTL-aK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIl-------g~vv~st~d~~~  234 (416)
T PRK09376        163 IAPIGKGQRGLIVAPPKAGKTVL-LQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVK-------GEVVASTFDEPA  234 (416)
T ss_pred             ecccccCceEEEeCCCCCChhHH-HHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhc-------CcEEEECCCCCH
Confidence            99999999999999999999999 56677753   46888999999999999999999996       289999999999


Q ss_pred             HHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchh
Q psy210          328 AEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK  407 (915)
Q Consensus       328 ~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~  407 (915)
                      ..|+++++.+++.||||+++|+|||+++|||||||+|+||++++.||+|+ .|||+++|+.+++++|||++++.      
T Consensus       235 ~~~~~~a~~~ie~Ae~~~e~G~dVlL~iDsItR~arAqrev~~~sG~~~s-gG~~~~~~~~~~r~f~~Arn~e~------  307 (416)
T PRK09376        235 ERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLS-GGVDANALHRPKRFFGAARNIEE------  307 (416)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEEEEChHHHHHHHHhhhhccCCCCC-CCCChhHhhhhHHHHHhhcCCCC------
Confidence            99999999999999999999999999999999999999999999999999 99999999999999999998753      


Q ss_pred             hhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHH
Q psy210          408 KIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDI  486 (915)
Q Consensus       408 ~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~l  486 (915)
                            +||||+|+|++++ |++|+|||++++++++||||+|||+||++||||||||+.|.||.+.....++|.+.++.+
T Consensus       308 ------~GSlT~i~T~LvetGs~mdd~I~ee~kg~~n~~ivLdR~lA~~r~fPAIDi~~S~sR~~~~l~~~~~~~~~~~l  381 (416)
T PRK09376        308 ------GGSLTIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWIL  381 (416)
T ss_pred             ------CcceEEEEEEEecCCCCCCccHHHHHhhhcCceEeECHHHHhcCCCCccCccccccccccccCCHHHHHHHHHH
Confidence                  7999999999999 889999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhHHHHhhhhc
Q psy210          487 RIMLAQYRELESFSKF  502 (915)
Q Consensus       487 r~~la~~~e~e~l~~l  502 (915)
                      |+.|+.|++.+.+-.+
T Consensus       382 R~~l~~~~~~e~~e~~  397 (416)
T PRK09376        382 RKILSPMDEVEAMEFL  397 (416)
T ss_pred             HHHHHccCcHHHHHHH
Confidence            9999999998776544

>COG1158 Rho Transcription termination factor [Transcription]

Probab=100.00  E-value=4.5e-54  Score=454.89  Aligned_cols=362  Identities=19%  Similarity=0.272  Sum_probs=307.6

Q ss_pred             HHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhcccccee
Q psy210          512 TQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIV  591 (915)
Q Consensus       512 ~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~~v  591 (915)
                      .-+.+.+.+.+.|++...+...+         ...|+|+.+|         +=.+|||....+++....+++  ++.+++
T Consensus        30 ~~~~K~dlifailk~~~e~g~~~---------~~~GvLeil~---------dGfGFLR~~~~~yl~~~~DiY--vSpSQI   89 (422)
T COG1158          30 SRLRKQDLIFAILKAQAEQGEEI---------FGDGVLEILP---------DGFGFLRSADSSYLPGPDDIY--VSPSQI   89 (422)
T ss_pred             hhhhHHHHHHHHHHHHhhcCceE---------eeeeEEEecc---------CCcceeecCccccCCCCCceE--ECHHHH
Confidence            33556666666666653221111         1237776664         235688888888998889998  899999


Q ss_pred             eeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccc--ccc--
Q psy210          592 RTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNN--ILE--  667 (915)
Q Consensus       592 ~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e--~l~--  667 (915)
                      +.+      +|+.||.|.+.-++++-.-...-|=+|--++|.+.+     ...++.++...+|.+++++...|  +-.  
T Consensus        90 Rrf------~LrtGD~v~G~vR~Pke~Ery~aLl~ve~vN~~~pe-----~~~~R~~F~~LTPlyP~erl~LE~~~~~~~  158 (422)
T COG1158          90 RRF------NLRTGDTVEGKVRPPKEGERYFALLKVEAVNGDDPE-----KAKNRVLFENLTPLYPNERLKLERENGSTD  158 (422)
T ss_pred             hhc------cCccCCEEeeeecCCCcccceeeeEEEeecCCCCHH-----HhhccCCcccCCCCCCcceeeeecCCCccc
Confidence            876      699999999988887766666666688888887765     34577889999999999887766  222  


Q ss_pred             ccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE-EecCCCchHHHHHHHhhhcCccccEEEEE
Q psy210          668 TGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI-GVGERSREGNDFYHEMKESNVLDKVSLIY  746 (915)
Q Consensus       668 TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~-~iGer~~ev~e~~~~~~~~~~~~~~~vv~  746 (915)
                      -.-|+||++.|||||||.+|+|||.+|||+||++||+++..||+++.+++ ||+||++||+|+.+.+       +..||+
T Consensus       159 ls~RviDL~~PIGkGQR~LIVAPPkaGKT~lLq~IA~aIt~N~Pe~~LiVLLIDERPEEVTdmqrsV-------~geVia  231 (422)
T COG1158         159 LSTRVIDLISPIGKGQRGLIVAPPKAGKTTLLQNIANAITTNHPECELIVLLIDERPEEVTDMQRSV-------KGEVVA  231 (422)
T ss_pred             chhHHHhhhcccCCCceeeEecCCCCCchHHHHHHHHHHhcCCCceEEEEEEecCCchHHHHHHHhh-------cceEEe
Confidence            23399999999999999999999999999999999999999999998887 8999999999999998       467999


Q ss_pred             EcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcC-C
Q psy210          747 GQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISS-T  825 (915)
Q Consensus       747 ~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~-~  825 (915)
                      ||+|+||..|++++++.++.|+++.++|+||++++||+||+|+|||-+...+|+..+..--| ..+....+|+..|.+ +
T Consensus       232 STFDepp~~HvqVAE~viEkAKRlVE~~kDVVILLDSITRLaRAYN~v~P~SGkvLsGGvD~-nAL~~PKrFFGAARNIE  310 (422)
T COG1158         232 STFDEPPSRHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDA-NALHRPKRFFGAARNIE  310 (422)
T ss_pred             ecCCCcchhhHHHHHHHHHHHHHHHHcCCcEEEEehhHHHHHHHhcccCCCCCCeecCCcCh-hhhcCchhhhhhhhccc
Confidence            99999999999999999999999999999999999999999999999999999999985444 455567888887776 5


Q ss_pred             CCCceeEEEEEEecCCCCCCCccccccccc-CcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHH
Q psy210          826 KNGTITSVQAIYVPADDLTDPSPSTTFTHL-DSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYL  904 (915)
Q Consensus       826 ~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~-dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l  904 (915)
                      +|||+|+++|.++++|+.+|.|..+.|.-| +..++|||+||++++|||||+.+|.+|.. ..++++++.+..|.+|++|
T Consensus       311 eGGSLTIiATALVdTGSrMDeVIfEEFKGTGNmEl~LdR~laerRifPAIdi~kSGTRKE-eLLl~~~~l~k~w~lRr~l  389 (422)
T COG1158         311 EGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAERRIFPAIDINKSGTRKE-ELLLSPDELQKMWVLRRIL  389 (422)
T ss_pred             cCcchhhhhhhhhhcCCccchhhhhhhcCCCceEEEEhhhhhhcccccceecccCCcchH-hhcCCHHHHHHHHHHHHHh
Confidence            799999999999999999999999999999 88999999999999999999999999997 4789999999999999999


Q ss_pred             HccHhhhhc
Q psy210          905 QKYKELKDT  913 (915)
Q Consensus       905 ~~~~e~~~~  913 (915)
                      +...+.+.+
T Consensus       390 ~~md~~~a~  398 (422)
T COG1158         390 SPMDEIDAI  398 (422)
T ss_pred             cCCChHHHH
Confidence            987666543

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=100.00  E-value=8.8e-51  Score=434.16  Aligned_cols=236  Identities=22%  Similarity=0.302  Sum_probs=221.7

Q ss_pred             cceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEE-EEecCCCchHHHHHHHhhhcCccccEEEEEE
Q psy210          669 GIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVF-IGVGERSREGNDFYHEMKESNVLDKVSLIYG  747 (915)
Q Consensus       669 Gir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~-~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~  747 (915)
                      ..|+||+|+|+|+|||++|||++|+|||||+.+++++...++.+++++ ++||||++|+.+|++.+       ++++|++
T Consensus         3 ~~~~id~~~~i~~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I-------~~~~v~~   75 (249)
T cd01128           3 STRVVDLFAPIGKGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSV-------KGEVIAS   75 (249)
T ss_pred             chhheeeecccCCCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHh-------ccEEEEe
Confidence            359999999999999999999999999999999999876655566655 57999999999999998       7789999


Q ss_pred             cCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC-C
Q psy210          748 QMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-K  826 (915)
Q Consensus       748 t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~-~  826 (915)
                      ++|+|+..|+++++.++++||||+++|++|++++|++||||+|+||+++..|++| .+||||++|+.+++++|||++. +
T Consensus        76 ~~~~~~~~~~~~~~~~~~~a~~~~~~G~~vll~iDei~r~a~a~~ev~~~~G~~~-sgG~~~~~~~~~~q~~~~Ar~~~~  154 (249)
T cd01128          76 TFDEPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLARAYNTVVPPSGKIL-SGGVDANALHKPKRFFGAARNIEE  154 (249)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHhhhhhhhccccCCCCC-CCCcChhhhhhhHHHHHHhcCCCC
Confidence            9999999999999999999999999999999999999999999999999999999 6899999999999999999985 7


Q ss_pred             CCceeEEEEEEec-CCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHH
Q psy210          827 NGTITSVQAIYVP-ADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQ  905 (915)
Q Consensus       827 ~GSiT~i~~v~~~-~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~  905 (915)
                      +||||++||++++ ++|..||+.++..++.||||+|||+|++.|+||||||+.|.||.+ +.+++++|++.++++|++|+
T Consensus       155 ~gsIt~l~T~~~d~~~~~~~~i~~~~~~~~~~~ivls~~la~~~~~paI~vl~s~sr~~-~ll~~~~~~~~~~~~r~~~~  233 (249)
T cd01128         155 GGSLTIIATALVDTGSRMDDVIFEEFKGTGNMELVLDRRLAERRIFPAIDILKSGTRKE-ELLLDPEELQRMWLLRRVLS  233 (249)
T ss_pred             CCceEEeeeheecCCCcccchHHHHHhcCCCcEEEEchHHhhCCCCCeEEEcCCCCccc-hhhCCHHHHHHHHHHHHHHH
Confidence            9999999999999 566667999999999999999999999999999999999999987 57889999999999999999


Q ss_pred             ccHhhhhc
Q psy210          906 KYKELKDT  913 (915)
Q Consensus       906 ~~~e~~~~  913 (915)
                      .|+|+|++
T Consensus       234 ~~~~~~~~  241 (249)
T cd01128         234 DMDPIEAM  241 (249)
T ss_pred             ccChHHHH
Confidence            99999986

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.

>TIGR00767 rho transcription termination factor Rho

Probab=100.00  E-value=1.2e-50  Score=450.53  Aligned_cols=242  Identities=19%  Similarity=0.237  Sum_probs=227.5

Q ss_pred             cccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceE
Q psy210          240 PLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYT  316 (915)
Q Consensus       240 ~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~t  316 (915)
                      +-..|+|+||.++|||+|||++|+|++|+|||+| +.+|.+.   ++.++.|+++++|+|++|+.+|++.+.       .
T Consensus       151 ~~~~~~R~id~~~pig~Gq~~~IvG~~g~GKTtL-~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIl-------g  222 (415)
T TIGR00767       151 TEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVL-LQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVK-------G  222 (415)
T ss_pred             ccccceeeeeeEEEeCCCCEEEEECCCCCChhHH-HHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhh-------c
Confidence            4567999999999999999999999999999999 6777774   346778999999999999999999984       4


Q ss_pred             EEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhh
Q psy210          317 VVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERS  396 (915)
Q Consensus       317 vvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERa  396 (915)
                      .+|++++++|+..|..+++.+++.||||+++|+||+|++|++||||+|+||++++.||||+ +|||+++|+.+++++|||
T Consensus       223 ~Vvast~d~p~~~~~~va~~v~e~Ae~~~~~GkdVVLlIDEitR~arAqrei~~~~G~~~s-~G~~~~~~~~~~~~~~~a  301 (415)
T TIGR00767       223 EVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLS-GGVDANALHRPKRFFGAA  301 (415)
T ss_pred             eEEEecCCCChHHHHHHHHHHHHHHHHHHHcCCCeEEEEEChhHHHHHHHHhHhhcCCCCC-CCcChhhhcccHHHHhhc
Confidence            8999999999999999999999999999999999999999999999999999999999999 999999999999999999


Q ss_pred             hcccccccchhhhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc
Q psy210          397 SKINKYFLEKKKIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ  475 (915)
Q Consensus       397 g~~~~~~g~~~~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~  475 (915)
                      |+++.            +||||+|+||+++ |++|+|||++++++++||||+|||+||++|||||||++.|.||.+....
T Consensus       302 ~~~~~------------~GSiT~~~TvLvetg~~mdd~i~~e~kg~~~~~ivL~r~la~~~~fPAidi~~S~sR~~~~l~  369 (415)
T TIGR00767       302 RNIEE------------GGSLTIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLL  369 (415)
T ss_pred             CCCCC------------CcchhheEEEEeccCCCCCcchHHHhccccCCeEEECHHHHhCCCCCCcCcccccccchhhcC
Confidence            98753            7999999999999 8899999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHHHhhHHHHhhhhc
Q psy210          476 YKIVKKLSGDIRIMLAQYRELESFSKF  502 (915)
Q Consensus       476 ~~~~~~~a~~lr~~la~~~e~e~l~~l  502 (915)
                      +++|.+.++.+|+.|+.|.+.+.+-.+
T Consensus       370 ~~~~~~~~~~~r~~l~~~~~~~~~~~~  396 (415)
T TIGR00767       370 TPEELQKIWVLRKIISPMDSIEAMEFL  396 (415)
T ss_pred             CHHHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            999999999999999999988766433

Members of this family differ in the specificity of RNA binding.

>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]

Probab=100.00  E-value=7.4e-52  Score=464.30  Aligned_cols=259  Identities=35%  Similarity=0.507  Sum_probs=215.5

Q ss_pred             ccccccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeecce
Q psy210           42 ENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFA  121 (915)
Q Consensus        42 ~~~l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g  121 (915)
                      .+.+++++|-|+||||||||||||+||+||++|||||||||++++++|+||||||||+++|.+|+|+|||||||+|+|||
T Consensus       258 rSpmysG~Ieg~GPRYCPSIEDKIvrF~dK~~HqIFlEPEGl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~rpg  337 (621)
T COG0445         258 RSPMYSGEIEGVGPRYCPSIEDKIVRFADKERHQIFLEPEGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRPG  337 (621)
T ss_pred             hCchhcccccccCCCCCCCHHHhhccCCCCccceEEecCCCCCCceEecCcccccCCHHHHHHHHHhCcccccceeeccc
Confidence            34688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      |++|||||+|++|.++||+|..+|+|+|||||||+||+||++||++|+++.+..-. .       .+|+.+.+.++|+|.
T Consensus       338 YAIEYD~v~p~qL~~tLEtK~I~GLf~AGQINGTtGYEEAAaQGliAGiNAal~~~-~-------~~p~il~R~eaYIGV  409 (621)
T COG0445         338 YAIEYDYVDPRQLKPTLETKKIKGLFFAGQINGTTGYEEAAAQGLIAGINAALKVQ-G-------KEPFILRRDEAYIGV  409 (621)
T ss_pred             eeeeecccChhhcccchhhceecceEEcccccCCchhHHHHhhhHHHHHHHHHHhc-C-------CCCcccccCcceeee
Confidence            99999999999999999999999999999999999999999999999996553222 1       357888999999999


Q ss_pred             EeCCCceeecCCCccccc--ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHH
Q psy210          202 IVNSKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTII  279 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~  279 (915)
                      ++|+|-    .++..+||  ++++.|+   ++..|++         +|+.+|+++|+  .+|++++..            
T Consensus       410 lIDDLv----TkGt~EPYRmfTSRAEy---RL~LR~D---------NAd~RLt~~g~--~lGLv~~~r------------  459 (621)
T COG0445         410 LIDDLV----TKGTNEPYRMFTSRAEY---RLLLRED---------NADLRLTEIGR--ELGLVDDER------------  459 (621)
T ss_pred             Eehhhh----cCCCCCchhhcchHHHH---HHHhhcc---------chhhhhhHHHH--HhCCCCHHH------------
Confidence            999997    67778887  6888998   9999999         99999999986  344877644            


Q ss_pred             hhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhh-----hhhhhhhhHHHHHhcCCcEEEE
Q psy210          280 NQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYI-----SPYTGCTIGEYFRDLGQDCLII  354 (915)
Q Consensus       280 ~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~-----~~~~a~tiAEy~r~~g~~Vlv~  354 (915)
                                |..+-++.+.+.+.++.|++..+       . + + .......     -.-.+.+..+.|+++..+    
T Consensus       460 ----------~~~f~~k~~~i~~~~~~L~~~~v-------~-p-~-~~~~~~~~~~~~~~~~~~~~~~lL~rpe~~----  515 (621)
T COG0445         460 ----------YERFLKKKENIEEEIERLKSTWV-------T-P-S-EVAKELLALGGQPLKRRSSLYDLLRRPEIS----  515 (621)
T ss_pred             ----------HHHHHHHHHHHHHHHHHHHheec-------C-h-H-HHHHHHHHhhcCCcccchhHHHHhcCCCCC----
Confidence                      44555666667777777754321       1 1 0 0111110     122356778899999888    


Q ss_pred             eccchhHH
Q psy210          355 YDDLTKHA  362 (915)
Q Consensus       355 ~Ddltr~a  362 (915)
                      ||+|..+.
T Consensus       516 ~~~l~~~~  523 (621)
T COG0445         516 YDDLISLF  523 (621)
T ss_pred             HHHHHHhC
Confidence            77776553

>PRK05192 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated

Probab=100.00  E-value=1.1e-49  Score=466.37  Aligned_cols=257  Identities=33%  Similarity=0.484  Sum_probs=214.4

Q ss_pred             cccccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeeccee
Q psy210           43 NSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAY  122 (915)
Q Consensus        43 ~~l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g~  122 (915)
                      ..++...|.|+||||||||||||+||++|++|||||||||+++++||+|||||+|||++|+++||+|||||||+|+||||
T Consensus       259 s~~~~g~i~~~gpRYCpsiE~k~~rf~~~~~h~v~lepeg~~~~~~y~~G~stslp~~~Q~~~~r~ipGle~a~i~r~gy  338 (618)
T PRK05192        259 SPMYSGVIEGVGPRYCPSIEDKIVRFADKDRHQIFLEPEGLDTNEVYPNGISTSLPEDVQLEMLRSIPGLENAEILRPGY  338 (618)
T ss_pred             ccCcCcccCCCCCCCCCCHHHHhhhcCCCCCceEEEecCCCCCCEEeccCccCCCCHHHHHHHHhcCcCccceeEeeccc
Confidence            34788889999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeE
Q psy210          123 NIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      +||||||||++|+++||+|..+|+|+|||||||+||+||++||++|+++.+....         .+|+.+++.++|+|.+
T Consensus       339 ~ieyd~i~p~~L~~~Le~k~~~~lf~AGQinGt~GYeEaaaqGl~AgiNaa~~~~---------~~~~~~~r~~~yiGvl  409 (618)
T PRK05192        339 AIEYDYVDPRQLKPTLETKKIKGLFFAGQINGTTGYEEAAAQGLIAGINAALKVQ---------GEPFILKRSEAYIGVL  409 (618)
T ss_pred             ceeecccChhhcchhheecCCCCeEECcccCCChHHHHHHHHHHHHHHHHHHHhc---------CCCCCCCcchhhHHHH
Confidence            9999999999999999999999999999999999999999999999997654432         3589999999999999


Q ss_pred             eCCCceeecCCCccccc--ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          203 VNSKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       203 iD~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      +|++-    .++..+||  ++++.|+   ++..|++         +|+.+|+++|+  ++|++++..             
T Consensus       410 iddlv----tkg~~EPYRmfTSRaEy---Rl~lR~D---------Nad~RLt~~g~--~~gl~~~~~-------------  458 (618)
T PRK05192        410 IDDLV----TKGTKEPYRMFTSRAEY---RLLLRED---------NADLRLTEKGY--ELGLVDDER-------------  458 (618)
T ss_pred             HHHHH----hcCCCcchhhcchhhHH---HHHhccc---------cHHhHhHHHHH--HhCCCCHHH-------------
Confidence            99996    67777887  6888898   9999999         99999999887  455877644             


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchh
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTK  360 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr  360 (915)
                               |..+-++.+.+.+.++.|++..+-...+   +....+      .....++..|.+++++.+    +++|..
T Consensus       459 ---------~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~~~~~------~~~~~~~~~~~l~~p~~~----~~~l~~  516 (618)
T PRK05192        459 ---------WARFEEKKEAIEEEIERLKSTRVTPDEL---NELGGD------PLKREVSLLDLLRRPEIT----YEDLAK  516 (618)
T ss_pred             ---------HHHHHHHHHHHHHHHHHHHccccCHHHH---HhhcCC------cccCCCcHHHHhCCCCCC----HHHHHh
Confidence                     3344456677777777776644321000   000011      112346888999988888    666654


Q ss_pred             H
Q psy210          361 H  361 (915)
Q Consensus       361 ~  361 (915)
                      +
T Consensus       517 ~  517 (618)
T PRK05192        517 L  517 (618)
T ss_pred             h
Confidence            4

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=100.00  E-value=1.8e-46  Score=401.04  Aligned_cols=238  Identities=20%  Similarity=0.240  Sum_probs=222.9

Q ss_pred             ceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcC---CCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEe
Q psy210          245 IKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN---KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAA  321 (915)
Q Consensus       245 i~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~---~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~  321 (915)
                      .|+||+|+|+|+|||++|+|++|+||||| +.+|.++..   .+++|+++.+|+|++++.+|++.+       ++++|++
T Consensus         4 ~~~id~~~~i~~Gqr~~I~G~~G~GKTTL-lr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I-------~~~~v~~   75 (249)
T cd01128           4 TRVVDLFAPIGKGQRGLIVAPPKAGKTTL-LQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSV-------KGEVIAS   75 (249)
T ss_pred             hhheeeecccCCCCEEEEECCCCCCHHHH-HHHHHhccccccCCeEEEEEEccCCCccHHHHHHHh-------ccEEEEe
Confidence            58999999999999999999999999999 688887643   367778888999999999999998       5799999


Q ss_pred             cCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccc
Q psy210          322 TAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINK  401 (915)
Q Consensus       322 ~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~  401 (915)
                      ++++|+..|+++++.+++.||||+++|++|++++|+++||++|+||+++..|++| ..|||+++|+.+++++|||+.+..
T Consensus        76 ~~~~~~~~~~~~~~~~~~~a~~~~~~G~~vll~iDei~r~a~a~~ev~~~~G~~~-sgG~~~~~~~~~~q~~~~Ar~~~~  154 (249)
T cd01128          76 TFDEPPERHVQVAEMVLEKAKRLVEHGKDVVILLDSITRLARAYNTVVPPSGKIL-SGGVDANALHKPKRFFGAARNIEE  154 (249)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHhhhhhhhccccCCCCC-CCCcChhhhhhhHHHHHHhcCCCC
Confidence            9999999999999999999999999999999999999999999999999999999 689999999999999999998632


Q ss_pred             cccchhhhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHH
Q psy210          402 YFLEKKKIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVK  480 (915)
Q Consensus       402 ~~g~~~~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~  480 (915)
                                  +||||++||++++ ++++.||+.+++++++||||+|||+|+..|+||||||+.|.||.+...+.+.|.
T Consensus       155 ------------~gsIt~l~T~~~d~~~~~~~~i~~~~~~~~~~~ivls~~la~~~~~paI~vl~s~sr~~~ll~~~~~~  222 (249)
T cd01128         155 ------------GGSLTIIATALVDTGSRMDDVIFEEFKGTGNMELVLDRRLAERRIFPAIDILKSGTRKEELLLDPEEL  222 (249)
T ss_pred             ------------CCceEEeeeheecCCCcccchHHHHHhcCCCcEEEEchHHhhCCCCCeEEEcCCCCccchhhCCHHHH
Confidence                        7999999999999 677888999999999999999999999999999999999999999988889999


Q ss_pred             HHHHHHHHHHHhhHHHHhhhhcc
Q psy210          481 KLSGDIRIMLAQYRELESFSKFS  503 (915)
Q Consensus       481 ~~a~~lr~~la~~~e~e~l~~lG  503 (915)
                      +.+.++|+.++.|++++++..+-
T Consensus       223 ~~~~~~r~~~~~~~~~~~~~~~~  245 (249)
T cd01128         223 QRMWLLRRVLSDMDPIEAMEFLL  245 (249)
T ss_pred             HHHHHHHHHHHccChHHHHHHHH
Confidence            99999999999999999987653

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.

>KOG1353|consensus

Probab=100.00  E-value=6.5e-47  Score=385.89  Aligned_cols=270  Identities=49%  Similarity=0.768  Sum_probs=254.2

Q ss_pred             hcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCcccc
Q psy210          163 AQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLL  242 (915)
Q Consensus       163 a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~  242 (915)
                      .+.+++.+|+....++.|+.|..|+....+|+++.++||++|.+|+|+|+++++...+++        +..|..+.+|++
T Consensus        61 ~~~vg~v~~g~d~~ikeg~~VkrTgaIvDVpvg~~LlgrvvdAlGn~idgkG~i~~~~~~--------ii~r~Sv~epmq  132 (340)
T KOG1353|consen   61 GENVGVVVFGEDSLIKEGDTVKRTAAISDVPPLKALLGRVGCALGEPIDGNGKISAKERR--------IIPRASVDEPMQ  132 (340)
T ss_pred             CCceEEEEEcCcceeccCceEEeeeeeeccCchHHHhhhhhhhhcCeecCCCCccccccc--------cccceeeechhh
Confidence            344577789999999999999999999999999999999999999999999988765432        788999999999


Q ss_pred             ccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcC--------CCeEEEEEeeccchhhHHHHHHHHhccCCcc
Q psy210          243 TGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN--------KNVICIYVCIGQKISSLINVINKLKYYNCMD  314 (915)
Q Consensus       243 TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~--------~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~  314 (915)
                      ||++|+|++.|||||||.+|+|++++|||.|+.++|.||+.        ..++|||++||++.+.|..++++|.+.++|+
T Consensus       133 tg~KAvdslVpigRgqrELiIgdRqTGkTsla~dTI~nqk~~N~~~~ekkKiyCvyvaigqkrStvaqlv~~l~~~~a~~  212 (340)
T KOG1353|consen  133 TGLKAVDSLVPIGRGQRELIIGDRQTGKTSLAIDTILNQKRGNECLDEKKKIYCVYVAIGQKRSTVAQLVQRLEEADAME  212 (340)
T ss_pred             hhhhHhhceeeeccCceEEEeccccCCceeeeehhhhhhhhhcccccccceEEEEEEecccchhHHHHHHHHHHhcCCce
Confidence            99999999999999999999999999999999999999852        2589999999999999999999999999999


Q ss_pred             eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHh
Q psy210          315 YTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLE  394 (915)
Q Consensus       315 ~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~E  394 (915)
                      +|++|+++++                                                                      
T Consensus       213 y~ivv~atas----------------------------------------------------------------------  222 (340)
T KOG1353|consen  213 YSIVVAATAS----------------------------------------------------------------------  222 (340)
T ss_pred             EEEEEEeecc----------------------------------------------------------------------
Confidence            9999999987                                                                      


Q ss_pred             hhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc
Q psy210          395 RSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA  474 (915)
Q Consensus       395 Rag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~  474 (915)
                                                     +++|++.+||+|++|| ||||+|..+||.+|+.||||+..|+||+++.+
T Consensus       223 -------------------------------q~gdvsayiptnvisi-dgqi~l~t~lfy~girpainvg~svsrvgsaa  270 (340)
T KOG1353|consen  223 -------------------------------QAGDVSAYIPTNVISI-DGQIFLETELFYKGIRPAINVGLSVSRVGSAA  270 (340)
T ss_pred             -------------------------------cccceeeecccceeee-cchhHHHHHHHHhccchhheeeeEeeeccchH
Confidence                                           2457889999999999 99999999999999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHH
Q psy210          475 QYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILL  542 (915)
Q Consensus       475 ~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~  542 (915)
                      |.+.++++++.+|..|++|+|+..|++||++||..+++.|.++.++.++|+|+++.|...|+++..+|
T Consensus       271 q~kamkqvag~~klelaq~revaafaqfgsdlda~tq~~l~rg~rltellkq~qy~p~~~e~qv~~iy  338 (340)
T KOG1353|consen  271 QTKAMKQVAGSLKLELAQYREVAAFAQFGSDLDAATQQLLNRGVRLTELLKQGQYAPLAIEEQVAVIY  338 (340)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHHhcccccHHHHHHHHhhhHHHHHHhcCCCCCcchhhheeeEe
Confidence            99999999999999999999999999999999999999999999999999999999999999987665

>KOG2311|consensus

Probab=100.00  E-value=2.7e-45  Score=401.78  Aligned_cols=178  Identities=39%  Similarity=0.603  Sum_probs=165.5

Q ss_pred             CcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeecceeEEEEeecChhh
Q psy210           54 GPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFDPRC  133 (915)
Q Consensus        54 g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g~~~~~~~~~p~~  133 (915)
                      |||||||||+||+|||+| +|+|||||||+++++||+||||++||++.|.+++|.||||||++|+||||+++|||+||++
T Consensus       300 gPRYCPSiEsKilRFp~k-~HqiwLEpEGlDs~~iYpqG~S~tlpee~Q~~lir~IpGLEn~~i~qP~YgVeYDyv~prQ  378 (679)
T KOG2311|consen  300 GPRYCPSIESKILRFPDK-SHQIWLEPEGLDSDLIYPQGLSNTLPEELQLQLIRSIPGLENAEILQPGYGVEYDYVDPRQ  378 (679)
T ss_pred             CCccCCcHHHHHhcCccc-cceeeecCcCCCCCcccccccccCCCHHHHHHHHHhccCcccceeecccccceecccChHH
Confidence            999999999999999997 9999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeecCC
Q psy210          134 LNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNK  213 (915)
Q Consensus       134 L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~  213 (915)
                      |.++||+|..+|+|||||||||+||+||||||++|+++.+.+..        -.+++.+++.++|+|.+||++-    .+
T Consensus       379 lk~sLeTkkV~GLF~AGQINGTTGYEEAAAQGIiAGiNA~~~a~--------~~~~~~v~Rte~yIGvLIDDL~----t~  446 (679)
T KOG2311|consen  379 LKPSLETKKVQGLFFAGQINGTTGYEEAAAQGIIAGINASLRAS--------GKPPVVVSRTEGYIGVLIDDLT----TL  446 (679)
T ss_pred             cchhhhhhhccceEEeeeecCccchHHHHhhhhHhhhhhhhhhc--------CCCCeeeecccceeEEEehhhh----cc
Confidence            99999999999999999999999999999999999987663332        1468899999999999999986    56


Q ss_pred             Cccccc--ccccccccCCCCCcccccCccccccceeeeccccccc
Q psy210          214 KKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGK  256 (915)
Q Consensus       214 ~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigr  256 (915)
                      +..+||  ++++.+.   ++..|.+         +|.-+|+|+|+
T Consensus       447 g~~EPYRMfTSRsEf---RLslR~D---------NAD~RLT~lg~  479 (679)
T KOG2311|consen  447 GTNEPYRMFTSRSEF---RLSLRPD---------NADSRLTPLGY  479 (679)
T ss_pred             CCccchhhhcchhhh---eeeecCC---------ccccccccchh
Confidence            667776  5777787   8999999         99999999997

>TIGR00136 gidA glucose-inhibited division protein A

Probab=100.00  E-value=3.3e-42  Score=402.73  Aligned_cols=220  Identities=38%  Similarity=0.576  Sum_probs=194.0

Q ss_pred             cccccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeeccee
Q psy210           43 NSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAY  122 (915)
Q Consensus        43 ~~l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g~  122 (915)
                      ..++...|.|+|||||||||+|++||++|++|++||||||++++++|+|||||+|||++|++++|+||||||++|+||||
T Consensus       257 s~~~~g~i~~~GpRYCpsIe~k~~~f~~~~~h~v~lepe~~~~~~~~~~G~st~lp~~~q~~i~~~ipGle~a~~~r~gy  336 (617)
T TIGR00136       257 SPMYSGVIEGNGPRYCPSIEDKVVRFADKERHQIFLEPEGLNSDEIYPNGLSTSLPEDVQLQIVRSIPGLENAEILRPGY  336 (617)
T ss_pred             ccccCcccCCCCCCCCCCHHHHHhhcCCCCCceEEEeecCCCCCeEEecCeecCCCHHHHHHHHHcCcCcccceEecccc
Confidence            44788899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeE
Q psy210          123 NIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      +|||||+||++|+++||+|..+|+|+||||+||+||+||++||++|+++.+.... .       .+|+.+++.++|+|.+
T Consensus       337 ~~e~~~i~p~~l~~~le~k~~~gLf~AGqi~Gt~Gy~eAaa~Gl~Ag~naa~~~~-~-------~~~~~l~r~~~yiGvl  408 (617)
T TIGR00136       337 AIEYDFFDPRQLKPTLETKLIQGLFFAGQINGTTGYEEAAAQGLMAGINAALKLQ-N-------KEPFILKRSEAYIGVL  408 (617)
T ss_pred             ceEEeEEChhhCchhheeCCCCCeEEccccCCcchHHHHHHHHHHHHHHHHHHhc-C-------CCCCCCCcccchHhHH
Confidence            9999999999999999999999999999999999999999999999996654433 1       3578889999999999


Q ss_pred             eCCCceeecCCCccccc--ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          203 VNSKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       203 iD~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      +|++-    .++..+||  ++++.|+   ++..|.+         +|+.+|+++|+  ++|++++..             
T Consensus       409 iddlv----tkg~~EPYRmfTSRaE~---Rl~lR~d---------NAd~RL~~~g~--~~gl~~~~~-------------  457 (617)
T TIGR00136       409 IDDLV----TKGTKEPYRMFTSRAEY---RLLLRED---------NADFRLTEIGR--ELGLIDDER-------------  457 (617)
T ss_pred             HHHHH----hcCCCcchhhccchhHH---HHHhccc---------cHHHHHHHHHH--HhCCCCHHH-------------
Confidence            99986    67777887  6888888   9999999         99999999887  455776544             


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhcc
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKYY  310 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~~  310 (915)
                               |..+-++.+.+.+.++.|++.
T Consensus       458 ---------~~~~~~~~~~~~~~~~~l~~~  478 (617)
T TIGR00136       458 ---------YARFLKKKENIEEEIQRLKST  478 (617)
T ss_pred             ---------HHHHHHHHHHHHHHHHHHhcC
Confidence                     223445566677777777654

GidA, the longer of two forms of GidA-related proteins, appears to be present in all complete eubacterial genomes so far, as well as Saccharomyces cerevisiae. A subset of these organisms have a closely related protein. GidA is absent in the Archaea. It appears to act with MnmE, in an alpha2/beta2 heterotetramer, in the 5-carboxymethylaminomethyl modification of uridine 34 in certain tRNAs. The shorter, related protein, previously called gid or gidA(S), is now called TrmFO (see model TIGR00137).

>TIGR00137 gid_trmFO tRNA:m(5)U-54 methyltransferase

Probab=100.00  E-value=1.9e-40  Score=376.77  Aligned_cols=142  Identities=22%  Similarity=0.342  Sum_probs=133.2

Q ss_pred             ccChhh------hhhcCCC-C------------CcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeee
Q psy210           58 CPSIED------KIYKFPN-T------------KNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSII  118 (915)
Q Consensus        58 ~~si~~------k~~~~~~-~------------~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~  118 (915)
                      |||||+      |++||++ |            ++|+|||||||+++++||+|||||+|||++|+|+||+|||||||+|+
T Consensus       224 C~~iE~~a~~g~k~~rf~~~kp~gl~~p~~~~~~~~~v~l~~e~~~~~~~~~~G~~t~l~~~~Q~~~~r~ipgle~a~~~  303 (433)
T TIGR00137       224 CLPIEEMAQRGEKTMLFGPMKPVGLFDPRTGKKPYAVVQLRQEDKAGTLWNMVGFQTNLRWGEQKRVFRLIPGLENAEFV  303 (433)
T ss_pred             CCCHHHHhhcCCceEecCCCCccCCCCCCCCCCCceEEEEeccccCCCEEecccccCCCCHHHHHHHHhcCcCccceEEe
Confidence            999999      9999998 6            99999999999999999999999999999999999999999999999


Q ss_pred             cceeEEEEeecC-hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccc
Q psy210          119 RFAYNIEYDYFD-PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFE  197 (915)
Q Consensus       119 r~g~~~~~~~~~-p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~  197 (915)
                      |||||||||||| |++|+++||+|..+|+||||||||||||+||++||++|+++.+....         |+++.+++.++
T Consensus       304 r~g~~~~~~~i~~p~~L~~~l~~k~~~~lf~AGQi~G~~GY~Eaaa~Gl~agina~~~~~---------~~~~~~~~~~~  374 (433)
T TIGR00137       304 RMGVMHRNTFINSPQLLTASLHFKDRQTLFFAGQLTGVEGYVASTAGGWLAGINAARLAL---------GEPLLTLPAET  374 (433)
T ss_pred             ecceEEeeeeeCCHHHhhHHhccCCCCCEEECcccccchHHHHHHHHHHHHHHHHHHHHc---------CCCCCCCCCcc
Confidence            999999999999 79999999999999999999999999999999999999997665444         45555666999


Q ss_pred             cceeEeCCCce
Q psy210          198 LLGRIVNSKGE  208 (915)
Q Consensus       198 lLGrviD~lG~  208 (915)
                      |+|.++|++-.
T Consensus       375 ~iG~l~~~l~~  385 (433)
T TIGR00137       375 MMGALFNYIST  385 (433)
T ss_pred             hHHHHHHHHhc
Confidence            99999999954

This model represents an orthologous set of proteins present in relatively few bacteria but very tightly conserved where it occurs. It is closely related to gidA (glucose-inhibited division protein A), which appears to be present in all complete eubacterial genomes so far and in Saccharomyces cerevisiae. It was designated gid but is now recognized as a tRNA:m(5)U-54 methyltransferase and is now designated trmFO.

>PF01134 GIDA: Glucose inhibited division protein A; InterPro: IPR002218 GidA is a tRNA modification enzyme found in bacteria and mitochondria

Probab=100.00  E-value=8.3e-40  Score=366.26  Aligned_cols=140  Identities=46%  Similarity=0.728  Sum_probs=117.4

Q ss_pred             hccCccccc-ccccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCcc
Q psy210           35 ISRQPELEN-SLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLN  113 (915)
Q Consensus        35 ~aRqPe~~~-~l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~  113 (915)
                      +.|.-+-.+ .+|...|-++|||||||||+|++||++|++|+|||||||+++++||+|||||+|||++|+++||+|||||
T Consensus       246 ~i~~~~~~s~~~~~g~ie~~gpRycpsie~K~v~f~~~~~h~v~Lepe~~~~~~~y~~G~stslp~~~Q~~~~r~IpGLe  325 (392)
T PF01134_consen  246 IIRDNLHRSPDLFEGCIEGIGPRYCPSIEDKPVRFPDRPYHQVFLEPEGLNTNEYYPNGFSTSLPWDVQKRIFRSIPGLE  325 (392)
T ss_dssp             HHHHTCCG-T-T-TT-CHHCHCCCTTCHHHHHTTSTSTSSEEEEEEESSTTS-EEEEETS-CSS-HHHHHHHHTTSTTTT
T ss_pred             HHHhccccCcceecceeEEeccCCccchhcccccccCCCCEEEEEEecCCCCceEEecCCcCCCCHHHHHHHhhcCCChh
Confidence            333334443 3788888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeeecceeEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhcccc
Q psy210          114 YSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDL  174 (915)
Q Consensus       114 ~a~~~r~g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~  174 (915)
                      ||+|+||||+||||||||.+|..+||+|..+|+|+||||+||+||+||++||++|+++...
T Consensus       326 ~a~~~r~Gy~~ey~~v~~~~l~~~l~~k~~~~lf~AGqi~G~~Gy~eaaa~G~~ag~na~~  386 (392)
T PF01134_consen  326 NAEILRPGYAHEYDFVDPPQLLNTLETKKIPGLFFAGQINGTEGYEEAAAQGLIAGINAAR  386 (392)
T ss_dssp             T--EEE--EEEEEEEE-GGGBBTTSBBSSSBTEEE-GGGGTB-SHHHHHHHHHHHHHHHHH
T ss_pred             cChhhheEEeeeeeEEehhhcccceEECCCCCceECCCCcchhHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999986543

Though its precise molecular function of these proteins is not known, it is involved in the 5-carboxymethylaminomethyl modification of the wobble uridine base in some tRNAs [, ]. Sequence variations in the human mitochondrial protein may influence the severity of aminoglycoside-induced deafness []. This entry is found in GidA and related proteins, such as the methylenetetrahydrofolate--tRNA-(uracil-5-)-methyltransferase enzyme TrmFO.; GO: 0050660 flavin adenine dinucleotide binding, 0008033 tRNA processing; PDB: 3CES_C 3CP2_A 3G05_A 2CUL_A 3CP8_A 2ZXI_B 2ZXH_A 3G5S_A 3G5R_A 3G5Q_A.

>COG1158 Rho Transcription termination factor [Transcription]

Probab=100.00  E-value=5.2e-37  Score=325.45  Aligned_cols=233  Identities=21%  Similarity=0.282  Sum_probs=209.6

Q ss_pred             eeeeccccccccceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEec
Q psy210          246 KSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAAT  322 (915)
Q Consensus       246 ~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~  322 (915)
                      |+||.+.|||+|||.+|++++.+|||+| |+.|+|.   +++++..+..+|.||++||+++.+..+       ..||++|
T Consensus       162 RviDL~~PIGkGQR~LIVAPPkaGKT~l-Lq~IA~aIt~N~Pe~~LiVLLIDERPEEVTdmqrsV~-------geViaST  233 (422)
T COG1158         162 RVIDLISPIGKGQRGLIVAPPKAGKTTL-LQNIANAITTNHPECELIVLLIDERPEEVTDMQRSVK-------GEVVAST  233 (422)
T ss_pred             HHHhhhcccCCCceeeEecCCCCCchHH-HHHHHHHHhcCCCceEEEEEEecCCchHHHHHHHhhc-------ceEEeec
Confidence            7899999999999999999999999999 8999984   688999999999999999999999884       6899999


Q ss_pred             CCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhccccc
Q psy210          323 AADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKY  402 (915)
Q Consensus       323 a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~  402 (915)
                      .|+||..++..+.+.+.-|..+.++|+||++++||+||+|+||+-+.-..|+..+. |..+..++..-|.+--|.++   
T Consensus       234 FDepp~~HvqVAE~viEkAKRlVE~~kDVVILLDSITRLaRAYN~v~P~SGkvLsG-GvD~nAL~~PKrFFGAARNI---  309 (422)
T COG1158         234 FDEPPSRHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSG-GVDANALHRPKRFFGAARNI---  309 (422)
T ss_pred             CCCcchhhHHHHHHHHHHHHHHHHcCCcEEEEehhHHHHHHHhcccCCCCCCeecC-CcChhhhcCchhhhhhhhcc---
Confidence            99999999999999999999999999999999999999999999999888888763 66655555555555555555   


Q ss_pred             ccchhhhccCCCCccceeEEEEecCCC-CCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHH
Q psy210          403 FLEKKKIFNKNNGTLTAFPIIETLEGD-VTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKK  481 (915)
Q Consensus       403 ~g~~~~~~~~~~GSiT~~~~v~~~~~d-~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~  481 (915)
                               +.|||+|+++|.+++.|. |++.|.++++++.+..++|||+|+++++|||||+.+|.+|-..-...+++.+
T Consensus       310 ---------EeGGSLTIiATALVdTGSrMDeVIfEEFKGTGNmEl~LdR~laerRifPAIdi~kSGTRKEeLLl~~~~l~  380 (422)
T COG1158         310 ---------EEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAERRIFPAIDINKSGTRKEELLLSPDELQ  380 (422)
T ss_pred             ---------ccCcchhhhhhhhhhcCCccchhhhhhhcCCCceEEEEhhhhhhcccccceecccCCcchHhhcCCHHHHH
Confidence                     449999999999999765 8999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhHHHHhh
Q psy210          482 LSGDIRIMLAQYRELESF  499 (915)
Q Consensus       482 ~a~~lr~~la~~~e~e~l  499 (915)
                      -.+.||+.++...+.+.+
T Consensus       381 k~w~lRr~l~~md~~~a~  398 (422)
T COG1158         381 KMWVLRRILSPMDEIDAI  398 (422)
T ss_pred             HHHHHHHHhcCCChHHHH
Confidence            999999998875554443

>PRK05335 tRNA (uracil-5-)-methyltransferase Gid; Reviewed

Probab=100.00  E-value=6.5e-37  Score=345.65  Aligned_cols=143  Identities=27%  Similarity=0.360  Sum_probs=133.4

Q ss_pred             ccChhhhhhcCCCCCcc-------------------eeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeee
Q psy210           58 CPSIEDKIYKFPNTKNH-------------------QIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSII  118 (915)
Q Consensus        58 ~~si~~k~~~~~~~~~~-------------------~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~  118 (915)
                      |||||+|++||+++.+|                   +|||||||+++++||+|||||+|||++|+|+||+|||||||+|+
T Consensus       225 C~~iE~~a~r~~~~~~~gp~kpvgl~~p~~~~~~~a~v~L~~e~~~~~~~~~~Gfqt~l~~~~Q~~~~r~Ipgle~a~~~  304 (436)
T PRK05335        225 CMPIEVMAERGRETLRFGPMKPVGLTDPRTGKRPYAVVQLRQDNAAGTLYNIVGFQTKLKWGEQKRVFRMIPGLENAEFV  304 (436)
T ss_pred             CCCHHHHHhhcccccccCCCCcccccCcccCCCcceEEEEecCCCCCCeEecccccCCCCHHHHHHHHhcccchhceEEE
Confidence            99999999999999999                   99999999999999999999999999999999999999999999


Q ss_pred             cceeEEEEeecC-hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccc
Q psy210          119 RFAYNIEYDYFD-PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFE  197 (915)
Q Consensus       119 r~g~~~~~~~~~-p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~  197 (915)
                      |||||||||||| |.+|+++|++|..+|+||||||+||+||+||+++|++|+++......         |+++.+++.++
T Consensus       305 r~G~~~~~~~i~~p~~l~~~l~~k~~~~l~~AGqi~g~~Gy~ea~a~G~~Ag~n~~~~~~---------g~~~~~~~~~~  375 (436)
T PRK05335        305 RYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAGQITGVEGYVESAASGLLAGINAARLAL---------GKEPVIPPPTT  375 (436)
T ss_pred             eceEEeeccccCChhhCchhccccCCCCEEeeeeecCchHHHHHHHHHHHHHHHHHHHhc---------CCCCCCCCccC
Confidence            999999999999 99999999999999999999999999999999999999987654433         55666667777


Q ss_pred             cceeEeCCCcee
Q psy210          198 LLGRIVNSKGEF  209 (915)
Q Consensus       198 lLGrviD~lG~P  209 (915)
                      ++|.++|++-++
T Consensus       376 ~iG~l~~~l~~~  387 (436)
T PRK05335        376 ALGALLNYITGA  387 (436)
T ss_pred             cHHHHHHHHhcC
Confidence            899999999654

>KOG1353|consensus

Probab=100.00  E-value=1.7e-34  Score=295.20  Aligned_cols=254  Identities=22%  Similarity=0.329  Sum_probs=232.2

Q ss_pred             ccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEE
Q psy210          549 FFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRIL  628 (915)
Q Consensus       549 Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~  628 (915)
                      |+++..+|+.+|.+.+.               .+..++..+.+....|++..-++.|+.|..|+....+|+++.++|||.
T Consensus        37 L~nvQAeEmvEFssGlK---------------gmalnle~~~vg~v~~g~d~~ikeg~~VkrTgaIvDVpvg~~Llgrvv  101 (340)
T KOG1353|consen   37 LTNVQAEEMVEFSSGLK---------------GMALNLEGENVGVVVFGEDSLIKEGDTVKRTAAISDVPPLKALLGRVG  101 (340)
T ss_pred             ccccchHHHHhhhcccc---------------chhccccCCceEEEEEcCcceeccCceEEeeeeeeccCchHHHhhhhh
Confidence            57778888888887755               478889999999999999999999999999999999999999999999


Q ss_pred             cccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          629 NVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       629 d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      |++|+|+|+++++...+++        ...|....||.+||++++|++.|||||||.+|.|++.+|||.|..+.+.|++.
T Consensus       102 dAlGn~idgkG~i~~~~~~--------ii~r~Sv~epmqtg~KAvdslVpigRgqrELiIgdRqTGkTsla~dTI~nqk~  173 (340)
T KOG1353|consen  102 CALGEPIDGNGKISAKERR--------IIPRASVDEPMQTGLKAVDSLVPIGRGQRELIIGDRQTGKTSLAIDTILNQKR  173 (340)
T ss_pred             hhhcCeecCCCCccccccc--------cccceeeechhhhhhhHhhceeeeccCceEEEeccccCCceeeeehhhhhhhh
Confidence            9999999999988765543        56788999999999999999999999999999999999999999999998875


Q ss_pred             cCC-------cEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEe
Q psy210          709 EHK-------GCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFI  781 (915)
Q Consensus       709 ~~~-------~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~  781 (915)
                      .+.       -.|||+.||++...|..+++.+.+.++|++|++|++|++                               
T Consensus       174 ~N~~~~ekkKiyCvyvaigqkrStvaqlv~~l~~~~a~~y~ivv~atas-------------------------------  222 (340)
T KOG1353|consen  174 GNECLDEKKKIYCVYVAIGQKRSTVAQLVQRLEEADAMEYSIVVAATAS-------------------------------  222 (340)
T ss_pred             hcccccccceEEEEEEecccchhHHHHHHHHHHhcCCceEEEEEEeecc-------------------------------
Confidence            432       259999999999999999999999999999999999987                               


Q ss_pred             cchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEe
Q psy210          782 DNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVL  861 (915)
Q Consensus       782 Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivL  861 (915)
                                                                               .++|.+.+||.++.|| ||||+|
T Consensus       223 ---------------------------------------------------------q~gdvsayiptnvisi-dgqi~l  244 (340)
T KOG1353|consen  223 ---------------------------------------------------------QAGDVSAYIPTNVISI-DGQIFL  244 (340)
T ss_pred             ---------------------------------------------------------cccceeeecccceeee-cchhHH
Confidence                                                                     7889999999999999 999999


Q ss_pred             eHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          862 SRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       862 sr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ..+|+.+|+.||||+..|+||+.+ ...-+..++++..+|-.|++|+|+..++|
T Consensus       245 ~t~lfy~girpainvg~svsrvgs-aaq~kamkqvag~~klelaq~revaafaq  297 (340)
T KOG1353|consen  245 ETELFYKGIRPAINVGLSVSRVGS-AAQTKAMKQVAGSLKLELAQYREVAAFAQ  297 (340)
T ss_pred             HHHHHHhccchhheeeeEeeeccc-hHHHHHHHHHhhhhhhHHHHHHHHHHHHH
Confidence            999999999999999999999985 34457889999999999999999998875

>COG1206 Gid NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=2.3e-33  Score=297.34  Aligned_cols=164  Identities=24%  Similarity=0.316  Sum_probs=141.8

Q ss_pred             HHHhhhccCcccccccccceeeccCcccccChhhhhhcCC--CCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHH
Q psy210           30 KLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYKFP--NTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIK  107 (915)
Q Consensus        30 ~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~k~~~~~--~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~  107 (915)
                      +++|++-...+|+.+-..+|..|  |-=---++|-  |-+  .+++.+|+||+||..+++||+|||||+|+|++|+|+||
T Consensus       222 ~~FegCmPIE~mA~rG~~Tl~~G--PmKPvGL~~p--~~~tgk~pYAVVQLRqdna~GtLynmVGFQT~LkwgeQkrVf~  297 (439)
T COG1206         222 KYFEGCMPIEVMAERGRKTLRFG--PMKPVGLEDP--RDPTGKRPYAVVQLRQDNAAGTLYNMVGFQTHLKWGEQKRVFR  297 (439)
T ss_pred             ccccccCcHHHHHhhCcchhccC--CCCCcCCCCC--CCCCCCCceEEEEeeccccccceeeeeeeeeccchhhhhhhhh
Confidence            46777777788888877777663  2111112221  211  13899999999999999999999999999999999999


Q ss_pred             HhcCccceeeecceeEEEEeecC-hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCccccc
Q psy210          108 KITGLNYSSIIRFAYNIEYDYFD-PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCT  186 (915)
Q Consensus       108 ~ipgl~~a~~~r~g~~~~~~~~~-p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~t  186 (915)
                      +|||||||+|+|||+||||+||| |..|++++++|..+++||||||+|+|||+||+|.|++|++|.+...+         
T Consensus       298 mIPgLeNAefvRyGvmHRNtfinSP~lL~~tl~lk~~p~l~fAGQitG~EGYveSaA~Gllag~naa~~~~---------  368 (439)
T COG1206         298 MIPGLENAEFVRYGVMHRNTFINSPKLLDPTLQLKKRPNLFFAGQITGVEGYVESAASGLLAGINAARLAL---------  368 (439)
T ss_pred             hcCCcchhhhhhccceecccccCChhhhhHHhhcccCCCcEEeeeeecchhhhHHhhhhHHHhhHHHHHhc---------
Confidence            99999999999999999999999 99999999999999999999999999999999999999998777666         


Q ss_pred             CccceeccccccceeEeCCC
Q psy210          187 EKIFEIPVGFELLGRIVNSK  206 (915)
Q Consensus       187 g~~~~vpvg~~lLGrviD~l  206 (915)
                      |+++.+++.++++|.+++.+
T Consensus       369 g~~~~~~P~tT~~Gal~~yI  388 (439)
T COG1206         369 GEEPLIPPPTTALGALVNYI  388 (439)
T ss_pred             CCCCCCCCchhHHHHHHHHH
Confidence            77889999999999999887

>PRK05880 F0F1 ATP synthase subunit C; Validated

Probab=99.20  E-value=4.1e-12  Score=111.57  Aligned_cols=55  Identities=31%  Similarity=0.561  Sum_probs=51.4

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      ++++++|+++|+|++|+|+|+|+++++++|++|||||++++++++||+|.+..+.
T Consensus         8 ~~~igagla~glaaiGagiG~G~v~~~a~eaiaRqPEa~~~l~~~m~iG~Al~Ea   62 (81)
T PRK05880          8 GALIGGGLIMAGGAIGAGIGDGVAGNALISGVARQPEAQGRLFTPFFITVGLVEA   62 (81)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChhHHHhHHHHHHHHHHHHHH
Confidence            5689999999999999999999999999999999999999999999998886654

>PRK06876 F0F1 ATP synthase subunit C; Validated

Probab=99.16  E-value=5.2e-12  Score=110.44  Aligned_cols=61  Identities=43%  Similarity=0.652  Sum_probs=55.2

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhh
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIED   63 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~   63 (915)
                      ..+++++|+++|+|++|+|+|+|+++++++|++|||||++++++++||++.+..+.-.|-.
T Consensus         6 ~~~~i~agla~glaaiGagiG~G~~~~~a~~~iaRqPe~~~~l~~~~~ig~Al~Ea~~i~~   66 (78)
T PRK06876          6 GLTAIAAAIAIGLAALGAAIGIGLLGGKFLEGAARQPELIPMLQTKMFIGAGLVDAIPIIG   66 (78)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            4678999999999999999999999999999999999999999999999988776654443

>PRK13466 F0F1 ATP synthase subunit C; Provisional

Probab=99.10  E-value=1.3e-11  Score=104.34  Aligned_cols=58  Identities=29%  Similarity=0.418  Sum_probs=50.7

Q ss_pred             HHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhhhhh
Q psy210            9 ASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIY   66 (915)
Q Consensus         9 ~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~k~~   66 (915)
                      +++++|+|++|+|+|+|+++++++|+++||||++++++++||+|.+..+.-.|-.-++
T Consensus         4 ~~l~~glaa~GagiG~G~~~~~~~e~vaRqPea~~~l~~~~~ig~al~Ea~~i~alvi   61 (66)
T PRK13466          4 GALALGLACLGVSIGEGLLVASYLSSTARQPEMQSKLMAGVFLGVAFIEGTFFVTLAM   61 (66)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHcChhHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence            3588899999999999999999999999999999999999999988777655544443

>PRK13464 F0F1 ATP synthase subunit C; Provisional

Probab=99.08  E-value=2.2e-11  Score=110.55  Aligned_cols=62  Identities=35%  Similarity=0.647  Sum_probs=55.3

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhhhh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKI   65 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~k~   65 (915)
                      ++.+++|+++|+|++|+|+|+|+++++++|++|||||++++++++||+|.+..+.-.|-.-+
T Consensus        14 ~~~i~agl~iglaaiGagiGiG~v~~~ale~iARQPEa~~~l~t~m~IG~AliEa~ai~alv   75 (101)
T PRK13464         14 LTAVAVALLISLPALGTAIGFGVLGGKYLEGVARQPELGGMLLGRMFIVAAFVDAFAAISIA   75 (101)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChhHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            56789999999999999999999999999999999999999999999998877665554443

>MTH00222 ATP9 ATP synthase F0 subunit 9; Provisional

Probab=99.07  E-value=1.8e-11  Score=106.72  Aligned_cols=57  Identities=21%  Similarity=0.339  Sum_probs=51.5

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccC
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPS   60 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~s   60 (915)
                      ..+.+++|+++ ++++|+|+|+|+++++++|++|||||++++++++||+|.+..+.-.
T Consensus         7 ~~~~igaGla~-iaa~GagiG~G~~~~~~~e~vaRqPe~~~~l~~~~~ig~Al~Ea~~   63 (77)
T MTH00222          7 AAKFVGAGAAT-IGAAGSGAGIGTVFGNLIIGYARNPSLKQQLFTYAILGFAISEAMG   63 (77)
T ss_pred             HHHHHHHHHHH-HHhhhhHHHHHHHHHHHHHHHHcChhhHHhHHHHHHHHHHHHHHHH
Confidence            35788999998 9999999999999999999999999999999999999988765533

>PRK13467 F0F1 ATP synthase subunit C; Provisional

Probab=99.07  E-value=2.3e-11  Score=102.71  Aligned_cols=52  Identities=27%  Similarity=0.334  Sum_probs=45.9

Q ss_pred             HHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210           10 SIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus        10 ~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      .+++|+|++|+|+|+|+++++++|++|||||++++++++||+|.+.-+.-.|
T Consensus         5 ~i~~GlaaiGagiG~G~v~~~a~e~iaRqPE~~~~i~~~m~ig~Al~Ea~~i   56 (66)
T PRK13467          5 ILALALACMGVSLGEGFLMANLFKSAARQPEMIGQLRSLMILGVAFIEGTFF   56 (66)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHcChhHHHhHHHHHHHHHHHHHHHHH
Confidence            3567888999999999999999999999999999999999999887655333

>PRK07558 F0F1 ATP synthase subunit C; Validated

Probab=99.04  E-value=3.7e-11  Score=104.19  Aligned_cols=58  Identities=17%  Similarity=0.291  Sum_probs=52.4

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      .++.+++|+++ ++++|+|+|+|+++++++|++|||||++++++++||+|.+.-+.-.|
T Consensus         5 ~~~~igagla~-laa~GagiG~G~~~~~a~e~iaRqPe~~~~l~~~~~ig~Al~Ea~~i   62 (74)
T PRK07558          5 ALKFIGAGLAC-IGMAGAALGVGNIFGNYLSGALRNPSAADSQFGYLLIGAALAEALGI   62 (74)
T ss_pred             HHHHHHHHHHH-HHhhhHHHHHHHHHHHHHHHHHcCchHHHhHHHHHHHHHHHHHHHHH
Confidence            36789999998 99999999999999999999999999999999999999887665433

>PRK08482 F0F1 ATP synthase subunit C; Validated

Probab=99.04  E-value=3.2e-11  Score=111.13  Aligned_cols=62  Identities=24%  Similarity=0.410  Sum_probs=55.2

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhhhh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKI   65 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~k~   65 (915)
                      .+++++|+++|+|++|+|+|+|+++++++|+++||||++++++++||+|.+..+.-.|-.-+
T Consensus        31 ~~~igagla~Glaa~GagiG~G~~~~~a~e~iaRqPe~~~~i~~~~~ig~Al~Ea~~i~alv   92 (105)
T PRK08482         31 YSVLAAGIGLGIAALGGAIGMGNTAAATIAGTARNPGLGGKLMTTMFIALAMIEAQVIYALV   92 (105)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChhHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence            56899999999999999999999999999999999999999999999998877665554433

>PRK07874 F0F1 ATP synthase subunit C; Validated

Probab=99.03  E-value=4.4e-11  Score=104.65  Aligned_cols=56  Identities=38%  Similarity=0.551  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhh
Q psy210            8 AASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIED   63 (915)
Q Consensus         8 ~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~   63 (915)
                      .+.+++|+|++|+|+|+|+++++++|++|||||+++++++.||+|.+..+.-.|-.
T Consensus        18 ~~~ig~GlaaiGagiG~G~~~~~a~e~iARqPEa~~~l~~~m~lG~Al~Ea~~i~~   73 (80)
T PRK07874         18 LGAVGYGLAAIGPGIGVGIVVGKALEGMARQPEMAGQLRTTMFLGIAFVEALALIG   73 (80)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHhHHHhHHHHHHHHHHHHHHHHHHH
Confidence            34577889999999999999999999999999999999999999988766544433

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=99.00  E-value=1.6e-08  Score=100.00  Aligned_cols=160  Identities=33%  Similarity=0.485  Sum_probs=123.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGL  764 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~  764 (915)
                      ++|+|++|+|||+++..++..... +...++|....+...+..+....+...+..++..++....+........      
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~-~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------   74 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIAT-KGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLL------   74 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHh-cCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHH------
Confidence            579999999999999999997764 3456778878877777765554455555566666666666655444332      


Q ss_pred             HHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCC
Q psy210          765 SIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLT  844 (915)
Q Consensus       765 ~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~  844 (915)
                      .++.++....+..++++|+++.+.+...+.         ..+++..+...+..|.+++.   ...+|++.+.-...++..
T Consensus        75 ~~~~~~~~~~~~~~lviDe~~~~~~~~~~~---------~~~~~~~~~~~l~~l~~~~~---~~~~~vv~~~~~~~~~~~  142 (165)
T cd01120          75 SKAERLRERGGDDLIILDELTRLVRALREI---------REGYPGELDEELRELLERAR---KGGVTVIFTLQVPSGDKG  142 (165)
T ss_pred             HHHHHHHhCCCCEEEEEEcHHHHHHHHHHH---------HhcCChHHHHHHHHHHHHHh---cCCceEEEEEecCCcccc
Confidence            556778888888899999999999876653         34677788888999998874   368999999999998888


Q ss_pred             CC----cccccccccCcEEEeeH
Q psy210          845 DP----SPSTTFTHLDSTIVLSR  863 (915)
Q Consensus       845 dp----i~~~~~~i~dg~ivLsr  863 (915)
                      ++    ....+....|+.|+|+|
T Consensus       143 ~~~~~~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         143 DPRLTRGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             CcccccCccceeeecceEEEEeC
Confidence            88    88889999999999976

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.

>TIGR03322 alt_F1F0_F0_C alternate F1F0 ATPase, F0 subunit C

Probab=98.99  E-value=9.7e-11  Score=104.39  Aligned_cols=58  Identities=21%  Similarity=0.366  Sum_probs=52.6

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      .+++++|+++|++++|+|+|+|+++++++|+++||||+.++++++||++.+.-+.-.|
T Consensus         9 ~~~igagl~~gla~igagiG~G~~~~~a~e~iaRqPe~~~~i~~~m~ig~AlvEa~ai   66 (86)
T TIGR03322         9 ASIVTAGLTIAIGSIGPALGEGRAVAQALTALAQQPDASNTITRTLFVGLAMIESTAI   66 (86)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHHH
Confidence            5678999999999999999999999999999999999999999999998886655333

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 F0 subunit C of this apparent second ATP synthase.

>CHL00061 atpH ATP synthase CF0 C subunit

Probab=98.97  E-value=1.4e-10  Score=102.40  Aligned_cols=60  Identities=35%  Similarity=0.510  Sum_probs=54.1

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIED   63 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~   63 (915)
                      ++.+++|+++|++++|+|+|+|+++++++|++|||||+.++++++||++.+.-++-.|--
T Consensus         8 ~~~i~agl~~Gla~lgagig~G~~~~~a~~aiarqPe~~~~l~~~~~i~~al~Ea~aiy~   67 (81)
T CHL00061          8 ASVIAAGLAVGLASIGPGVGQGTAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALTIYG   67 (81)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHhhhHHHHHHHHHHHHHHHHHHH
Confidence            478899999999999999999999999999999999999999999999888766654433

>PRK13471 F0F1 ATP synthase subunit C; Provisional

Probab=98.94  E-value=2e-10  Score=102.01  Aligned_cols=58  Identities=28%  Similarity=0.540  Sum_probs=52.4

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      .+++++|+++|+|++|+|+|+|+++++++|+++||||+.++++++||++.+.-++-.|
T Consensus        15 ~~~igagla~glaaiGagiG~G~~~~~a~~avaRqPe~~g~l~~~~~ig~aL~Ea~~i   72 (85)
T PRK13471         15 GKYIGAGLCMGIGAIGPGIGEGNIGAHAMDAMARQPEMVGTITTRMLLADAVAETTGI   72 (85)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcChHHHhhHHHHHHHHHHHHHHHHH
Confidence            4578999999999999999999999999999999999999999999998887665433

>PRK13468 F0F1 ATP synthase subunit C; Provisional

Probab=98.93  E-value=2.4e-10  Score=101.21  Aligned_cols=59  Identities=19%  Similarity=0.310  Sum_probs=52.8

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      ..+++++|+++|++++|+|+|+|+++++++|+++||||+.++++++||++.+.-++-.|
T Consensus         7 ~~~~igaglaigla~lgagig~G~~~~~a~~~iaRqPe~~g~l~~~m~ig~al~E~~ai   65 (82)
T PRK13468          7 VVSIIAAGLAVSIGAIGPALAEGRAVAAALDAIAQQPDAAGTISRTLFVGLAMIESMAI   65 (82)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHHHHHHH
Confidence            35779999999999999999999999999999999999999999999998776555333

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=98.87  E-value=1.8e-07  Score=111.40  Aligned_cols=191  Identities=15%  Similarity=0.125  Sum_probs=107.7

Q ss_pred             cccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh--cCc
Q psy210          663 NNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE--SNV  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~--~~~  738 (915)
                      .+.+.|||.-+|-++.  +-+|.-+.|.|++|+|||+|+.+++.+..++ ..-++|+..-|.++++.+-.+.+.-  ...
T Consensus       252 ~~~~~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~-g~~~~yis~e~~~~~i~~~~~~~g~~~~~~  330 (509)
T PRK09302        252 NERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRR-GERCLLFAFEESRAQLIRNARSWGIDLEKM  330 (509)
T ss_pred             cccccCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhC-CCcEEEEEecCCHHHHHHHHHHcCCChHHH
Confidence            4457899999999986  8899999999999999999999999876543 4557777777766665544333210  001


Q ss_pred             cc--cEEEEEE-cCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHH
Q psy210          739 LD--KVSLIYG-QMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM  815 (915)
Q Consensus       739 ~~--~~~vv~~-t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l  815 (915)
                      .+  +..++.. +......+.      ...+.+...+.+.+ ++++||+|-+..+...               ..+-..+
T Consensus       331 ~~~g~l~i~~~~~~~~~~~~~------~~~i~~~i~~~~~~-~vVIDslt~l~~~~~~---------------~~~~~~l  388 (509)
T PRK09302        331 EEKGLLKIICARPESYGLEDH------LIIIKREIEEFKPS-RVAIDPLSALARGGSL---------------NEFRQFV  388 (509)
T ss_pred             hhcCCceeecCCcccCCHHHH------HHHHHHHHHHcCCC-EEEEcCHHHHHHhCCH---------------HHHHHHH
Confidence            11  1112221 111111121      22333444444555 7889999977543210               0111112


Q ss_pred             HHHHHHhcCCCCCceeEEEEEEecCCCCCCCcc-cccccccCcEEEeeHHHHhcCCCccccCCCC
Q psy210          816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSP-STTFTHLDSTIVLSRQIAELGIYPAIDPLES  879 (915)
Q Consensus       816 ~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~-~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S  879 (915)
                      ..|...+.   .-.+|++.|..++...-.++.. ..+.++.|+-|.|+..--.....-.+.+.+.
T Consensus       389 ~~l~~~~k---~~~~t~l~t~~~~~~~g~~~~~~~~~~~l~D~vI~L~~~~~~~~~~R~l~I~K~  450 (509)
T PRK09302        389 IRLTDYLK---SEEITGLFTNLTPDFMGSHSITESHISSLTDTWILLQYVEINGEMNRALYVLKM  450 (509)
T ss_pred             HHHHHHHH---hCCCeEEEEeccccccCCCCCCcCceEEeeeEEEEEEEeecCCeeEEEEEEEEc
Confidence            22222221   1236888887766532122222 2466788999999865433323344555554

>PRK07354 F0F1 ATP synthase subunit C; Validated

Probab=98.87  E-value=7.1e-10  Score=98.32  Aligned_cols=55  Identities=36%  Similarity=0.518  Sum_probs=51.1

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      ++.+++|+++|++++|+|+|+|.++++++|++|||||+.+++++.||++.+.-+.
T Consensus         8 ~~~igagl~~Gla~lgagig~G~~~~~~~~~iArqPe~~~~~~~~~~i~~al~Ea   62 (81)
T PRK07354          8 ASVVAAALAVGLAAIGPGIGQGNAAGGAVEGIARQPEAEGKIRGTLLLSLAFMES   62 (81)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHhhhhHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999998776554

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=98.86  E-value=6.2e-08  Score=95.75  Aligned_cols=160  Identities=33%  Similarity=0.438  Sum_probs=119.6

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhh
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCT  339 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~t  339 (915)
                      ++|+|++|+|||+++.+.+......+..++|....+......+....+...+..++..++.............      .
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~   75 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIEELTERLIGESLKGALDNLIIVFATADDPAAARLL------S   75 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchHHHHHHHhhhhhccccccEEEEEcCCCCCcHHHHH------H
Confidence            5799999999999965544444445566789888888877766655555555566666665555554443322      5


Q ss_pred             hHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccce
Q psy210          340 IGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA  419 (915)
Q Consensus       340 iAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~  419 (915)
                      ++.++.......++|+|+++.+.+...+.         ..+++..+...+.+|++++.                ...+|.
T Consensus        76 ~~~~~~~~~~~~~lviDe~~~~~~~~~~~---------~~~~~~~~~~~l~~l~~~~~----------------~~~~~v  130 (165)
T cd01120          76 KAERLRERGGDDLIILDELTRLVRALREI---------REGYPGELDEELRELLERAR----------------KGGVTV  130 (165)
T ss_pred             HHHHHHhCCCCEEEEEEcHHHHHHHHHHH---------HhcCChHHHHHHHHHHHHHh----------------cCCceE
Confidence            56777777777899999999999876653         34677777778888888854                358899


Q ss_pred             eEEEEecCCCCCCc----cccccccccCcEEEeeh
Q psy210          420 FPIIETLEGDVTSF----IPTNVISITDGQIFLDT  450 (915)
Q Consensus       420 ~~~v~~~~~d~~~p----i~~~~~~i~dgqi~Lsr  450 (915)
                      +.+...+.++..++    ..+.+.++.|+-|+|+|
T Consensus       131 v~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~~  165 (165)
T cd01120         131 IFTLQVPSGDKGDPRLTRGAQNLEDIADTVIVLSR  165 (165)
T ss_pred             EEEEecCCccccCcccccCccceeeecceEEEEeC
Confidence            99999998888888    88899999999999986

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.

>PRK07159 F0F1 ATP synthase subunit C; Validated

Probab=98.82  E-value=7.4e-10  Score=100.92  Aligned_cols=58  Identities=29%  Similarity=0.465  Sum_probs=52.0

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIE   62 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~   62 (915)
                      .+.+++|+++ +|++|+|+|+|+++++++|++|||||+++++++.||++.+.-++-.|-
T Consensus        31 ~~~igaGLa~-laaiGagiG~G~~~~~a~eaiARqPea~~~l~~~~~ig~Al~EalaI~   88 (100)
T PRK07159         31 AAYIGAGLAM-IGVIGVGLGQGYAFGKAVEAIARNPEAQKQVFKLLFIGSAISETSSIY   88 (100)
T ss_pred             HHHHHHHHHH-HHHhhHHHHHHHHHHHHHHHHHhChHHHHhHHHHHHHHHHHHHHHHHH
Confidence            4678999998 999999999999999999999999999999999999988876654443

>PF00306 ATP-synt_ab_C: ATP synthase alpha/beta chain, C terminal domain; InterPro: IPR000793 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=98.82  E-value=2.3e-08  Score=94.97  Aligned_cols=87  Identities=34%  Similarity=0.489  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHHHhhHHHHhhhh-ccC-CCCHHHHHHHHhHHHHHHHhhcCCCCCc-------c-HHHHHHHHHHHhcccc
Q psy210          480 KKLSGDIRIMLAQYRELESFSK-FSS-DLDIVTKTQLYNGEKISLLMKQKPHENY-------S-IVELIIILLIIKNRFF  549 (915)
Q Consensus       480 ~~~a~~lr~~la~~~e~e~l~~-lG~-~ld~~~~~~L~~~~~i~~fL~Q~~~e~~-------s-~ee~l~~L~ai~~G~L  549 (915)
                      ++++++++..|++|+|++++++ +|+ +|+++++..|.++++|++||+|+.++|+       + +++++..+|.+.+|.+
T Consensus         1 k~v~~~l~~~Laq~~EL~~~~q~vG~d~L~~~~k~~l~~g~~i~e~LkQ~~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~   80 (113)
T PF00306_consen    1 KKVAGQLKLILAQYRELEEFVQFVGSDALDDEDKLILERGRRIREFLKQNAFDPVPLEKQYVMILEETIDLFYAILRGKF   80 (113)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTSTCSTHHHHHHHHHHHHHHHHT-BSTTTTTSSHHHHHHHHHHHHHHHHHHHTTTT
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHHcCCCCCCCCcCcchhhhHHHHHHHHHHHHHhCCC
Confidence            4789999999999999999999 685 6999999999999999999999999999       7 8888889999999999


Q ss_pred             cccchhhHHHHHHHHHH
Q psy210          550 FKIPIKQIELFEINIIK  566 (915)
Q Consensus       550 d~vp~~ev~~f~~~Li~  566 (915)
                      +.+|.+++..+......
T Consensus        81 ~~~~~~~~~~~~~~~~~   97 (113)
T PF00306_consen   81 DDIPEEELEKIETKDIE   97 (113)
T ss_dssp             TTS-GGGHHHHHHHHHH
T ss_pred             ccCCHHHHHHHhhHHHH
Confidence            99999999888766554

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 C-terminal domain, which forms a left-handed superhelix composed of 4-5 individual helices. The C-terminal domain can vary between the alpha and beta subunits, and between different ATPases []. ; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 3OAA_U 2F43_B 1MAB_B 1W0K_A 1H8H_B 2WSS_A 1EFR_A 2JIZ_H 1E1Q_A 2V7Q_B ....

>COG0636 AtpE F0F1-type ATP synthase, subunit c/Archaeal/vacuolar-type H+-ATPase, subunit K [Energy production and conversion]

Probab=98.74  E-value=2.4e-09  Score=94.56  Aligned_cols=58  Identities=36%  Similarity=0.635  Sum_probs=52.8

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      +.++++|+++|++++|+|+|+|++++++++++|||||+++++|+.||++.+.-+.-.|
T Consensus         8 ~~~i~agl~vGla~lg~gig~G~~~~~~~~~~Ar~P~~~~~l~~~~~i~~~l~E~~~i   65 (79)
T COG0636           8 LALIGAGLAVGLAALGAGIGQGIIGAAAVEAVARQPEAAGKLFGKMFIGLALVEALGI   65 (79)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcchhhhHHHHHHHHHHHHHHHHH
Confidence            4689999999999999999999999999999999999999999999998876655444

>PRK13469 F0F1 ATP synthase subunit C; Provisional

Probab=98.71  E-value=3.5e-09  Score=93.50  Aligned_cols=54  Identities=35%  Similarity=0.577  Sum_probs=49.5

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      ++.+++|+++ ++++|+|+|+|+++++++++++||||+.++++++|+++.+.-+.
T Consensus        10 ~~~igagla~-laalGagig~G~~~~~a~~a~arqPe~~g~l~~~~~i~~al~Ea   63 (79)
T PRK13469         10 MSAIGAGIAA-LAGIGAGIGIGIATGKAVEAVGRQPEASGKIMSTMLLGAALAEA   63 (79)
T ss_pred             HHHHHHHHHH-HHHHHHHHhHHHHHHHHHHHHHcCchHHHhHHHHHHHHHHHHHH
Confidence            5678999999 99999999999999999999999999999999999997765444

>TIGR01260 ATP_synt_c ATP synthase, F0 subunit c

Probab=98.68  E-value=2.1e-09  Score=89.08  Aligned_cols=44  Identities=50%  Similarity=0.717  Sum_probs=40.1

Q ss_pred             HHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCccccc
Q psy210           16 ASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCP   59 (915)
Q Consensus        16 ~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~   59 (915)
                      +++|+|+|+|+++++++|++|||||++++++++||+|.+.-+.-
T Consensus         1 aa~GagiG~G~i~~~a~~~iaRqPe~~~~l~~~~~ig~al~Ea~   44 (58)
T TIGR01260         1 AAIGAAIGIGILGGKFLESAARQPELKPLLRTTMFIGMGLVDAI   44 (58)
T ss_pred             CcchhHHHHHHHHHHHHHHHHcChhHHHhHHHHHHHHHHHHHHH
Confidence            47899999999999999999999999999999999988765543

This model describes the subunit c in F1/F0-ATP synthase, a membrane associated multisubunit complex found in bacteria and organelles of higher eukaryotes, namely, mitochondria and chloroplast. This enzyme is principally involved in the synthesis of ATP from ADP and inorganic phosphate by coupling the energy derived from the proton electrochemical gradient across the biological membrane. A brief description of this multisubunit enzyme complex: F1 and F0 represent two major clusters of subunits. The functional role of subunit c, which is the part of F0 cluster, has been delineated in-vitro reconstitution experiments. Overall experimental proof exists that demonstrate the electrochemical gradient is converted into a rotational torque that leads to ATP synthesis.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=98.62  E-value=3e-06  Score=100.23  Aligned_cols=190  Identities=15%  Similarity=0.126  Sum_probs=112.0

Q ss_pred             ccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh--cC
Q psy210          662 NNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE--SN  737 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~--~~  737 (915)
                      ..+.+.|||.-+|-++-  +.+|.-++|.|+||+|||+|+.+++.+.+++ .+-++|+.--|..+++..=.+.+.=  +.
T Consensus       241 ~~~~~~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~-ge~~~y~s~eEs~~~i~~~~~~lg~~~~~  319 (484)
T TIGR02655       241 SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACAN-KERAILFAYEESRAQLLRNAYSWGIDFEE  319 (484)
T ss_pred             cccccCCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHC-CCeEEEEEeeCCHHHHHHHHHHcCCChHH
Confidence            34458889988888763  7899999999999999999999999987654 4568998888877766554443310  11


Q ss_pred             cccc-EEEEEEc--CCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHH
Q psy210          738 VLDK-VSLIYGQ--MNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE  814 (915)
Q Consensus       738 ~~~~-~~vv~~t--~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~  814 (915)
                      ..++ .+.+...  ....+.+      .+-.+-+...+.+.+ ++++||++-+..++.+           ..+ -.....
T Consensus       320 ~~~~g~l~~~~~~p~~~~~~~------~~~~i~~~i~~~~~~-~vvIDsi~~~~~~~~~-----------~~~-r~~~~~  380 (484)
T TIGR02655       320 MEQQGLLKIICAYPESAGLED------HLQIIKSEIADFKPA-RIAIDSLSALARGVSN-----------NAF-RQFVIG  380 (484)
T ss_pred             HhhCCcEEEEEcccccCChHH------HHHHHHHHHHHcCCC-EEEEcCHHHHHHhcCH-----------HHH-HHHHHH
Confidence            1111 1223221  1112211      222223334444555 5678999987655421           001 011222


Q ss_pred             HHHHHHHhcCCCCCceeEEEEEEecC--CCCCCCcc-cccccccCcEEEeeHHHHhcCCCccccCCCC
Q psy210          815 MGKLQERISSTKNGTITSVQAIYVPA--DDLTDPSP-STTFTHLDSTIVLSRQIAELGIYPAIDPLES  879 (915)
Q Consensus       815 l~~l~ERag~~~~GSiT~i~~v~~~~--~d~~dpi~-~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S  879 (915)
                      |.+++-      .-.||.+.|..++.  ++  .+++ ..+-++.|+-|.|...-.+....-+|-|+|+
T Consensus       381 l~~~lk------~~~it~~~t~~~~~~~~~--~~~~~~~~s~l~D~ii~l~~~e~~g~~~r~i~V~K~  440 (484)
T TIGR02655       381 VTGYAK------QEEITGFFTNTSDQFMGS--HSITDSHISTITDTILMLQYVEIRGEMSRAINVFKM  440 (484)
T ss_pred             HHHHHh------hCCCeEEEeecccccccC--CccCCCCeeEeeeEEEEEEEEecCCEEEEEEEEEEc
Confidence            222222      23488888877664  32  2223 2456677999988766555556666776665

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.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.99  E-value=1.8e-05  Score=84.13  Aligned_cols=179  Identities=18%  Similarity=0.154  Sum_probs=101.1

Q ss_pred             ccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh--cCcccc
Q psy210          666 LETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE--SNVLDK  741 (915)
Q Consensus       666 l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~--~~~~~~  741 (915)
                      +.|||.-+|-++  -+-+|.-++|.|+||+|||+|+.+++.+...+..+-++|+..-|.++++.+-.+.+.-  +...++
T Consensus         1 V~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~s~g~d~~~~~~~   80 (226)
T PF06745_consen    1 VPTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMKSFGWDLEEYEDS   80 (226)
T ss_dssp             E--SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHHTTTS-HHHHHHT
T ss_pred             CCCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHHHcCCcHHHHhhc
Confidence            369999999998  7889999999999999999999999876554313567899888888776665544310  011111


Q ss_pred             -EEEEEEcCCCChH-hHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          742 -VSLIYGQMNEPSG-NRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       742 -~~vv~~t~d~~~~-~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                       ...+......... .....-...-.+.+.+.+.+. -.+++||+|-+ .++..              |..+...+..|.
T Consensus        81 g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~~~-~~vVIDsls~l-~~~~~--------------~~~~r~~l~~l~  144 (226)
T PF06745_consen   81 GKLKIIDAFPERIGWSPNDLEELLSKIREAIEELKP-DRVVIDSLSAL-LLYDD--------------PEELRRFLRALI  144 (226)
T ss_dssp             TSEEEEESSGGGST-TSCCHHHHHHHHHHHHHHHTS-SEEEEETHHHH-TTSSS--------------GGGHHHHHHHHH
T ss_pred             CCEEEEecccccccccccCHHHHHHHHHHHHHhcCC-CEEEEECHHHH-hhcCC--------------HHHHHHHHHHHH
Confidence             1334433332110 011122234555566666555 46777999976 22211              111222333444


Q ss_pred             HHhcCCCCCceeEEEEEEecCCCCCCCccccccc-ccCcEEEeeHH
Q psy210          820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFT-HLDSTIVLSRQ  864 (915)
Q Consensus       820 ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~-i~dg~ivLsr~  864 (915)
                      ....  +.| +|++.|..++.+...+. ...+.. +.||-|.|+..
T Consensus       145 ~~l~--~~~-~t~llt~~~~~~~~~~~-~~~i~~~l~D~vI~L~~~  186 (226)
T PF06745_consen  145 KFLK--SRG-VTTLLTSEMPSGSEDDG-TFGIEHYLADGVIELRYE  186 (226)
T ss_dssp             HHHH--HTT-EEEEEEEEESSSSSSSS-STSHHHHHSSEEEEEEEE
T ss_pred             HHHH--HCC-CEEEEEEccccCccccc-ccchhhhcccEEEEEEEE
Confidence            4331  123 67788887654322222 123333 78999999864

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 ....

>PRK06251 V-type ATP synthase subunit K; Validated

Probab=97.95  E-value=6.2e-06  Score=76.03  Aligned_cols=50  Identities=18%  Similarity=0.323  Sum_probs=42.9

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRY   57 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~   57 (915)
                      .+.+++|+++|++++|+|+|+|+++++++++++||||+.++    ++++.+.-+
T Consensus        35 ~~~igaGLavGLaaigsgiG~G~~~aaai~aiAr~Pe~~g~----~ii~~al~E   84 (102)
T PRK06251         35 GINIGAGLAVGLAAIGAGIAVGMAAAAGIGVLTERRDMFGT----VLIFVAIGE   84 (102)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcChHHHHH----HHHHHHHHH
Confidence            45789999999999999999999999999999999999775    566554433

>PF00137 ATP-synt_C: ATP synthase subunit C; InterPro: IPR002379 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=97.93  E-value=4.2e-06  Score=71.80  Aligned_cols=48  Identities=38%  Similarity=0.661  Sum_probs=42.7

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGP   55 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~   55 (915)
                      ++++++++++|++++|+|+|+|.++++++++++||||    ++++++++.+.
T Consensus         1 ~~~l~agl~~gl~~~gsa~g~g~~~~~~~~~~a~~p~----~~~~~li~~~~   48 (66)
T PF00137_consen    1 LAYLGAGLAVGLAAIGSAIGQGIAGSAAIGAIARQPE----LFTKMLIGAAF   48 (66)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGG----HHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc----cchhhhhhHHH
Confidence            3678999999999999999999999999999999999    67777776553

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) and V-ATPases (or V1V0-ATPases) are each composed of two linked complexes: the F1 or V1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0 or V0 complex that forms the membrane-spanning pore. The F- and V-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. This entry represents subunit C (also called subunit 9, or proteolipid in F-ATPases, or the 16 kDa proteolipid in V-ATPases) found in the F0 or V0 complex of F- and V-ATPases, respectively. In F-ATPases, ten C subunits form an oligomeric ring that makes up the F0 rotor. The flux of protons through the ATPase channel drives the rotation of the C subunit ring, which in turn is coupled to the rotation of the F1 complex gamma subunit rotor due to the permanent binding between the gamma and epsilon subunits of F1 and the C subunit ring of F0. The sequential protonation and deprotonation of Asp61 of subunit C is coupled to the stepwise movement of the rotor []. In V-ATPases, there are three proteolipid subunits (c, c' and c'') that form part of the proton-conducting pore, each containing a buried glutamic acid residue that is essential for proton transport, and together they form a hexameric ring spanning the membrane [, ]. Structurally, the c subunits consist of a two antiparallel transmembrane helices. Both helices of one c subunit are connected by a loop on the cytoplasmic side []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015991 ATP hydrolysis coupled proton transport, 0033177 proton-transporting two-sector ATPase complex, proton-transporting domain; PDB: 3AOU_D 2DB4_H 2BL2_C 2CYD_A 2XQT_A 2XQS_A 2XQU_E 1WU0_A 1ATY_A 1C17_A ....

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.93  E-value=0.00014  Score=79.19  Aligned_cols=185  Identities=19%  Similarity=0.157  Sum_probs=115.5

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhh-------
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK-------  734 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~-------  734 (915)
                      +.+.|||.-+|-++-  +-+|.-++|.|+||+|||+++.+.+.+.+.. ..-|+|+...|.++++.+-...+.       
T Consensus         3 ~~~~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~-ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~~   81 (260)
T COG0467           3 ERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGARE-GEPVLYVSTEESPEELLENARSFGWDLEVYI   81 (260)
T ss_pred             ccccCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhc-CCcEEEEEecCCHHHHHHHHHHcCCCHHHHh
Confidence            467899999999998  8899999999999999999999999987754 567899999999999988776432       


Q ss_pred             hcCccccEEEEEEcCCCChH---h--HHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcc
Q psy210          735 ESNVLDKVSLIYGQMNEPSG---N--RLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP  809 (915)
Q Consensus       735 ~~~~~~~~~vv~~t~d~~~~---~--r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~  809 (915)
                      +.+.+  .++-..+...+..   .  -.....+.-.+-+...+.+ ...+++||+|.+...+..=...           -
T Consensus        82 ~~g~l--~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~-~~~~ViDsi~~~~~~~~~~~~~-----------r  147 (260)
T COG0467          82 EKGKL--AILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKEG-ADRVVIDSITELTLYLNDPALV-----------R  147 (260)
T ss_pred             hcCCE--EEEEccccccccccccccCCccHHHHHHHHHHHHHHhC-CCEEEEeCCchHhhhcCchHHH-----------H
Confidence            22211  1222222222211   0  1223445566666777767 5666779999654433322211           0


Q ss_pred             hhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCC
Q psy210          810 TLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIY  871 (915)
Q Consensus       810 ~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~  871 (915)
                      .....+.++.+     +.| +|++.+...+.+...+.  ...-.+.||.|.|+....+.+.+
T Consensus       148 ~~~~~l~~~~~-----~~~-~t~~~~~~~~~~~~~~~--~~~~~~vdgvI~l~~~~~~~~~~  201 (260)
T COG0467         148 RILLLLKRFLK-----KLG-VTSLLTTEAPVEERGES--GVEEYIVDGVIRLDLKEIEGGGD  201 (260)
T ss_pred             HHHHHHHHHHH-----hCC-CEEEEEecccccCCCcc--ceEEEEEEEEEEEeeecccCceE
Confidence            11122222222     234 77776665443333221  13334889999999877764433

>cd01394 radB RadB

Probab=97.90  E-value=0.00015  Score=76.41  Aligned_cols=179  Identities=16%  Similarity=0.115  Sum_probs=93.3

Q ss_pred             ccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCc--hHHHHHHHhhhcCcccc
Q psy210          666 LETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR--EGNDFYHEMKESNVLDK  741 (915)
Q Consensus       666 l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~--ev~e~~~~~~~~~~~~~  741 (915)
                      +.|||..+|-++.  +.+|.=+.|+|+||+|||+++.+++.+..+++ .-++|+- +|...  ...++.+... .....+
T Consensus         1 i~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g-~~v~yi~-~e~~~~~~~~~~~~~~~-~~~~~~   77 (218)
T cd01394           1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQG-KKVAYID-TEGLSSERFRQIAGDRP-ERAASS   77 (218)
T ss_pred             CCcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEE-CCCCCHHHHHHHHhHCh-HhhhcC
Confidence            4799999999986  77888899999999999999999999876542 3345543 22221  1222221110 112223


Q ss_pred             EEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHH
Q psy210          742 VSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER  821 (915)
Q Consensus       742 ~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ER  821 (915)
                       ++++...+.  .+..    ..+...+.+...+ --++++||++.+.++..+-..   +       .......+.+++.+
T Consensus        78 -~~~~~~~~~--~~~~----~~~~~~~~~~~~~-~~lvvIDsi~~l~~~~~~~~~---~-------~~~~~~~l~~~~~~  139 (218)
T cd01394          78 -IIVFEPMDF--NEQG----RAIQETETFADEK-VDLVVVDSATALYRLELGDDD---T-------TIKNYRELAKQLTF  139 (218)
T ss_pred             -EEEEeCCCH--HHHH----HHHHHHHHHHhcC-CcEEEEechHHhhhHHhcCcc---c-------hHHHHHHHHHHHHH
Confidence             444444332  2221    1222223344434 457888999998655333110   0       01111222222211


Q ss_pred             hcC-CCCCceeEEEEEEecC--C-CCCCCc-ccccccccCcEEEeeHHH
Q psy210          822 ISS-TKNGTITSVQAIYVPA--D-DLTDPS-PSTTFTHLDSTIVLSRQI  865 (915)
Q Consensus       822 ag~-~~~GSiT~i~~v~~~~--~-d~~dpi-~~~~~~i~dg~ivLsr~L  865 (915)
                      .-. .+.-.+|++.|..+..  + +...|. ....-.+.|+-|.|++.-
T Consensus       140 L~~~a~~~~~~vi~t~q~~~~~~~~~~~p~~g~~~~~~~d~~i~l~~~~  188 (218)
T cd01394         140 LLWLARKHDVAVVITNQVYSDVGSGSVRPLGGHTLEHWSKVILRLEKLR  188 (218)
T ss_pred             HHHHHHHhCCEEEEecCCEEcCCCCcccccCCcchhcceeEEEEEEEcC
Confidence            000 0123477777766542  1 111222 113455558889998754

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=97.80  E-value=0.00017  Score=78.53  Aligned_cols=191  Identities=19%  Similarity=0.188  Sum_probs=116.9

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHH-------hc
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKL-------KY  309 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l-------~~  309 (915)
                      +.+.|||.-+|-++-  +-+|.-++|.|++|||||+++++.+.+....+-.|+|+..-|..+++.+....+       .+
T Consensus         3 ~~~~TGI~glD~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~~~~l~~~~~~~g~d~~~~~~   82 (260)
T COG0467           3 ERIPTGIPGLDEILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEESPEELLENARSFGWDLEVYIE   82 (260)
T ss_pred             ccccCCCcchHHHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCCHHHHHHHHHHcCCCHHHHhh
Confidence            456799999999999  556999999999999999999999999887787899999999999988888653       22


Q ss_pred             cCCcceEEEEEecCCCCHHH---h--hhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCc
Q psy210          310 YNCMDYTVVVAATAADSAAE---Q--YISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGD  384 (915)
Q Consensus       310 ~~~~~~tvvv~~~a~~~~~~---r--~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~  384 (915)
                      .+.+  .++-..+...+...   .  .......-.+-+...+.+ ...+++||++.+...+..              |..
T Consensus        83 ~g~l--~i~d~~~~~~~~~~~~~~~~~~~~~l~~~I~~~~~~~~-~~~~ViDsi~~~~~~~~~--------------~~~  145 (260)
T COG0467          83 KGKL--AILDAFLSEKGLVSIVVGDPLDLEELLDRIREIVEKEG-ADRVVIDSITELTLYLND--------------PAL  145 (260)
T ss_pred             cCCE--EEEEccccccccccccccCCccHHHHHHHHHHHHHHhC-CCEEEEeCCchHhhhcCc--------------hHH
Confidence            2221  12222222222110   0  112223444555555555 567889999976544321              110


Q ss_pred             hhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCC-eeee
Q psy210          385 VFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRP-AINV  463 (915)
Q Consensus       385 ~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~P-aId~  463 (915)
                      .    -+...+.-++.           .+.+ +|++.+...+.+...+.  ...-++.||.|.|+....+.+.+- .+.+
T Consensus       146 ~----r~~~~~l~~~~-----------~~~~-~t~~~~~~~~~~~~~~~--~~~~~~vdgvI~l~~~~~~~~~~r~~~~i  207 (260)
T COG0467         146 V----RRILLLLKRFL-----------KKLG-VTSLLTTEAPVEERGES--GVEEYIVDGVIRLDLKEIEGGGDRRYLRI  207 (260)
T ss_pred             H----HHHHHHHHHHH-----------HhCC-CEEEEEecccccCCCcc--ceEEEEEEEEEEEeeecccCceEEEEEEE
Confidence            0    11112222221           1134 78777765543322221  234458999999999877644433 4444


Q ss_pred             c
Q psy210          464 G  464 (915)
Q Consensus       464 ~  464 (915)
                      .
T Consensus       208 ~  208 (260)
T COG0467         208 L  208 (260)
T ss_pred             E
Confidence            3

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=97.79  E-value=4.8e-05  Score=80.76  Aligned_cols=176  Identities=20%  Similarity=0.242  Sum_probs=100.1

Q ss_pred             ccccceeeeccc--cccccceeeeecCCCCChhHHHHHHHHhhcCC-CeEEEEEeeccchhhHHHHHHHHhccCC-----
Q psy210          241 LLTGIKSIDSMI--PIGKGQRELIIGDRQTGKTTIAIDTIINQKNK-NVICIYVCIGQKISSLINVINKLKYYNC-----  312 (915)
Q Consensus       241 l~TGi~aiD~l~--pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~-~~~~V~~~iGer~~ev~~~~~~l~~~~~-----  312 (915)
                      +.|||..+|.++  -+-+|.-++|.|++|+|||+++++.+.++... +-.|+|+..-+..+++.+-.+   .-|.     
T Consensus         1 V~TGI~~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~~~l~~~~~---s~g~d~~~~   77 (226)
T PF06745_consen    1 VPTGIPGLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPPEELIENMK---SFGWDLEEY   77 (226)
T ss_dssp             E--SSTTHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-HHHHHHHHH---TTTS-HHHH
T ss_pred             CCCCchhHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCHHHHHHHHH---HcCCcHHHH
Confidence            369999999999  45569999999999999999999999887554 556899999888865555444   3333     


Q ss_pred             cce-EEEEEecCCCCHH-HhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhh
Q psy210          313 MDY-TVVVAATAADSAA-EQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHS  390 (915)
Q Consensus       313 ~~~-tvvv~~~a~~~~~-~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~  390 (915)
                      .++ ...+......... .....-...-.+.+.+.+.+. -.+|+||++.+ .++        ..      |......+-
T Consensus        78 ~~~g~l~~~d~~~~~~~~~~~~~~~l~~~i~~~i~~~~~-~~vVIDsls~l-~~~--------~~------~~~~r~~l~  141 (226)
T PF06745_consen   78 EDSGKLKIIDAFPERIGWSPNDLEELLSKIREAIEELKP-DRVVIDSLSAL-LLY--------DD------PEELRRFLR  141 (226)
T ss_dssp             HHTTSEEEEESSGGGST-TSCCHHHHHHHHHHHHHHHTS-SEEEEETHHHH-TTS--------SS------GGGHHHHHH
T ss_pred             hhcCCEEEEecccccccccccCHHHHHHHHHHHHHhcCC-CEEEEECHHHH-hhc--------CC------HHHHHHHHH
Confidence            111 1233322111100 001111133455666666555 47889999987 221        00      111222333


Q ss_pred             hHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccc-ccCcEEEeehhh
Q psy210          391 RLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVIS-ITDGQIFLDTNL  452 (915)
Q Consensus       391 ~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~-i~dgqi~Lsr~l  452 (915)
                      .|+....+               . .+|.+.+..++.+.-.... ..+.. +.||-|.|+..-
T Consensus       142 ~l~~~l~~---------------~-~~t~llt~~~~~~~~~~~~-~~i~~~l~D~vI~L~~~~  187 (226)
T PF06745_consen  142 ALIKFLKS---------------R-GVTTLLTSEMPSGSEDDGT-FGIEHYLADGVIELRYEE  187 (226)
T ss_dssp             HHHHHHHH---------------T-TEEEEEEEEESSSSSSSSS-TSHHHHHSSEEEEEEEEE
T ss_pred             HHHHHHHH---------------C-CCEEEEEEccccCcccccc-cchhhhcccEEEEEEEEe
Confidence            44444322               2 3577778776543222222 22333 899999998653

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 ....

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.72  E-value=6.8e-05  Score=70.99  Aligned_cols=145  Identities=23%  Similarity=0.155  Sum_probs=79.9

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA  760 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~  760 (915)
                      +++.+.|+|++|+|||+++..+++.+....  ..++...++...+...+...           ......+.....+...+
T Consensus         1 ~~~~~~l~G~~G~GKTtl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~~~   67 (148)
T smart00382        1 PGEVILIVGPPGSGKTTLARALARELGPPG--GGVIYIDGEDILEEVLDQLL-----------LIIVGGKKASGSGELRL   67 (148)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhccCCCC--CCEEEECCEEccccCHHHHH-----------hhhhhccCCCCCHHHHH
Confidence            478999999999999999999998775422  12344444444443322211           11112223334444555


Q ss_pred             HHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecC
Q psy210          761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPA  840 (915)
Q Consensus       761 ~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~  840 (915)
                      ...++.|++..    ..++++|++.++..............             .......   .....+.++.+...  
T Consensus        68 ~~~~~~~~~~~----~~viiiDei~~~~~~~~~~~~~~~~~-------------~~~~~~~---~~~~~~~~i~~~~~--  125 (148)
T smart00382       68 RLALALARKLK----PDVLILDEITSLLDAEQEALLLLLEE-------------LRLLLLL---KSEKNLTVILTTND--  125 (148)
T ss_pred             HHHHHHHHhcC----CCEEEEECCcccCCHHHHHHHHhhhh-------------hHHHHHH---HhcCCCEEEEEeCC--
Confidence            55666666544    68889999998776665554332222             0001110   11344556665543  


Q ss_pred             CCCCCCcccccccccCcEEEee
Q psy210          841 DDLTDPSPSTTFTHLDSTIVLS  862 (915)
Q Consensus       841 ~d~~dpi~~~~~~i~dg~ivLs  862 (915)
                        ...+.+...+..++.++.+.
T Consensus       126 --~~~~~~~~~~~~~~~~~~~~  145 (148)
T smart00382      126 --EKDLGPALLRRRFDRRIVLL  145 (148)
T ss_pred             --CccCchhhhhhccceEEEec
Confidence              34455555555666666543

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.

>PRK09302 circadian clock protein KaiC; Reviewed

Probab=97.59  E-value=0.00034  Score=83.50  Aligned_cols=189  Identities=18%  Similarity=0.163  Sum_probs=110.6

Q ss_pred             cCccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC--
Q psy210          237 VNEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC--  312 (915)
Q Consensus       237 ~~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~--  312 (915)
                      ..+.+.|||..+|.++.  +-+|.-++|.|++|+|||+++++.+.+....+-.|+|....+..+++.+-.+.+   |.  
T Consensus       251 ~~~~~~tGi~~lD~~l~GG~~~g~~~li~G~~G~GKT~l~~~~~~~~~~~g~~~~yis~e~~~~~i~~~~~~~---g~~~  327 (509)
T PRK09302        251 SNERISSGVPDLDEMLGGGFFRGSIILVSGATGTGKTLLASKFAEAACRRGERCLLFAFEESRAQLIRNARSW---GIDL  327 (509)
T ss_pred             ccccccCCcHHHHHhhcCCCCCCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCCHHHHHHHHHHc---CCCh
Confidence            35568899999999986  667999999999999999999888877655556688998888776655444332   22  


Q ss_pred             ---cc--eEEEEEec-CCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchh
Q psy210          313 ---MD--YTVVVAAT-AADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVF  386 (915)
Q Consensus       313 ---~~--~tvvv~~~-a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~  386 (915)
                         .+  +..++... ......+      ....+.+...+.+.+ ++|+||+|-+.....         +      ..+-
T Consensus       328 ~~~~~~g~l~i~~~~~~~~~~~~------~~~~i~~~i~~~~~~-~vVIDslt~l~~~~~---------~------~~~~  385 (509)
T PRK09302        328 EKMEEKGLLKIICARPESYGLED------HLIIIKREIEEFKPS-RVAIDPLSALARGGS---------L------NEFR  385 (509)
T ss_pred             HHHhhcCCceeecCCcccCCHHH------HHHHHHHHHHHcCCC-EEEEcCHHHHHHhCC---------H------HHHH
Confidence               11  11122111 1111111      122344444444555 789999998864321         0      0111


Q ss_pred             hhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcc-ccccccccCcEEEeehhhhhcCCCCeeeecC
Q psy210          387 YLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFI-PTNVISITDGQIFLDTNLFNSNYRPAINVGL  465 (915)
Q Consensus       387 ~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi-~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~  465 (915)
                      ..+.+|...+.                .-.+|.+.|..++...-.++. +..+.++.||-|.|+..--.....-.+.+.+
T Consensus       386 ~~l~~l~~~~k----------------~~~~t~l~t~~~~~~~g~~~~~~~~~~~l~D~vI~L~~~~~~~~~~R~l~I~K  449 (509)
T PRK09302        386 QFVIRLTDYLK----------------SEEITGLFTNLTPDFMGSHSITESHISSLTDTWILLQYVEINGEMNRALYVLK  449 (509)
T ss_pred             HHHHHHHHHHH----------------hCCCeEEEEeccccccCCCCCCcCceEEeeeEEEEEEEeecCCeeEEEEEEEE
Confidence            11222332221                123688888776553212222 2357899999999987544333334455554


Q ss_pred             C
Q psy210          466 S  466 (915)
Q Consensus       466 S  466 (915)
                      .
T Consensus       450 ~  450 (509)
T PRK09302        450 M  450 (509)
T ss_pred             c
Confidence            4

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=97.56  E-value=0.00057  Score=81.12  Aligned_cols=190  Identities=17%  Similarity=0.117  Sum_probs=116.5

Q ss_pred             cCccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          237 VNEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       237 ~~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      ..+.+.|||..+|.++-  +-+|.-++|.|++|+|||+|+++.+.+.+..+-.|+|....|..+++..=.+.+   |. +
T Consensus       241 ~~~~~~tGi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs~~~i~~~~~~l---g~~~  317 (484)
T TIGR02655       241 SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFAYEESRAQLLRNAYSW---GIDF  317 (484)
T ss_pred             cccccCCChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCHHHHHHHHHHc---CCCh
Confidence            55679999999999885  456999999999999999999999888765555789999998877665544443   32 1


Q ss_pred             ----ce-EEEEEec-CCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhh
Q psy210          314 ----DY-TVVVAAT-AADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFY  387 (915)
Q Consensus       314 ----~~-tvvv~~~-a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~  387 (915)
                          ++ .+.+... ..+.....     ..-.+-+...+.+.+ +||+||++-+..++..           +.    +-.
T Consensus       318 ~~~~~~g~l~~~~~~p~~~~~~~-----~~~~i~~~i~~~~~~-~vvIDsi~~~~~~~~~-----------~~----~r~  376 (484)
T TIGR02655       318 EEMEQQGLLKIICAYPESAGLED-----HLQIIKSEIADFKPA-RIAIDSLSALARGVSN-----------NA----FRQ  376 (484)
T ss_pred             HHHhhCCcEEEEEcccccCChHH-----HHHHHHHHHHHcCCC-EEEEcCHHHHHHhcCH-----------HH----HHH
Confidence                11 1222221 11111111     222233334444555 7789999988655311           00    011


Q ss_pred             hhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccc-cccccccCcEEEeehhhhhcCCCCeeeecCC
Q psy210          388 LHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIP-TNVISITDGQIFLDTNLFNSNYRPAINVGLS  466 (915)
Q Consensus       388 ~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~-~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S  466 (915)
                      .+.+|.+-+.                .-.||.+.+.++++---..+++ ..+-++.|+-|.|...-.+....-+|-++++
T Consensus       377 ~~~~l~~~lk----------------~~~it~~~t~~~~~~~~~~~~~~~~~s~l~D~ii~l~~~e~~g~~~r~i~V~K~  440 (484)
T TIGR02655       377 FVIGVTGYAK----------------QEEITGFFTNTSDQFMGSHSITDSHISTITDTILMLQYVEIRGEMSRAINVFKM  440 (484)
T ss_pred             HHHHHHHHHh----------------hCCCeEEEeecccccccCCccCCCCeeEeeeEEEEEEEEecCCEEEEEEEEEEc
Confidence            1223333222                2367888887776510122333 3578899999999766555556666776665

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.53  E-value=0.0003  Score=75.21  Aligned_cols=63  Identities=19%  Similarity=0.143  Sum_probs=51.0

Q ss_pred             cccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchH
Q psy210          663 NNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREG  726 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev  726 (915)
                      .+.+.|||.-+|-++.  +-+|.-+.|.|++|+|||+|+.+++.+..++ ..-++|+..-+..+++
T Consensus         4 ~~~~~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~-g~~~~y~~~e~~~~~~   68 (234)
T PRK06067          4 KEIISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQ-GKKVYVITTENTSKSY   68 (234)
T ss_pred             ceEEecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhC-CCEEEEEEcCCCHHHH
Confidence            3568999999999875  6699999999999999999999998865443 4567888776665544

>PRK04328 hypothetical protein; Provisional

Probab=97.52  E-value=0.0012  Score=71.60  Aligned_cols=68  Identities=19%  Similarity=0.234  Sum_probs=55.2

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHH
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHE  732 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~  732 (915)
                      +.+.|||.-+|-++.  +-+|.-++|.|+||+|||+|+.+++.+..++ ..-++|+...|.++++.+..+.
T Consensus         3 ~rv~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~-ge~~lyis~ee~~~~i~~~~~~   72 (249)
T PRK04328          3 KRVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQM-GEPGVYVALEEHPVQVRRNMRQ   72 (249)
T ss_pred             ceecCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhc-CCcEEEEEeeCCHHHHHHHHHH
Confidence            347899999999876  5589999999999999999999998865433 4668999999988876654443

>PRK14893 V-type ATP synthase subunit K; Provisional

Probab=97.50  E-value=3.4e-05  Score=77.48  Aligned_cols=59  Identities=15%  Similarity=0.371  Sum_probs=49.5

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhhhhh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIY   66 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~k~~   66 (915)
                      ++.+++++++|++++|+++|+|+++++++++++||||+..    +++++.+..+.-.|---|+
T Consensus        10 ~~~lGagla~gla~iGa~iG~g~~~~~~~~~iar~Pe~~~----~~li~~al~Ea~aIyglvi   68 (161)
T PRK14893         10 LAAIGAGVAVGFAGLGSGLGQGIAAAGSVGAVAEDSDMFA----RGIIFSALPETQAIYGFLI   68 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchHHH----HHHHHHHHHHHHHHHHHHH
Confidence            5788999999999999999999999999999999999864    4788777666655555543

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.49  E-value=0.0021  Score=70.08  Aligned_cols=176  Identities=15%  Similarity=0.119  Sum_probs=93.8

Q ss_pred             ccccceeeeccc----------------ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHH-H
Q psy210          666 LETGIKVIDLLC----------------PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGN-D  728 (915)
Q Consensus       666 l~TGir~ID~l~----------------pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~-e  728 (915)
                      +.|||.-+|-++                =+-+|.-..|.|+||+|||+++.+++.+.+++ ..-++|+..-|..+... +
T Consensus         4 ~~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~-Ge~vlyis~Ee~~~~~~~~   82 (259)
T TIGR03878         4 VPTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQASR-GNPVLFVTVESPANFVYTS   82 (259)
T ss_pred             ccCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHhC-CCcEEEEEecCCchHHHHH
Confidence            578999999885                35699999999999999999999998876544 34567776544333222 1


Q ss_pred             HHHHhhhcC-----ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCC
Q psy210          729 FYHEMKESN-----VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTP  802 (915)
Q Consensus       729 ~~~~~~~~~-----~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p  802 (915)
                      +.+....-|     ..++ +++........ .+ ..+..-+....+..++ +.+ ++++||++.+-....+         
T Consensus        83 l~~~a~~~g~d~~~~~~~-l~~id~~~~~~-~~-~~~~~l~~~l~~~i~~~~~~-~vVIDSls~l~~~~~~---------  149 (259)
T TIGR03878        83 LKERAKAMGVDFDKIEEN-IILIDAASSTE-LR-ENVPNLLATLAYAIKEYKVK-NTVIDSITGLYEAKEM---------  149 (259)
T ss_pred             HHHHHHHcCCCHHHHhCC-EEEEECCCchh-hh-hhHHHHHHHHHHHHHhhCCC-EEEEcCchHhcccchH---------
Confidence            222222111     1223 44443322111 11 1222223333333333 555 6678999854221000         


Q ss_pred             CCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCC--CCC-CCccc-ccccccCcEEEeeHHH
Q psy210          803 SAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPAD--DLT-DPSPS-TTFTHLDSTIVLSRQI  865 (915)
Q Consensus       803 ~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~--d~~-dpi~~-~~~~i~dg~ivLsr~L  865 (915)
                         -+ ......+..++.+      -.+|++.|..+..+  +.+ +|... .+-.+.||-|.|+...
T Consensus       150 ---~~-r~~~~~L~~~lk~------~~~t~ll~~e~~~~~~~~~~~~~~~~~~~~l~D~vI~L~~~~  206 (259)
T TIGR03878       150 ---MA-REIVRQLFNFMKK------WYQTALFVSQKRSGHEELSAEAAGGYAVSHIVDGTIVLAKQL  206 (259)
T ss_pred             ---HH-HHHHHHHHHHHHH------cCCeEEEEeccccCcccccccccCCcceeEeeccEEEEeeee
Confidence               00 0111222333322      23577766554332  111 34333 4566779999999654

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK08344 V-type ATP synthase subunit K; Validated

Probab=97.47  E-value=3.7e-05  Score=76.94  Aligned_cols=52  Identities=21%  Similarity=0.416  Sum_probs=46.0

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      ++.+++|+++|++.+++|+|+|++++++++++||||   ++++++|+++.+..+.
T Consensus        89 ~~~i~aGL~vGla~l~sgig~G~v~a~~i~~~ar~P---~~l~~~~ii~~a~~Ea  140 (157)
T PRK08344         89 LALLGAGLLVGLAELLSAIPQGIICASGIGALPRTP---GKTFTQTIILAAYAEL  140 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc---HHHHHHHHHHHHHHHH
Confidence            567899999999999999999999999999999999   6888889887665443

>cd01394 radB RadB

Probab=97.43  E-value=0.00045  Score=72.87  Aligned_cols=115  Identities=21%  Similarity=0.222  Sum_probs=67.0

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccch-hhHHHHHHHHhccCCcceEE
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKI-SSLINVINKLKYYNCMDYTV  317 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~-~ev~~~~~~l~~~~~~~~tv  317 (915)
                      +.|||..+|.++.  +.+|.=..|.|++|+|||+++++.+.+....+-.|+|.-..+.. +.+.++.+... .....+ +
T Consensus         1 i~TGi~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~~~~~~~~~~~~~~-~~~~~~-~   78 (218)
T cd01394           1 LPTGCKGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSSERFRQIAGDRP-ERAASS-I   78 (218)
T ss_pred             CCcchhHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCCCHHHHHHHHhHCh-HhhhcC-E
Confidence            4699999999986  55688899999999999999988877765445567776443222 12222222110 111223 3


Q ss_pred             EEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          318 VVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       318 vv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      ++....+  ..+..    ..+...+.+.+.+ --+||+|+++.+..+
T Consensus        79 ~~~~~~~--~~~~~----~~~~~~~~~~~~~-~~lvvIDsi~~l~~~  118 (218)
T cd01394          79 IVFEPMD--FNEQG----RAIQETETFADEK-VDLVVVDSATALYRL  118 (218)
T ss_pred             EEEeCCC--HHHHH----HHHHHHHHHHhcC-CcEEEEechHHhhhH
Confidence            3333322  12221    1122222333334 458899999998654

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.42  E-value=0.0012  Score=70.11  Aligned_cols=62  Identities=19%  Similarity=0.254  Sum_probs=48.6

Q ss_pred             ccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHH
Q psy210          666 LETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGND  728 (915)
Q Consensus       666 l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e  728 (915)
                      +.|||.-+|-++.  +-+|.-++|.|+||+|||+|+.+++.+...+ ..-++|+...+..+++.+
T Consensus         2 i~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~-g~~~~~is~e~~~~~i~~   65 (229)
T TIGR03881         2 LSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRD-GDPVIYVTTEESRESIIR   65 (229)
T ss_pred             cCCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhc-CCeEEEEEccCCHHHHHH
Confidence            5799999999875  6699999999999999999999998765432 345677766665555433

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.

>PRK09621 V-type ATP synthase subunit K; Provisional

Probab=97.39  E-value=0.00011  Score=72.28  Aligned_cols=50  Identities=20%  Similarity=0.236  Sum_probs=42.9

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRY   57 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~   57 (915)
                      +..+++|+.+|++.+++|+|+|.++++++++++||||..++    ++++.+..+
T Consensus        78 ~~~l~aGL~vGla~l~sgigqG~v~a~~i~a~arqPe~~~k----~~i~~alvE  127 (141)
T PRK09621         78 LSGIAIGISVGIALLLSAIMQGKCCASAIQAYARSSEIYGK----SFAAIGIVE  127 (141)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHH----HHHHHHHHH
Confidence            45689999999999999999999999999999999998777    566555443

>TIGR02012 tigrfam_recA protein RecA

Probab=97.38  E-value=0.00032  Score=78.45  Aligned_cols=110  Identities=21%  Similarity=0.285  Sum_probs=76.3

Q ss_pred             ccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-cc
Q psy210          239 EPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-MD  314 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~~  314 (915)
                      +.+.||+..+|.++.   +-+|.=+.|+|++|+|||+||++.+++....+-.|+|.-..+..+.  ..   .+.-|+ ++
T Consensus        34 ~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~--~~---a~~lGvd~~  108 (321)
T TIGR02012        34 ETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP--VY---ARKLGVDID  108 (321)
T ss_pred             ceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHH--HH---HHHcCCCHH
Confidence            357899999999988   4469999999999999999999998886555666788866654443  12   333344 33


Q ss_pred             eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          315 YTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       315 ~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      +-+ ++ ..+  ..++      ++.+++.+.+.+.--+||+||++.+..
T Consensus       109 ~l~-v~-~p~--~~eq------~l~~~~~li~~~~~~lIVIDSv~al~~  147 (321)
T TIGR02012       109 NLL-VS-QPD--TGEQ------ALEIAETLVRSGAVDIIVVDSVAALVP  147 (321)
T ss_pred             HeE-Ee-cCC--CHHH------HHHHHHHHhhccCCcEEEEcchhhhcc
Confidence            333 22 222  1233      456677766666666999999998774

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.38  E-value=0.0027  Score=67.38  Aligned_cols=56  Identities=29%  Similarity=0.417  Sum_probs=45.9

Q ss_pred             cccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEe
Q psy210          663 NNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGV  719 (915)
Q Consensus       663 ~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~i  719 (915)
                      ++.+.||+.-+|-++  -+-+|.=..|.|+||+|||+++.+++.+..+. ..-++|+-.
T Consensus         2 ~~~i~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~-~~~v~yi~~   59 (225)
T PRK09361          2 DERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKN-GKKVIYIDT   59 (225)
T ss_pred             CccccCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHC-CCeEEEEEC
Confidence            456899999999998  46678899999999999999999999987654 344566643

>PRK09354 recA recombinase A; Provisional

Probab=97.37  E-value=0.00032  Score=79.11  Aligned_cols=111  Identities=21%  Similarity=0.269  Sum_probs=79.9

Q ss_pred             Cccccccceeeeccccc---cccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIPI---GKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~pi---grGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.||+..+|.++.+   -+|.=+.|+|++|+|||+||++.+++....+-.|+|.-..+..+.  +.   .+.-|+ +
T Consensus        38 ~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~--~~---a~~lGvdl  112 (349)
T PRK09354         38 VEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDP--VY---AKKLGVDI  112 (349)
T ss_pred             CceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHH--HH---HHHcCCCH
Confidence            44688999999999984   358888899999999999999999886556667889888776653  22   333344 3


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      ++- +++ ..+  ..+      .++.+++.+.+.+.--+||+||++.+..
T Consensus       113 d~l-li~-qp~--~~E------q~l~i~~~li~s~~~~lIVIDSvaaL~~  152 (349)
T PRK09354        113 DNL-LVS-QPD--TGE------QALEIADTLVRSGAVDLIVVDSVAALVP  152 (349)
T ss_pred             HHe-EEe-cCC--CHH------HHHHHHHHHhhcCCCCEEEEeChhhhcc
Confidence            443 222 222  133      3466777777667777999999998774

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.35  E-value=0.0037  Score=67.19  Aligned_cols=66  Identities=18%  Similarity=0.233  Sum_probs=53.4

Q ss_pred             cccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHH
Q psy210          665 ILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYH  731 (915)
Q Consensus       665 ~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~  731 (915)
                      .+.|||.-+|-++.  +-+|.-++|.|+||+|||+|+.+++.+..+ ..+-++|+...|.++++.+-.+
T Consensus         2 ri~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~-~ge~~lyvs~ee~~~~i~~~~~   69 (237)
T TIGR03877         2 RVKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQ-MGEPGIYVALEEHPVQVRRNMA   69 (237)
T ss_pred             ccccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHH-cCCcEEEEEeeCCHHHHHHHHH
Confidence            37899999999764  779999999999999999999999876543 2467899988887777655443

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=97.35  E-value=0.00089  Score=71.58  Aligned_cols=71  Identities=18%  Similarity=0.221  Sum_probs=55.1

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccC
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYN  311 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~  311 (915)
                      .+.+.|||..+|.++.  +-+|.-+.|.|++|+|||+++.+.+.++...+-.|+|+...+..++   +++.+.+.|
T Consensus         4 ~~~~~tGi~~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~~~~---~~~~~~~~g   76 (234)
T PRK06067          4 KEIISTGNEELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENTSKS---YLKQMESVK   76 (234)
T ss_pred             ceEEecCCHHHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCCHHH---HHHHHHHCC
Confidence            3568999999999986  4469999999999999999988887776445667889999777654   444444444

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.33  E-value=0.00091  Score=71.26  Aligned_cols=118  Identities=21%  Similarity=0.261  Sum_probs=69.9

Q ss_pred             ccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcC-----CcEEEEEEecC--CCchHHHHHHHhh--
Q psy210          666 LETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH-----KGCSVFIGVGE--RSREGNDFYHEMK--  734 (915)
Q Consensus       666 l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~-----~~~~v~~~iGe--r~~ev~e~~~~~~--  734 (915)
                      +.||++.+|-++.  +-+|.-..|.|++|+|||+|+.+++.+.....     ..-++|+-..+  +.+...++.+.+.  
T Consensus         1 ~~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~~~~~   80 (235)
T cd01123           1 LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAERFGLD   80 (235)
T ss_pred             CCCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHHhccC
Confidence            4799999999876  88999999999999999999999997654321     13456654333  1233333333211  


Q ss_pred             hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          735 ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       735 ~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                      .+..+++-.++ ...+.   +....  .-..+-+.+.+.++--++++||++.+.+
T Consensus        81 ~~~~~~~i~~~-~~~~~---~~l~~--~l~~l~~~l~~~~~~~liVIDSis~~~~  129 (235)
T cd01123          81 PEEVLDNIYVA-RAYNS---DHQLQ--LLEELEAILIESSRIKLVIVDSVTALFR  129 (235)
T ss_pred             hHhHhcCEEEE-ecCCH---HHHHH--HHHHHHHHHhhcCCeeEEEEeCcHHHHH
Confidence            12345553333 22221   11111  1112223444443667899999998654

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 .

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.31  E-value=0.00031  Score=78.56  Aligned_cols=111  Identities=21%  Similarity=0.257  Sum_probs=77.5

Q ss_pred             Cccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.||+..+|.++.   +-+|-=+.|+|++|+|||+||++.+++....+-.|+|.-..+..+.  ++   ++.-|+ +
T Consensus        33 ~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~--~~---a~~lGvd~  107 (325)
T cd00983          33 VEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDP--VY---AKKLGVDL  107 (325)
T ss_pred             CceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHH--HH---HHHcCCCH
Confidence            3468899999999988   4458888899999999999999998886545556888877655442  22   333344 3


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      ++ ++++ ..+.  .+      .++.+++.+.+.+.-.+||+||++.+..
T Consensus       108 ~~-l~v~-~p~~--~e------q~l~i~~~li~s~~~~lIVIDSvaal~~  147 (325)
T cd00983         108 DN-LLIS-QPDT--GE------QALEIADSLVRSGAVDLIVVDSVAALVP  147 (325)
T ss_pred             HH-heec-CCCC--HH------HHHHHHHHHHhccCCCEEEEcchHhhcc
Confidence            33 2222 2221  22      3566777777667777999999998774

RecA couples ATP hydrolysis to DNA strand exchange.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=97.31  E-value=0.0059  Score=66.59  Aligned_cols=69  Identities=25%  Similarity=0.192  Sum_probs=52.4

Q ss_pred             ccccccccceeeeccc-ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHH
Q psy210          662 NNNILETGIKVIDLLC-PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY  730 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~-pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~  730 (915)
                      +++-+.||+..+|-++ -+.+|+-+.|.|++|+|||+++.+++.+...++..-++|...-+...++...+
T Consensus         9 ~~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~   78 (271)
T cd01122           9 SNEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRL   78 (271)
T ss_pred             cccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHH
Confidence            3446789999999874 47789999999999999999999999987654334456666656555655544

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR02012 tigrfam_recA protein RecA

Probab=97.29  E-value=0.00073  Score=75.57  Aligned_cols=110  Identities=24%  Similarity=0.373  Sum_probs=73.8

Q ss_pred             ccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-c
Q psy210          664 NILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-L  739 (915)
Q Consensus       664 e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-~  739 (915)
                      +.+.||+..+|.++.   +-+|.=+.|+|++|+|||+|+.+++.+..+. ...++|+-.-+..+.  ++.+.+   |+ +
T Consensus        34 ~~i~TGi~~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~-g~~v~yId~E~~~~~--~~a~~l---Gvd~  107 (321)
T TIGR02012        34 ETISTGSLSLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKA-GGTAAFIDAEHALDP--VYARKL---GVDI  107 (321)
T ss_pred             ceecCCCHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCcEEEEcccchhHH--HHHHHc---CCCH
Confidence            468999999999988   6688999999999999999999999887654 345666633222222  122222   32 2


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                      ++ ++ +...+.  .++      ++.+++.+...+.--+|++||++-+..
T Consensus       108 ~~-l~-v~~p~~--~eq------~l~~~~~li~~~~~~lIVIDSv~al~~  147 (321)
T TIGR02012       108 DN-LL-VSQPDT--GEQ------ALEIAETLVRSGAVDIIVVDSVAALVP  147 (321)
T ss_pred             HH-eE-EecCCC--HHH------HHHHHHHHhhccCCcEEEEcchhhhcc
Confidence            33 23 333321  222      456677777777777899999997663

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=97.27  E-value=0.00096  Score=72.72  Aligned_cols=117  Identities=13%  Similarity=0.172  Sum_probs=69.4

Q ss_pred             ccccceeeeccc----------------cccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHH-HH
Q psy210          241 LLTGIKSIDSMI----------------PIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLI-NV  303 (915)
Q Consensus       241 l~TGi~aiD~l~----------------pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~-~~  303 (915)
                      +.|||..+|.++                =+-+|.-..|.|++|+|||+++++.+.+....+-.|+|....+..+... .+
T Consensus         4 ~~tGi~glD~~l~~~~~~~~~~~~~~~GGip~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee~~~~~~~~l   83 (259)
T TIGR03878         4 VPTGVEGLDELFFKVEIEEGKIVRKPLGGIPAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVESPANFVYTSL   83 (259)
T ss_pred             ccCCchhHHHhhccccccccccccccCCCeECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecCCchHHHHHH
Confidence            469999999986                2346999999999999999999998887654455678888876554322 23


Q ss_pred             HHHHhccCC-----cceEEEEEecCCCCHHHhhhhhhhhhh-hHHHHHhcCCcEEEEeccchhH
Q psy210          304 INKLKYYNC-----MDYTVVVAATAADSAAEQYISPYTGCT-IGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       304 ~~~l~~~~~-----~~~tvvv~~~a~~~~~~r~~~~~~a~t-iAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      .+.....|.     .++ +++....+. ...+ ..+..-+. +.+..++.+.+ +||+|+++.+
T Consensus        84 ~~~a~~~g~d~~~~~~~-l~~id~~~~-~~~~-~~~~~l~~~l~~~i~~~~~~-~vVIDSls~l  143 (259)
T TIGR03878        84 KERAKAMGVDFDKIEEN-IILIDAASS-TELR-ENVPNLLATLAYAIKEYKVK-NTVIDSITGL  143 (259)
T ss_pred             HHHHHHcCCCHHHHhCC-EEEEECCCc-hhhh-hhHHHHHHHHHHHHHhhCCC-EEEEcCchHh
Confidence            333333332     223 333332221 1111 11111122 22223344666 7889999854

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>PRK09354 recA recombinase A; Provisional

Probab=97.23  E-value=0.00085  Score=75.73  Aligned_cols=117  Identities=21%  Similarity=0.369  Sum_probs=78.8

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-  738 (915)
                      .+.+.||+..+|.++.   +-+|.=+.|+|++|+|||+|+.+++.+..+. ...++|+-.=+..+.  ++.+.+   |+ 
T Consensus        38 ~~~isTGi~~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~-G~~~~yId~E~s~~~--~~a~~l---Gvd  111 (349)
T PRK09354         38 VEVISTGSLALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKA-GGTAAFIDAEHALDP--VYAKKL---GVD  111 (349)
T ss_pred             CceecCCcHHHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCcEEEECCccchHH--HHHHHc---CCC
Confidence            4569999999999998   5577788899999999999999999887654 456777743332222  233333   22 


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhh
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA  796 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~  796 (915)
                      +++ ++ +++.+ + .+      -++.+++.+...+.--+|++||++-+.. ..|+..
T Consensus       112 ld~-ll-i~qp~-~-~E------q~l~i~~~li~s~~~~lIVIDSvaaL~~-~~E~eg  158 (349)
T PRK09354        112 IDN-LL-VSQPD-T-GE------QALEIADTLVRSGAVDLIVVDSVAALVP-KAEIEG  158 (349)
T ss_pred             HHH-eE-EecCC-C-HH------HHHHHHHHHhhcCCCCEEEEeChhhhcc-hhhhcC
Confidence            334 23 33332 1 22      3466777787778888999999997764 224443

>PRK06558 V-type ATP synthase subunit K; Validated

Probab=97.23  E-value=0.00021  Score=71.76  Aligned_cols=42  Identities=17%  Similarity=0.334  Sum_probs=39.3

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccc
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENS   44 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~   44 (915)
                      +...+++|+++|++.+++|+|+|.++++++++++||||+..+
T Consensus        91 g~~~l~agL~vGl~~l~sgi~~G~~~a~~~~a~a~~pe~~~~  132 (159)
T PRK06558         91 GLAYFAACLPIAIVGLFSAISQGKVAAAGIQILAKRPEEFTK  132 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHH
Confidence            356799999999999999999999999999999999999986

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=97.23  E-value=0.0013  Score=70.64  Aligned_cols=65  Identities=22%  Similarity=0.292  Sum_probs=53.5

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHH
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVIN  305 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~  305 (915)
                      +.|||..+|.++.  +-+|.-++|.|++|+|||+++++.+.+....+-.|+|....+..+++.+-.+
T Consensus         3 i~tGi~~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee~~~~i~~~~~   69 (237)
T TIGR03877         3 VKTGIPGMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEEHPVQVRRNMA   69 (237)
T ss_pred             cccCcHhHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeCCHHHHHHHHH
Confidence            6799999999876  4469999999999999999999988876555667899999988776555443

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.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.23  E-value=0.00068  Score=75.90  Aligned_cols=111  Identities=24%  Similarity=0.352  Sum_probs=75.3

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-  738 (915)
                      .+.+.||+..+|.++.   +-+|-=+-|+|++|+|||+|+.+++.+.++. ...++|+-.=+... . ++.+.+   |+ 
T Consensus        33 ~~~isTGi~~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~-g~~~vyId~E~~~~-~-~~a~~l---Gvd  106 (325)
T cd00983          33 VEVIPTGSLSLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKL-GGTVAFIDAEHALD-P-VYAKKL---GVD  106 (325)
T ss_pred             CceecCCCHHHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCCEEEECccccHH-H-HHHHHc---CCC
Confidence            4479999999999988   6678888899999999999999999887654 34567763322111 1 223332   32 


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                      +++ ++ ++..+.  .      .-++.+++.+...+.--+|++||++-+..
T Consensus       107 ~~~-l~-v~~p~~--~------eq~l~i~~~li~s~~~~lIVIDSvaal~~  147 (325)
T cd00983         107 LDN-LL-ISQPDT--G------EQALEIADSLVRSGAVDLIVVDSVAALVP  147 (325)
T ss_pred             HHH-he-ecCCCC--H------HHHHHHHHHHHhccCCCEEEEcchHhhcc
Confidence            233 23 333321  2      23566778887778788999999997764

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK06271 V-type ATP synthase subunit K; Validated

Probab=97.19  E-value=0.00028  Score=74.21  Aligned_cols=42  Identities=26%  Similarity=0.503  Sum_probs=39.3

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCccccccc
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSL   45 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l   45 (915)
                      ++..+++|+++|++++ +|+|+|+++++++|++|||||+.+++
T Consensus       145 g~~~~~aGl~~Gla~~-sgig~G~~~~~~~~~~arqPe~~~~~  186 (213)
T PRK06271        145 TIAALGAGLAVGFAGL-SGIGQGITAAGAIGATARDPDAMGKG  186 (213)
T ss_pred             HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhcCcHHhhhH
Confidence            4678999999999999 99999999999999999999999985

>PRK14893 V-type ATP synthase subunit K; Provisional

Probab=97.16  E-value=0.00025  Score=71.27  Aligned_cols=51  Identities=18%  Similarity=0.408  Sum_probs=43.4

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      .+.+++++++|++++|+|+|+|+++++++++++||||+.++    ++++.+.-++
T Consensus        91 ~~~lgagL~~Gla~~gsgig~G~~~~a~i~~iar~Pe~~~~----~li~~al~Et  141 (161)
T PRK14893         91 LVAIGAGAAIGFAGLGSGMGQGIASASSVGAVVEDPDMFAR----GIIFSALPET  141 (161)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHHHHH----HHHHHHHHHH
Confidence            56789999999999999999999999999999999998775    5665554433

>PRK06271 V-type ATP synthase subunit K; Validated

Probab=97.16  E-value=0.00027  Score=74.30  Aligned_cols=58  Identities=19%  Similarity=0.356  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhhhhhc
Q psy210            6 LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIEDKIYK   67 (915)
Q Consensus         6 ~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~k~~~   67 (915)
                      .+++++++|++++|+|+|+|.++++++++++||||+.++    ++++.+..+.-.|---++-
T Consensus         2 ~igagla~glaa~Ga~~G~g~~g~a~~~~~ar~Pe~~~~----~li~~al~e~~~Iyglvia   59 (213)
T PRK06271          2 AIGAGLAVGIAGLGSGIGAGITGASGAGVVAEDPNKFGT----AIVFQALPQTQGLYGFLVA   59 (213)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence            478999999999999999999999999999999999887    6887777777666665543

>PRK04328 hypothetical protein; Provisional

Probab=97.15  E-value=0.0019  Score=70.05  Aligned_cols=67  Identities=19%  Similarity=0.274  Sum_probs=55.3

Q ss_pred             cccccceeeecccccc--ccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHH
Q psy210          240 PLLTGIKSIDSMIPIG--KGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINK  306 (915)
Q Consensus       240 ~l~TGi~aiD~l~pig--rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~  306 (915)
                      .+.|||..+|.++.=|  +|.-++|.|++|+|||+++++.+.+....+-.|+|....+..+++.+..+.
T Consensus         4 rv~tGi~~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~~~~i~~~~~~   72 (249)
T PRK04328          4 RVKTGIPGMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEHPVQVRRNMRQ   72 (249)
T ss_pred             eecCCchhHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCCHHHHHHHHHH
Confidence            4789999999997634  799999999999999999999988865556668999999988876554443

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=97.15  E-value=0.004  Score=66.23  Aligned_cols=63  Identities=25%  Similarity=0.374  Sum_probs=49.0

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHH
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINV  303 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~  303 (915)
                      +.|||..+|.++.  +-+|.-++|.|++|+|||+++++.+.+....+-.|+|....+..+++.+.
T Consensus         2 i~tGi~~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~~~~i~~~   66 (229)
T TIGR03881         2 LSTGVEGLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEESRESIIRQ   66 (229)
T ss_pred             cCCChhhHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCCHHHHHHH
Confidence            5799999999875  45799999999999999999887766543334457888887777655433

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.

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=97.15  E-value=0.0017  Score=68.86  Aligned_cols=57  Identities=26%  Similarity=0.429  Sum_probs=47.3

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeec
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIG  294 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iG  294 (915)
                      ++.+.||+..+|-++.  +-+|.=..|.|++|+|||+++++...+....+-.|+|.-..
T Consensus         2 ~~~i~tGi~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e   60 (225)
T PRK09361          2 DERLPTGCKMLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE   60 (225)
T ss_pred             CccccCCcHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence            5678999999999995  44598999999999999999998887765556667888766

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.14  E-value=0.0023  Score=67.75  Aligned_cols=44  Identities=30%  Similarity=0.409  Sum_probs=39.1

Q ss_pred             ccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          666 LETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       666 l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      +.||+..+|-++  -+-+|+-..|+|++|+|||+|+.+++.+....
T Consensus         1 i~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~   46 (226)
T cd01393           1 ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLP   46 (226)
T ss_pred             CCCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcc
Confidence            579999999987  48899999999999999999999999887543

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.11  E-value=0.0014  Score=73.28  Aligned_cols=120  Identities=22%  Similarity=0.244  Sum_probs=75.8

Q ss_pred             cccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecC--CCchHHHHHHHhhh
Q psy210          665 ILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGE--RSREGNDFYHEMKE  735 (915)
Q Consensus       665 ~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGe--r~~ev~e~~~~~~~  735 (915)
                      .+.||++.+|.++-  +-+|.=..|+|+||+|||+++.+++.+....     ...-+||+-.-+  +++.+.++.+.+.-
T Consensus        76 ~~~Tg~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~~~gl  155 (310)
T TIGR02236        76 KITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGL  155 (310)
T ss_pred             eecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHHHcCC
Confidence            47788888998876  6688999999999999999999999886531     123678886666  45555555543311


Q ss_pred             --cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcE-EEEecchhhHHHh
Q psy210          736 --SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDV-LLFIDNIYRFTLA  790 (915)
Q Consensus       736 --~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~V-l~~~Ds~tr~a~A  790 (915)
                        ...+++ +.++...+..+  +.   ...-.+.+.+.+.+.++ +|++||++-+-+.
T Consensus       156 ~~~~~~~~-i~i~~~~~~~~--~~---~lld~l~~~i~~~~~~~~lVVIDSisa~~r~  207 (310)
T TIGR02236       156 DPDEVLKN-IYVARAYNSNH--QM---LLVEKAEDLIKELNNPVKLLIVDSLTSHFRA  207 (310)
T ss_pred             CHHHHhhc-eEEEecCCHHH--HH---HHHHHHHHHHHhcCCCceEEEEecchHhhhH
Confidence              113444 33333332222  11   12234566666644333 8999999976443

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.

>KOG3025|consensus

Probab=97.09  E-value=6.8e-05  Score=69.13  Aligned_cols=54  Identities=22%  Similarity=0.358  Sum_probs=48.2

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      .++|+||++- ++..|+|+|+|.++++.+.+.+|||....++|...|+|.++.+.
T Consensus        68 ak~igag~at-vgv~gsg~gig~vf~~li~g~arnpslk~~lfs~ailgfalsea  121 (137)
T KOG3025|consen   68 AKFIGAGAAT-VGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEA  121 (137)
T ss_pred             HHHhccchhh-hccccccchHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHH
Confidence            5788998884 89999999999999999999999999999999999997766543

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=97.08  E-value=0.0017  Score=69.12  Aligned_cols=117  Identities=18%  Similarity=0.243  Sum_probs=69.1

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCC------CeEEEEEeeccc--hhhHHHHHHHHh--
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNK------NVICIYVCIGQK--ISSLINVINKLK--  308 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~------~~~~V~~~iGer--~~ev~~~~~~l~--  308 (915)
                      +.||++.+|.++.  +-+|.-..|.|++|+|||+++++.+++....      +-.|+|.-..+.  .+...++.+.+.  
T Consensus         1 ~~tG~~~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~~~~~~~~~~   80 (235)
T cd01123           1 LTTGSKALDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLVQIAERFGLD   80 (235)
T ss_pred             CCCCchhhHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHHHHHHHhccC
Confidence            4699999999876  6679999999999999999988887663221      245777766553  233333332211  


Q ss_pred             ccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          309 YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       309 ~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      ...++++..++....    .+......  ..+-+.+.+.+.--+||+|+++.+.+
T Consensus        81 ~~~~~~~i~~~~~~~----~~~l~~~l--~~l~~~l~~~~~~~liVIDSis~~~~  129 (235)
T cd01123          81 PEEVLDNIYVARAYN----SDHQLQLL--EELEAILIESSRIKLVIVDSVTALFR  129 (235)
T ss_pred             hHhHhcCEEEEecCC----HHHHHHHH--HHHHHHHhhcCCeeEEEEeCcHHHHH
Confidence            122344544332211    11111110  11223444443566999999998754

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 .

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=97.03  E-value=0.0027  Score=67.16  Aligned_cols=55  Identities=22%  Similarity=0.384  Sum_probs=43.6

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCC------eEEEEEeecc
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKN------VICIYVCIGQ  295 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~------~~~V~~~iGe  295 (915)
                      +.||+..+|.++.  +-+|+-..|.|++|+|||+++++.+.+....+      ..|+|.....
T Consensus         1 i~tG~~~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~   63 (226)
T cd01393           1 ISTGSKALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEG   63 (226)
T ss_pred             CCCCcHHHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCC
Confidence            4699999999875  66799999999999999999888777653333      5677776544

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=97.01  E-value=0.0021  Score=71.73  Aligned_cols=119  Identities=19%  Similarity=0.258  Sum_probs=75.0

Q ss_pred             cccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcC------CCeEEEEEeecc--chhhHHHHHHHHhc
Q psy210          240 PLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKN------KNVICIYVCIGQ--KISSLINVINKLKY  309 (915)
Q Consensus       240 ~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~------~~~~~V~~~iGe--r~~ev~~~~~~l~~  309 (915)
                      .+.||+..+|.++.  +-+|.-+.|+|++|+|||+++++...+...      .+..|||.-..+  +.+.+.++.+.+.-
T Consensus        76 ~~~Tg~~~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~~~~~~~gl  155 (310)
T TIGR02236        76 KITTGSKELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIMQMAEARGL  155 (310)
T ss_pred             eecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHHHHHHHcCC
Confidence            46799999999876  556999999999999999999988777421      233789999888  45555555544321


Q ss_pred             c--CCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCC-cEEEEeccchhHHHH
Q psy210          310 Y--NCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQ-DCLIIYDDLTKHAWA  364 (915)
Q Consensus       310 ~--~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~-~Vlv~~Ddltr~a~A  364 (915)
                      .  ..+++..++.....+   .+..   .--.+.+++.+.+. --+||+||++-+-+.
T Consensus       156 ~~~~~~~~i~i~~~~~~~---~~~~---lld~l~~~i~~~~~~~~lVVIDSisa~~r~  207 (310)
T TIGR02236       156 DPDEVLKNIYVARAYNSN---HQML---LVEKAEDLIKELNNPVKLLIVDSLTSHFRA  207 (310)
T ss_pred             CHHHHhhceEEEecCCHH---HHHH---HHHHHHHHHHhcCCCceEEEEecchHhhhH
Confidence            1  123443333322211   1211   11235566665442 238999999987543

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.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.98  E-value=0.016  Score=62.13  Aligned_cols=64  Identities=13%  Similarity=0.025  Sum_probs=44.4

Q ss_pred             cccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHH
Q psy210          667 ETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYH  731 (915)
Q Consensus       667 ~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~  731 (915)
                      .+++.-+|-++.  +-+|..++|.|++|+|||+|+.+++.+..++ ..-++|+...|.+++..+...
T Consensus         7 ~~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~-g~~~~yi~~e~~~~~~~~~~~   72 (230)
T PRK08533          7 ELSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQN-GYSVSYVSTQLTTTEFIKQMM   72 (230)
T ss_pred             EEEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhC-CCcEEEEeCCCCHHHHHHHHH
Confidence            344555555443  6779999999999999999987777765433 245677777776666544443

>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=96.94  E-value=0.015  Score=59.45  Aligned_cols=156  Identities=15%  Similarity=0.098  Sum_probs=79.8

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhh-------hcCccccEEEEEE-cCCCChHhH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK-------ESNVLDKVSLIYG-QMNEPSGNR  756 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~-------~~~~~~~~~vv~~-t~d~~~~~r  756 (915)
                      +.|.|+||+|||+|+.+++.+..++ ..-++|+..-|..+++.+..+.+.       +.+.   ..++-. ....+....
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~-g~~v~~~s~e~~~~~~~~~~~~~g~~~~~l~~~g~---l~~~d~~~~~~s~~~~   77 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLAR-GEPGLYVTLEESPEELIENAESLGWDLERLEDEGL---LAIVDADPDEIGPAES   77 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHC-CCcEEEEECCCCHHHHHHHHHHcCCChHHHHhcCC---eEEEecCccccchhhh
Confidence            4789999999999999999977654 345677777777777655444331       1111   111111 111122221


Q ss_pred             HHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEE
Q psy210          757 LRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAI  836 (915)
Q Consensus       757 ~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v  836 (915)
                      .........+ .....+.+--++++|+++-+...        .        ....-..+.+++....+.  | +|++-+.
T Consensus        78 ~~~~~~~~~i-~~~~~~~~~~~lviD~~~~~~~~--------~--------~~~~~~~i~~l~~~l~~~--g-~tvi~v~  137 (187)
T cd01124          78 SLRLELIQRL-KDAIEEFKAKRVVIDSVSGLLLM--------E--------QSTARLEIRRLLFALKRF--G-VTTLLTS  137 (187)
T ss_pred             hhhHHHHHHH-HHHHHHhCCCEEEEeCcHHHhhc--------C--------hHHHHHHHHHHHHHHHHC--C-CEEEEEe
Confidence            1000111122 22222334457888999976543        0        011222344444443322  3 4655554


Q ss_pred             EecCCCCCCCcccccccccCcEEEeeHH
Q psy210          837 YVPADDLTDPSPSTTFTHLDSTIVLSRQ  864 (915)
Q Consensus       837 ~~~~~d~~dpi~~~~~~i~dg~ivLsr~  864 (915)
                      ......-..........+.|+.|.|++.
T Consensus       138 ~~~~~~~~~~~~~~~~~~aD~ii~l~~~  165 (187)
T cd01124         138 EQSGLEGTGFGGGDVEYLVDGVIRLRLD  165 (187)
T ss_pred             ccccCCCcccCcCceeEeeeEEEEEEEE
Confidence            3332211112233567788999999877

A related protein is found in archaea.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=96.93  E-value=0.009  Score=64.02  Aligned_cols=65  Identities=18%  Similarity=0.213  Sum_probs=48.9

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHH
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVIN  305 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~  305 (915)
                      +.|++..+|-+..  +-+|..++|.|++|+|||+++++.+.+....+..++|....+..++..+..+
T Consensus         6 ~~~~~~~ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~~e~~~~~~~~~~~   72 (230)
T PRK08533          6 IELSRDELHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVSTQLTTTEFIKQMM   72 (230)
T ss_pred             EEEEEeeeehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeCCCCHHHHHHHHH
Confidence            4566777777665  3459999999999999999988888876444556788888887766555443

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=96.91  E-value=0.0059  Score=66.58  Aligned_cols=68  Identities=13%  Similarity=0.181  Sum_probs=52.1

Q ss_pred             Cccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhcCC-CeEEEEEeeccchhhHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQKNK-NVICIYVCIGQKISSLINVIN  305 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~-~~~~V~~~iGer~~ev~~~~~  305 (915)
                      ++-+.||+..+|.++- +.+|+-..|.|++|+|||+++++...+.... +..++|....+..+++...+.
T Consensus        10 ~~~~~tg~~~Ld~~~gG~~~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~~~~~~~r~~   79 (271)
T cd01122          10 NEEVWWPFPVLNKLTKGLRKGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEPVVRTARRLL   79 (271)
T ss_pred             ccCCCCCcceeeeeeEEEcCCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccCHHHHHHHHH
Confidence            3467799999999863 3459999999999999999988877765433 556778888887776665543

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.91  E-value=0.0045  Score=70.10  Aligned_cols=120  Identities=18%  Similarity=0.170  Sum_probs=75.1

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecC--CCchHHHHHHHhh
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGE--RSREGNDFYHEMK  734 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGe--r~~ev~e~~~~~~  734 (915)
                      ..+.||++.+|-++-  +-+|.=.-|+|++|+|||+|+.+++.+....     ...-++|+-.-+  +++.+.+..+.+.
T Consensus       106 ~~isTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~g  185 (344)
T PLN03187        106 VRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERFG  185 (344)
T ss_pred             ceecCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHcC
Confidence            458999999999976  6688889999999999999999998765421     013567775544  5666666655442


Q ss_pred             h--cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHh
Q psy210          735 E--SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       735 ~--~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A  790 (915)
                      -  ..++++ +.+ .... ...+....   ...+.+.+.+.+- =||++||++-+-++
T Consensus       186 ~d~~~~l~~-I~~-~~~~-~~e~~~~~---l~~l~~~i~~~~~-~LvVIDSital~r~  236 (344)
T PLN03187        186 MDADAVLDN-IIY-ARAY-TYEHQYNL---LLGLAAKMAEEPF-RLLIVDSVIALFRV  236 (344)
T ss_pred             CChhhhcCe-EEE-ecCC-CHHHHHHH---HHHHHHHHHhcCC-CEEEEeCcHHhhhc
Confidence            1  234555 332 2222 22222211   2233344555444 46789999987553

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.90  E-value=0.0031  Score=59.51  Aligned_cols=99  Identities=16%  Similarity=0.165  Sum_probs=53.8

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhhcCCC-eEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhh
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQKNKN-VICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISP  334 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~-~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~  334 (915)
                      +|+.+.|+|++|+|||++ +..++++.... ..++|+-+..... ...+...           ......+.....+....
T Consensus         1 ~~~~~~l~G~~G~GKTtl-~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-----------~~~~~~~~~~~~~~~~~   67 (148)
T smart00382        1 PGEVILIVGPPGSGKTTL-ARALARELGPPGGGVIYIDGEDILE-EVLDQLL-----------LIIVGGKKASGSGELRL   67 (148)
T ss_pred             CCCEEEEECCCCCcHHHH-HHHHHhccCCCCCCEEEECCEEccc-cCHHHHH-----------hhhhhccCCCCCHHHHH
Confidence            367899999999999999 56666653322 1234444443322 2222111           01111122223333334


Q ss_pred             hhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhh
Q psy210          335 YTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLL  371 (915)
Q Consensus       335 ~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~  371 (915)
                      ...++.|++..    ..++++|++.++..........
T Consensus        68 ~~~~~~~~~~~----~~viiiDei~~~~~~~~~~~~~  100 (148)
T smart00382       68 RLALALARKLK----PDVLILDEITSLLDAEQEALLL  100 (148)
T ss_pred             HHHHHHHHhcC----CCEEEEECCcccCCHHHHHHHH
Confidence            44455555433    5899999999988766555443

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.

>TIGR00416 sms DNA repair protein RadA

Probab=96.89  E-value=0.0086  Score=70.49  Aligned_cols=56  Identities=20%  Similarity=0.380  Sum_probs=46.2

Q ss_pred             ccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          664 NILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       664 e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      +.+.|||.-+|-++  -+.+|+=++|.|+||+|||+|+.+++.+..+++ .-++|+. +|
T Consensus        74 ~ri~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g-~kvlYvs-~E  131 (454)
T TIGR00416        74 PRFSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQ-MKVLYVS-GE  131 (454)
T ss_pred             CccccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcC-CcEEEEE-Cc
Confidence            45899999999997  489999999999999999999999999876542 3356664 44

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)).

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.86  E-value=0.0034  Score=77.44  Aligned_cols=119  Identities=22%  Similarity=0.343  Sum_probs=77.5

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      .+.+.||+..+|.++.   +-+|.=..|+|++|+|||+|+.+++.+..+. ...++|+---+..+  .+..+.+   |+-
T Consensus        38 v~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~-G~~v~yId~E~t~~--~~~A~~l---GvD  111 (790)
T PRK09519         38 ISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA-GGVAAFIDAEHALD--PDYAKKL---GVD  111 (790)
T ss_pred             CceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHc-CCcEEEECCccchh--HHHHHHc---CCC
Confidence            3478999999999987   6689999999999999999999988876543 35567774333333  1222333   332


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhh
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAM  797 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~  797 (915)
                      -..++ +...+  +.++      ++.+++.+..++.=-||++||++-+.. ..|+...
T Consensus       112 l~~ll-v~~~~--~~E~------~l~~i~~lv~~~~~~LVVIDSI~aL~~-r~E~~g~  159 (790)
T PRK09519        112 TDSLL-VSQPD--TGEQ------ALEIADMLIRSGALDIVVIDSVAALVP-RAELEGE  159 (790)
T ss_pred             hhHeE-EecCC--CHHH------HHHHHHHHhhcCCCeEEEEcchhhhcc-hhhccCC
Confidence            12223 33322  2233      455566666677777899999997764 2354443

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.85  E-value=0.0077  Score=63.05  Aligned_cols=103  Identities=16%  Similarity=0.164  Sum_probs=60.6

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC-CCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE-RSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL  757 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe-r~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~  757 (915)
                      +-+|+=..|+|+||+|||+++.+++.+...+ ..-++|+-.-+ .++.+.+..+...+ ..+++ ++++...  ++.+..
T Consensus         9 i~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~-g~~v~yi~~e~~~~~rl~~~~~~~~~-~~~~~-i~~~~~~--~~~~~~   83 (209)
T TIGR02237         9 VERGTITQIYGPPGSGKTNICMILAVNAARQ-GKKVVYIDTEGLSPERFKQIAEDRPE-RALSN-FIVFEVF--DFDEQG   83 (209)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHhC-CCeEEEEECCCCCHHHHHHHHHhChH-HHhcC-EEEEECC--CHHHHH
Confidence            5679999999999999999999999887654 34567775543 44444443332211 12344 3333332  222221


Q ss_pred             HHHHHHHHHHHHHHHCCCcEEEEecchhhHHHh
Q psy210          758 RVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       758 ~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A  790 (915)
                      .   ....+.+.+.+.+.+ +|++||++.+.++
T Consensus        84 ~---~~~~l~~~~~~~~~~-lvVIDSis~l~~~  112 (209)
T TIGR02237        84 V---AIQKTSKFIDRDSAS-LVVVDSFTALYRL  112 (209)
T ss_pred             H---HHHHHHHHHhhcCcc-EEEEeCcHHHhHH
Confidence            1   122334444444444 6777999987654

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.79  E-value=0.022  Score=60.44  Aligned_cols=173  Identities=16%  Similarity=0.140  Sum_probs=91.9

Q ss_pred             cceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh--cCccccEEE
Q psy210          669 GIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE--SNVLDKVSL  744 (915)
Q Consensus       669 Gir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~--~~~~~~~~v  744 (915)
                      ||+-+|-++  -+-+|.-+.|.|+||+|||+++.+++.+..++ ..-++|+..-+..+++.+-.+.+.-  .+..++.+.
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~-g~~~~y~s~e~~~~~l~~~~~~~~~~~~~~~~~~l~   79 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKN-GEKAMYISLEEREERILGYAKSKGWDLEDYIDKSLY   79 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhC-CCeEEEEECCCCHHHHHHHHHHcCCChHHHHhCCeE
Confidence            556666665  35589999999999999999999999876543 4567888888877666555444321  111222233


Q ss_pred             EEEcCCCChHhHHHHHHHHH-HHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhc
Q psy210          745 IYGQMNEPSGNRLRVALTGL-SIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS  823 (915)
Q Consensus       745 v~~t~d~~~~~r~~~~~~a~-~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag  823 (915)
                      +...   ++.........-. .+.......+.+ ++++||++-+-.       ..       +.+...-..+..++....
T Consensus        80 ~~~~---~~~~~~~~~~~l~~~~~~~i~~~~~~-~vVIDsls~l~~-------~~-------~~~~~~r~~l~~l~~~lk  141 (224)
T TIGR03880        80 IVRL---DPSDFKTSLNRIKNELPILIKELGAS-RVVIDPISLLET-------LF-------DDDAERRTELFRFYSSLR  141 (224)
T ss_pred             EEec---CHHHHHhhHHHHHHHHHHHHHHhCCC-EEEEcChHHHhh-------hc-------CCHHHHHHHHHHHHHHHH
Confidence            3322   2221111111111 222223334666 456999996511       00       112222234455555443


Q ss_pred             CCCCCceeEEEEEEecCCCCCCCc-ccccccccCcEEEeeHH
Q psy210          824 STKNGTITSVQAIYVPADDLTDPS-PSTTFTHLDSTIVLSRQ  864 (915)
Q Consensus       824 ~~~~GSiT~i~~v~~~~~d~~dpi-~~~~~~i~dg~ivLsr~  864 (915)
                      +  . -+|++.+......+. ..- ...+..+.|+-|+|+..
T Consensus       142 ~--~-~~tvll~s~~~~~~~-~~~~~~~~~~l~D~vI~L~~~  179 (224)
T TIGR03880       142 E--T-GVTTILTSEADKTNV-FASKYGLIEYLADGVIILKYV  179 (224)
T ss_pred             h--C-CCEEEEEEcccCCCC-CccCCCceEEEEeEEEEEeee
Confidence            2  2 246666654432110 011 12356777999999633

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.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.77  E-value=0.0054  Score=64.17  Aligned_cols=102  Identities=15%  Similarity=0.168  Sum_probs=60.4

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeecc-chhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhh
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQ-KISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYIS  333 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGe-r~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~  333 (915)
                      -+|+=..|.|++|+|||+++++...+....+-.|+|.-..+ ..+.+.+..+... ...+++-++ ... . ++.+... 
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~~~~~rl~~~~~~~~-~~~~~~i~~-~~~-~-~~~~~~~-   84 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEGLSPERFKQIAEDRP-ERALSNFIV-FEV-F-DFDEQGV-   84 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCCHHHHHHHHHhCh-HHHhcCEEE-EEC-C-CHHHHHH-
Confidence            35899999999999999999988877655566688888875 4444444433221 112344333 222 1 1111111 


Q ss_pred             hhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          334 PYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       334 ~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                        .-..+.+.+.+.+.+ +||+||++.+.++
T Consensus        85 --~~~~l~~~~~~~~~~-lvVIDSis~l~~~  112 (209)
T TIGR02237        85 --AIQKTSKFIDRDSAS-LVVVDSFTALYRL  112 (209)
T ss_pred             --HHHHHHHHHhhcCcc-EEEEeCcHHHhHH
Confidence              112234444444444 7888999998654

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>TIGR00416 sms DNA repair protein RadA

Probab=96.75  E-value=0.0079  Score=70.81  Aligned_cols=106  Identities=15%  Similarity=0.200  Sum_probs=68.3

Q ss_pred             cccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEE
Q psy210          240 PLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTV  317 (915)
Q Consensus       240 ~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tv  317 (915)
                      .+.|||..+|.++.  +.+|+-++|.|++|+|||+|+++...+....+-.++|....|..+.   +..+...-+.....+
T Consensus        75 ri~TGi~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs~~q---i~~ra~rlg~~~~~l  151 (454)
T TIGR00416        75 RFSSGFGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEESLQQ---IKMRAIRLGLPEPNL  151 (454)
T ss_pred             ccccCcHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCCHHH---HHHHHHHcCCChHHe
Confidence            58899999999985  7779999999999999999988877765444345778876665543   333333334322222


Q ss_pred             EEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          318 VVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       318 vv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      .+....   ..         -.+.+.+.+.+.+ +||+|+++.+
T Consensus       152 ~~~~e~---~~---------~~I~~~i~~~~~~-~vVIDSIq~l  182 (454)
T TIGR00416       152 YVLSET---NW---------EQICANIEEENPQ-ACVIDSIQTL  182 (454)
T ss_pred             EEcCCC---CH---------HHHHHHHHhcCCc-EEEEecchhh
Confidence            222211   11         1233333444554 7999999875

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)).

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.75  E-value=0.0041  Score=69.70  Aligned_cols=120  Identities=15%  Similarity=0.175  Sum_probs=75.0

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc------CCCeEEEEEeecc--chhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK------NKNVICIYVCIGQ--KISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~------~~~~~~V~~~iGe--r~~ev~~~~~~l  307 (915)
                      ...+.||+..+|.++-  +-+|.=..|+|++|+|||+++++...+..      ..+..|+|.-..+  +.+.+.++.+.+
T Consensus        75 ~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~  154 (313)
T TIGR02238        75 VLKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERF  154 (313)
T ss_pred             CceeCCCCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHc
Confidence            3468899999999976  45699999999999999999988776532      2345688988777  356666665554


Q ss_pred             hc--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          308 KY--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       308 ~~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      .-  ..++++ +.+ ..... ...+..   .-..+.+.+.+.+.+ |||+||++.+-++
T Consensus       155 g~d~~~~l~~-i~~-~~~~~-~e~~~~---~l~~l~~~i~~~~~~-LvVIDSisal~r~  206 (313)
T TIGR02238       155 GVDPDAVLDN-ILY-ARAYT-SEHQME---LLDYLAAKFSEEPFR-LLIVDSIMALFRV  206 (313)
T ss_pred             CCChHHhcCc-EEE-ecCCC-HHHHHH---HHHHHHHHhhccCCC-EEEEEcchHhhhh
Confidence            22  122444 222 22111 112211   112334445544455 7999999987543

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.

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=96.74  E-value=0.007  Score=67.83  Aligned_cols=120  Identities=19%  Similarity=0.179  Sum_probs=73.6

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecC--CCchHHHHHHHhh
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGE--RSREGNDFYHEMK  734 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGe--r~~ev~e~~~~~~  734 (915)
                      ..+.||++.+|-++-  +-+|.=..|+|++|+|||+|+.+++.+....     ...-++|+-.-+  +++.+.++.+.+.
T Consensus        76 ~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~~a~~~g  155 (313)
T TIGR02238        76 LKITTGSQALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRAIAERFG  155 (313)
T ss_pred             ceeCCCCHHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHHHHHHcC
Confidence            358899999999875  7789999999999999999999998765421     123567774433  3555555554432


Q ss_pred             h--cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHh
Q psy210          735 E--SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       735 ~--~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A  790 (915)
                      -  +..+++ +.++...+  ..+...   ....+.+.+.+.+.+ ||++||++-+-++
T Consensus       156 ~d~~~~l~~-i~~~~~~~--~e~~~~---~l~~l~~~i~~~~~~-LvVIDSisal~r~  206 (313)
T TIGR02238       156 VDPDAVLDN-ILYARAYT--SEHQME---LLDYLAAKFSEEPFR-LLIVDSIMALFRV  206 (313)
T ss_pred             CChHHhcCc-EEEecCCC--HHHHHH---HHHHHHHHhhccCCC-EEEEEcchHhhhh
Confidence            1  234555 33322211  222211   123344455554444 6899999976543

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.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.70  E-value=0.0063  Score=68.32  Aligned_cols=120  Identities=23%  Similarity=0.299  Sum_probs=72.8

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcC-----CcEEEEEEecC--CCchHHHHHHHhh
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH-----KGCSVFIGVGE--RSREGNDFYHEMK  734 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~-----~~~~v~~~iGe--r~~ev~e~~~~~~  734 (915)
                      ..+.||+.-+|-++.  +-+|.=..|+|++|+|||+++.+++.+.....     ..-++|+-.-+  +++.+.+..+.+.
T Consensus        82 ~~~~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~~g  161 (317)
T PRK04301         82 GKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALG  161 (317)
T ss_pred             CccCCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHHcC
Confidence            347888888888765  77899999999999999999999998764321     13577876655  3455555544332


Q ss_pred             h--cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcE-EEEecchhhHHHh
Q psy210          735 E--SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDV-LLFIDNIYRFTLA  790 (915)
Q Consensus       735 ~--~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~V-l~~~Ds~tr~a~A  790 (915)
                      .  +..+++ +.++...  +..++..    .+...+.+..++.++ +|++||++-+-++
T Consensus       162 ~~~~~~l~~-i~~~~~~--~~~~~~~----~~~~l~~~i~~~~~~~lvVIDSisa~~~~  213 (317)
T PRK04301        162 LDPDEVLDN-IHVARAY--NSDHQML----LAEKAEELIKEGENIKLVIVDSLTAHFRA  213 (317)
T ss_pred             CChHhhhcc-EEEEeCC--CHHHHHH----HHHHHHHHHhccCceeEEEEECchHHhhh
Confidence            1  233455 3333221  1222211    122223333333334 8999999976543

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=96.63  E-value=0.0037  Score=77.08  Aligned_cols=109  Identities=18%  Similarity=0.300  Sum_probs=76.6

Q ss_pred             ccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-cc
Q psy210          239 EPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-MD  314 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~~  314 (915)
                      ..+.||+..+|.++.   +-+|.-+.|+|++|+|||+|+++.+++....+-.|+|.-..+..+.     +..+.-|+ ++
T Consensus        39 ~~isTGi~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~-----~~A~~lGvDl~  113 (790)
T PRK09519         39 SVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDP-----DYAKKLGVDTD  113 (790)
T ss_pred             ceecCCcHHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhH-----HHHHHcCCChh
Confidence            367899999999988   4469999999999999999999988876555666888887776662     23444455 33


Q ss_pred             eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          315 YTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       315 ~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      +. +++ ..+  +.++      ++.+++.+.+.+.--|||+||++.+.
T Consensus       114 ~l-lv~-~~~--~~E~------~l~~i~~lv~~~~~~LVVIDSI~aL~  151 (790)
T PRK09519        114 SL-LVS-QPD--TGEQ------ALEIADMLIRSGALDIVVIDSVAALV  151 (790)
T ss_pred             He-EEe-cCC--CHHH------HHHHHHHHhhcCCCeEEEEcchhhhc
Confidence            33 322 222  2233      45556665555666789999999776

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=96.60  E-value=0.0092  Score=66.99  Aligned_cols=119  Identities=20%  Similarity=0.232  Sum_probs=72.8

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcC------CCeEEEEEeecc--chhhHHHHHHHHh
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKN------KNVICIYVCIGQ--KISSLINVINKLK  308 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~------~~~~~V~~~iGe--r~~ev~~~~~~l~  308 (915)
                      ..+.||+..+|-++.  +-+|.-..|+|++|+|||+++++.+.+...      .+..++|.-..+  +.+.+.+..+.+.
T Consensus        82 ~~~~Tg~~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~~~~~~g  161 (317)
T PRK04301         82 GKITTGSKELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQMAEALG  161 (317)
T ss_pred             CccCCCCHHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHHHHHHcC
Confidence            357899999999876  557999999999999999999998877321      234688998887  4555555554432


Q ss_pred             c--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          309 Y--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       309 ~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      .  ...+++..++  ...+ ..++..   .--.+.+.+.+...-=|||+||++-+-+
T Consensus       162 ~~~~~~l~~i~~~--~~~~-~~~~~~---~~~~l~~~i~~~~~~~lvVIDSisa~~~  212 (317)
T PRK04301        162 LDPDEVLDNIHVA--RAYN-SDHQML---LAEKAEELIKEGENIKLVIVDSLTAHFR  212 (317)
T ss_pred             CChHhhhccEEEE--eCCC-HHHHHH---HHHHHHHHHhccCceeEEEEECchHHhh
Confidence            1  1224443332  2221 122211   1112333333312223899999998754

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.54  E-value=0.023  Score=66.82  Aligned_cols=107  Identities=19%  Similarity=0.295  Sum_probs=66.5

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-cc
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-LD  740 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-~~  740 (915)
                      +.+.|||.-+|-++.  +.+|+=+.|.|+||+|||+|+.+++.+..++ ..-++|+.--|..+.   +......-+. .+
T Consensus        60 ~ri~TGi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~-g~~vlYvs~Ees~~q---i~~ra~rlg~~~~  135 (446)
T PRK11823         60 PRISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAA-GGKVLYVSGEESASQ---IKLRAERLGLPSD  135 (446)
T ss_pred             CcccCCcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhc-CCeEEEEEccccHHH---HHHHHHHcCCChh
Confidence            458999999999875  7789999999999999999999999987643 234566643333333   3322322232 22


Q ss_pred             cEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          741 KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       741 ~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      + +.+....+   .++         +-+.+. +.+--++++||++.+.
T Consensus       136 ~-l~~~~e~~---l~~---------i~~~i~-~~~~~lVVIDSIq~l~  169 (446)
T PRK11823        136 N-LYLLAETN---LEA---------ILATIE-EEKPDLVVIDSIQTMY  169 (446)
T ss_pred             c-EEEeCCCC---HHH---------HHHHHH-hhCCCEEEEechhhhc
Confidence            3 33332211   122         112232 3445578999999753

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=96.48  E-value=0.011  Score=67.00  Aligned_cols=120  Identities=16%  Similarity=0.171  Sum_probs=76.8

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhh-c-----CCCeEEEEEeecc--chhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQ-K-----NKNVICIYVCIGQ--KISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~-~-----~~~~~~V~~~iGe--r~~ev~~~~~~l  307 (915)
                      ...+.||++.+|.++-  +-.|.=.-|+|++|+|||+|+++..++. .     ..+..++|.-..+  +.+.+.+..+.+
T Consensus       105 ~~~isTG~~~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~ia~~~  184 (344)
T PLN03187        105 VVRITTGSQALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVPIAERF  184 (344)
T ss_pred             CceecCCcHhHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHHHHHHc
Confidence            4468899999999977  3468889999999999999998886653 2     2245788998877  566666666654


Q ss_pred             hc--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          308 KY--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       308 ~~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      .-  ..++++..  +....+ ..++...   -..+.+.+.+.+.+ |||+||++-+-++
T Consensus       185 g~d~~~~l~~I~--~~~~~~-~e~~~~~---l~~l~~~i~~~~~~-LvVIDSital~r~  236 (344)
T PLN03187        185 GMDADAVLDNII--YARAYT-YEHQYNL---LLGLAAKMAEEPFR-LLIVDSVIALFRV  236 (344)
T ss_pred             CCChhhhcCeEE--EecCCC-HHHHHHH---HHHHHHHHHhcCCC-EEEEeCcHHhhhc
Confidence            22  12345522  222222 2222111   12233445554555 7899999987543

>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=96.46  E-value=0.003  Score=70.65  Aligned_cols=120  Identities=20%  Similarity=0.278  Sum_probs=74.7

Q ss_pred             ccccccceeeecccccc---ccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-cc
Q psy210          239 EPLLTGIKSIDSMIPIG---KGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-MD  314 (915)
Q Consensus       239 ~~l~TGi~aiD~l~pig---rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~~  314 (915)
                      +.+.||+.++|..++.|   +|.=+=|+|++++|||+|++..+++....+..|+|.-.....  -.++   +..-|+ ++
T Consensus        32 ~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~l--d~~~---a~~lGvdl~  106 (322)
T PF00154_consen   32 EVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHAL--DPEY---AESLGVDLD  106 (322)
T ss_dssp             -EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS-----HHH---HHHTT--GG
T ss_pred             ceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcccc--hhhH---HHhcCcccc
Confidence            57899999999999854   477778999999999999999999865557677777654322  1233   334466 66


Q ss_pred             eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCC
Q psy210          315 YTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRR  374 (915)
Q Consensus       315 ~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~  374 (915)
                      +-++ +-+ + + .      ..|+.++|.+.+.|.-.+||+||+...+-- .|+-..+++
T Consensus       107 rllv-~~P-~-~-~------E~al~~~e~lirsg~~~lVVvDSv~al~p~-~E~e~~~~~  155 (322)
T PF00154_consen  107 RLLV-VQP-D-T-G------EQALWIAEQLIRSGAVDLVVVDSVAALVPK-AELEGEIGD  155 (322)
T ss_dssp             GEEE-EE--S-S-H------HHHHHHHHHHHHTTSESEEEEE-CTT-B-H-HHHTTSTSS
T ss_pred             ceEE-ecC-C-c-H------HHHHHHHHHHhhcccccEEEEecCcccCCH-HHHhhcccc
Confidence            6443 332 1 1 2      246889998887777668999998876432 244444443

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 ....

>PRK06558 V-type ATP synthase subunit K; Validated

Probab=96.41  E-value=0.0025  Score=64.10  Aligned_cols=42  Identities=24%  Similarity=0.425  Sum_probs=39.4

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCccccccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSL   45 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l   45 (915)
                      +..+++++++|++++|+++|+|.++++++++++||||..++.
T Consensus        16 ~~~lGa~laigla~iGsa~G~g~ag~a~~~~~a~~Pe~~~k~   57 (159)
T PRK06558         16 FAALGAALAVGLSGIGSAKGVGKAGEAAAGLLTEEPEKFGKA   57 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHH
Confidence            457899999999999999999999999999999999999885

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.38  E-value=0.018  Score=66.07  Aligned_cols=108  Identities=20%  Similarity=0.254  Sum_probs=67.6

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceE
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYT  316 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~t  316 (915)
                      +.+.|||..+|.++-  +.+|+-++|.|++|+|||+|+++...+....+-.++|....+..+.   +..+...-+.....
T Consensus        62 ~ri~TGi~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs~~q---i~~Ra~rlg~~~~~  138 (372)
T cd01121          62 ERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEESPEQ---IKLRADRLGISTEN  138 (372)
T ss_pred             CccccCCHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcCHHH---HHHHHHHcCCCccc
Confidence            368899999999985  7779999999999999999988777665444445677765554443   33333333432222


Q ss_pred             EEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          317 VVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       317 vvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      +.+....   -.+         .+-+.+.+. +--+||+|+++.+.
T Consensus       139 l~l~~e~---~le---------~I~~~i~~~-~~~lVVIDSIq~l~  171 (372)
T cd01121         139 LYLLAET---NLE---------DILASIEEL-KPDLVIIDSIQTVY  171 (372)
T ss_pred             EEEEccC---cHH---------HHHHHHHhc-CCcEEEEcchHHhh
Confidence            2222211   111         122333333 34578999998764

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.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=96.24  E-value=0.043  Score=58.21  Aligned_cols=63  Identities=21%  Similarity=0.445  Sum_probs=48.5

Q ss_pred             cceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHH
Q psy210          244 GIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINK  306 (915)
Q Consensus       244 Gi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~  306 (915)
                      ||..+|-++.  +-+|.-++|.|++|+|||+++++.+.+....+-.|+|....+..+++.+-.+.
T Consensus         1 Gi~~LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~~~~~l~~~~~~   65 (224)
T TIGR03880         1 GIPGLDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEEREERILGYAKS   65 (224)
T ss_pred             CchhhHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHH
Confidence            6777788764  33699999999999999999999988764446568899998877655554443

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.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=96.22  E-value=0.017  Score=66.30  Aligned_cols=57  Identities=25%  Similarity=0.482  Sum_probs=45.8

Q ss_pred             cccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          663 NNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      .+.+.|||.-+|-++-  +.+|+=++|.|+||+|||+|+.+++.+..++. .-++|+. ||
T Consensus        61 ~~ri~TGi~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g-~~VlYvs-~E  119 (372)
T cd01121          61 EERIPTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-GKVLYVS-GE  119 (372)
T ss_pred             cCccccCCHHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcC-CeEEEEE-CC
Confidence            3468999999999874  88999999999999999999999999876542 3345543 44

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.

>PTZ00035 Rad51 protein; Provisional

Probab=96.19  E-value=0.014  Score=66.05  Aligned_cols=120  Identities=19%  Similarity=0.194  Sum_probs=71.0

Q ss_pred             cccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecC--CCchHHHHHHHh
Q psy210          663 NNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGE--RSREGNDFYHEM  733 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGe--r~~ev~e~~~~~  733 (915)
                      ...+.||++.+|-++-  +-+|.=..|+|++|+|||+|+.+++.+....     ...-++|+---+  +++.+.++.+.+
T Consensus        97 ~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~~ia~~~  176 (337)
T PTZ00035         97 IIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAERF  176 (337)
T ss_pred             CccccCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHHHHHHHh
Confidence            3568999999999874  6689999999999999999999998765420     123455653221  244455554432


Q ss_pred             h--hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          734 K--ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       734 ~--~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                      .  ...++++ +.++...+  +.+....   -..+.+.+.+ ++--||++||++-+-+
T Consensus       177 g~~~~~~l~n-I~~~~~~~--~e~~~~~---l~~~~~~l~~-~~~~lvVIDSital~r  227 (337)
T PTZ00035        177 GLDPEDVLDN-IAYARAYN--HEHQMQL---LSQAAAKMAE-ERFALLIVDSATALFR  227 (337)
T ss_pred             CCChHhHhhc-eEEEccCC--HHHHHHH---HHHHHHHhhc-cCccEEEEECcHHhhh
Confidence            1  1234455 23332222  1222111   1223334433 4556889999997644

>PRK11823 DNA repair protein RadA; Provisional

Probab=96.11  E-value=0.02  Score=67.38  Aligned_cols=106  Identities=20%  Similarity=0.245  Sum_probs=68.5

Q ss_pred             cccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-cceE
Q psy210          240 PLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-MDYT  316 (915)
Q Consensus       240 ~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~~~t  316 (915)
                      .+.|||..+|.++.  +.+|+-++|.|++|+|||+|+++...+....+-.++|....+..+.+.   ++...-+. .++ 
T Consensus        61 ri~TGi~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees~~qi~---~ra~rlg~~~~~-  136 (446)
T PRK11823         61 RISTGIGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEESASQIK---LRAERLGLPSDN-  136 (446)
T ss_pred             cccCCcHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccccHHHHH---HHHHHcCCChhc-
Confidence            57899999999976  667999999999999999998888776654455678887666555443   33333333 233 


Q ss_pred             EEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          317 VVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       317 vvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      +.+....+   .+         .+-+.+.+ .+--+||+|+++.+.
T Consensus       137 l~~~~e~~---l~---------~i~~~i~~-~~~~lVVIDSIq~l~  169 (446)
T PRK11823        137 LYLLAETN---LE---------AILATIEE-EKPDLVVIDSIQTMY  169 (446)
T ss_pred             EEEeCCCC---HH---------HHHHHHHh-hCCCEEEEechhhhc
Confidence            32222111   11         12223333 344589999998774

>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=96.01  E-value=0.071  Score=50.74  Aligned_cols=27  Identities=22%  Similarity=0.341  Sum_probs=23.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .+.-+.|.|++|+|||+|+..+++...
T Consensus        18 ~~~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          18 PPKNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHhh
Confidence            366799999999999999999998764

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.

>PF05729 NACHT: NACHT domain

Probab=95.98  E-value=0.019  Score=56.76  Aligned_cols=87  Identities=21%  Similarity=0.315  Sum_probs=50.3

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCC-----cEEEEEEecCCCchHH--HHHHHhhhcCccccEEEEEEcCCCChHhH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHK-----GCSVFIGVGERSREGN--DFYHEMKESNVLDKVSLIYGQMNEPSGNR  756 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~-----~~~v~~~iGer~~ev~--e~~~~~~~~~~~~~~~vv~~t~d~~~~~r  756 (915)
                      .+.|.|++|+|||+++..++..+...+.     .+++|..+++......  .+.+.+...  .       ......... 
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~--~-------~~~~~~~~~-   71 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQ--L-------PESIAPIEE-   71 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHh--h-------ccchhhhHH-
Confidence            3679999999999999999998876542     2444555555444322  122222110  0       000000000 


Q ss_pred             HHHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          757 LRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       757 ~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                               ....+.++.+++++++|.+--+.+
T Consensus        72 ---------~~~~~~~~~~~~llilDglDE~~~   95 (166)
T PF05729_consen   72 ---------LLQELLEKNKRVLLILDGLDELEE   95 (166)
T ss_pred             ---------HHHHHHHcCCceEEEEechHhccc
Confidence                     334555678999999999885443

>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=95.98  E-value=0.084  Score=53.80  Aligned_cols=48  Identities=27%  Similarity=0.369  Sum_probs=36.4

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHH
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKL  307 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l  307 (915)
                      ++|.|++|+|||+++++.+......+-.|+|....+..+++.+..+.+
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~~~~~~~~~~~~   49 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEESPEELIENAESL   49 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCCHHHHHHHHHHc
Confidence            468999999999998887776654555678999888877766554443

A related protein is found in archaea.

>PTZ00035 Rad51 protein; Provisional

Probab=95.97  E-value=0.016  Score=65.61  Aligned_cols=119  Identities=16%  Similarity=0.214  Sum_probs=69.7

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc------CCCeEEEEEeecc--chhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK------NKNVICIYVCIGQ--KISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~------~~~~~~V~~~iGe--r~~ev~~~~~~l  307 (915)
                      ...+.||++.+|.++-  +-+|.-..|+|++|+|||+++++...+..      ..+..|+|.--..  +.+.+.++.+.+
T Consensus        97 ~~~isTG~~~LD~lLgGGi~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri~~ia~~~  176 (337)
T PTZ00035         97 IIRITTGSTQLDKLLGGGIETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERIVQIAERF  176 (337)
T ss_pred             CccccCCcHHHHHHhCCCCCCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHHHHHHHHh
Confidence            4568899999999975  44699999999999999999876654422      1344677766554  244455554443


Q ss_pred             hc--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          308 KY--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       308 ~~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      .-  ..++++-.+  ....+ ..++....   ..+.+.+.+ +.--|||+||++.+-+
T Consensus       177 g~~~~~~l~nI~~--~~~~~-~e~~~~~l---~~~~~~l~~-~~~~lvVIDSital~r  227 (337)
T PTZ00035        177 GLDPEDVLDNIAY--ARAYN-HEHQMQLL---SQAAAKMAE-ERFALLIVDSATALFR  227 (337)
T ss_pred             CCChHhHhhceEE--EccCC-HHHHHHHH---HHHHHHhhc-cCccEEEEECcHHhhh
Confidence            11  122444222  22221 11111111   123334444 3445899999998754

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.92  E-value=0.024  Score=64.26  Aligned_cols=119  Identities=17%  Similarity=0.212  Sum_probs=74.3

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc------CCCeEEEEEeecc--chhhHHHHHHHHh
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK------NKNVICIYVCIGQ--KISSLINVINKLK  308 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~------~~~~~~V~~~iGe--r~~ev~~~~~~l~  308 (915)
                      ..+.||+..+|.++.  +-+|.=..|+|++|+|||+++++...+..      ..+..|+|.-..+  +.+.+.++.+.+.
T Consensus       103 ~~i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia~~~~  182 (342)
T PLN03186        103 IQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAERFG  182 (342)
T ss_pred             ceeCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHHHHcC
Confidence            458899999999776  44588899999999999999987765521      1334688988887  5666666666542


Q ss_pred             c--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          309 Y--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       309 ~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      -  ..++++..++-..   ....+...   -..+++.+.+.+.+ |||+||++.+-+.
T Consensus       183 ~~~~~~l~~i~~~~~~---~~e~~~~l---l~~~~~~~~~~~~~-LIVIDSI~alfr~  233 (342)
T PLN03186        183 LNGADVLENVAYARAY---NTDHQSEL---LLEAASMMAETRFA-LMIVDSATALYRT  233 (342)
T ss_pred             CChhhhccceEEEecC---CHHHHHHH---HHHHHHHhhccCCC-EEEEeCcHHHHHH
Confidence            1  2234443222221   12222111   11233344444444 8999999988543

>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=95.83  E-value=0.017  Score=64.72  Aligned_cols=109  Identities=23%  Similarity=0.363  Sum_probs=67.5

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-  738 (915)
                      .+.+.||+..+|..++   +.+|.=+=|+|++++|||+|+..++.+..+. ...|+|+  +--..=-.++.+.+   |+ 
T Consensus        31 ~~~i~TG~~~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~-g~~~a~I--D~e~~ld~~~a~~l---Gvd  104 (322)
T PF00154_consen   31 IEVISTGSPALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQ-GGICAFI--DAEHALDPEYAESL---GVD  104 (322)
T ss_dssp             S-EE--S-HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT-T-EEEEE--ESSS---HHHHHHT---T--
T ss_pred             cceEecCCcccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcc-cceeEEe--cCcccchhhHHHhc---Ccc
Confidence            3579999999999988   4467777899999999999999999876553 3456665  32222222334343   33 


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRF  787 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~  787 (915)
                      ++| +++ ...|.        ..-++.++|.+...|.-.++++||+..+
T Consensus       105 l~r-llv-~~P~~--------~E~al~~~e~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  105 LDR-LLV-VQPDT--------GEQALWIAEQLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             GGG-EEE-EE-SS--------HHHHHHHHHHHHHTTSESEEEEE-CTT-
T ss_pred             ccc-eEE-ecCCc--------HHHHHHHHHHHhhcccccEEEEecCccc
Confidence            445 333 33321        2346788999888887678899998754

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 ....

>PRK08344 V-type ATP synthase subunit K; Validated

Probab=95.83  E-value=0.0069  Score=60.86  Aligned_cols=48  Identities=19%  Similarity=0.416  Sum_probs=40.6

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGP   55 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~   55 (915)
                      +..+++++++|++++|+++|+|.++++++++++||||.    ++++++..+.
T Consensus         2 ~~~lG~~la~gls~iGsa~G~g~ag~aa~g~~~~~P~~----~~~~li~~a~   49 (157)
T PRK08344          2 YVALGAALAAGLAGAASSFGVGIAGSAAAGAVAEDEKN----FRNALILAGL   49 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHH----HHHHHHHHHH
Confidence            46789999999999999999999999999999999993    4445554333

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=95.78  E-value=0.031  Score=63.40  Aligned_cols=120  Identities=16%  Similarity=0.204  Sum_probs=74.2

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecC--CCchHHHHHHHhh
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGE--RSREGNDFYHEMK  734 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGe--r~~ev~e~~~~~~  734 (915)
                      ..+.||++.+|-++.  +-+|.=..|+|+||+|||+|+.+++.+....     ...-++|+-.-+  +++.+.++.+.+.
T Consensus       103 ~~i~tG~~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~qia~~~~  182 (342)
T PLN03186        103 IQITTGSRELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLIQIAERFG  182 (342)
T ss_pred             ceeCCCCHHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHHHHHHHcC
Confidence            458999999999765  6678888999999999999999999875421     113567775444  4555666655432


Q ss_pred             --hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHh
Q psy210          735 --ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       735 --~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A  790 (915)
                        ....+++ +.++...+  ..+....   ...+++.+.+ ++=-||++||++-+-+.
T Consensus       183 ~~~~~~l~~-i~~~~~~~--~e~~~~l---l~~~~~~~~~-~~~~LIVIDSI~alfr~  233 (342)
T PLN03186        183 LNGADVLEN-VAYARAYN--TDHQSEL---LLEAASMMAE-TRFALMIVDSATALYRT  233 (342)
T ss_pred             CChhhhccc-eEEEecCC--HHHHHHH---HHHHHHHhhc-cCCCEEEEeCcHHHHHH
Confidence              1234555 33333322  2222221   1223334433 34457889999987543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.67  E-value=0.025  Score=63.50  Aligned_cols=119  Identities=21%  Similarity=0.227  Sum_probs=68.4

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhc--C---CcEEEEEEecC--CCchHHHHHHHhh
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE--H---KGCSVFIGVGE--RSREGNDFYHEMK  734 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~--~---~~~~v~~~iGe--r~~ev~e~~~~~~  734 (915)
                      ..+.||++.+|-++.  +-+|.=+.|.|++|+|||+|+.+++.+....  .   ..-++|+-.-+  +++.+.+..+.+.
T Consensus        76 ~~~~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl~~ia~~~~  155 (316)
T TIGR02239        76 IQLTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYG  155 (316)
T ss_pred             ceeCCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHHHHHHHHcC
Confidence            358899999999765  5678999999999999999999999865321  1   12456653332  2333444433321


Q ss_pred             --hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          735 --ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       735 --~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                        ...++++ +.++...+  +.+....   --.+.+.+.+ ++=-||++||++-+-+
T Consensus       156 ~~~~~~l~~-i~~~~~~~--~~~~~~~---l~~~~~~~~~-~~~~LvVIDSI~al~r  205 (316)
T TIGR02239       156 LNPEDVLDN-VAYARAYN--TDHQLQL---LQQAAAMMSE-SRFALLIVDSATALYR  205 (316)
T ss_pred             CChHHhhcc-EEEEecCC--hHHHHHH---HHHHHHhhcc-CCccEEEEECcHHHhh
Confidence              1223444 23333222  2222211   1222333433 3445789999997643

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).

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.50  E-value=0.04  Score=61.94  Aligned_cols=118  Identities=19%  Similarity=0.234  Sum_probs=67.9

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHh-hc-----CCCeEEEEEeecc--chhhHHHHHHHHh
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIIN-QK-----NKNVICIYVCIGQ--KISSLINVINKLK  308 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~-~~-----~~~~~~V~~~iGe--r~~ev~~~~~~l~  308 (915)
                      ..+.||+..+|.++.  +-+|.=+.|.|++|+|||+++++...+ +.     ..+..|+|.-..+  +.+.+.+..+.+.
T Consensus        76 ~~~~tg~~~lD~ll~gGi~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl~~ia~~~~  155 (316)
T TIGR02239        76 IQLTTGSKELDKLLGGGIETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERLLAIAERYG  155 (316)
T ss_pred             ceeCCCCHHHHHHhcCCCCCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHHHHHHHHcC
Confidence            458899999999776  335899999999999999998777654 21     1223577876665  3443444443321


Q ss_pred             c--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHH
Q psy210          309 Y--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       309 ~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~  363 (915)
                      -  ..++++-.+....  + +.++....   -.+.+.+.+.+. -|||+||++.+-+
T Consensus       156 ~~~~~~l~~i~~~~~~--~-~~~~~~~l---~~~~~~~~~~~~-~LvVIDSI~al~r  205 (316)
T TIGR02239       156 LNPEDVLDNVAYARAY--N-TDHQLQLL---QQAAAMMSESRF-ALLIVDSATALYR  205 (316)
T ss_pred             CChHHhhccEEEEecC--C-hHHHHHHH---HHHHHhhccCCc-cEEEEECcHHHhh
Confidence            1  1223332222221  1 11221111   122334444444 4899999998843

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).

>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=95.50  E-value=0.016  Score=63.37  Aligned_cols=96  Identities=13%  Similarity=0.196  Sum_probs=55.5

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHH-hcCCcEEEEEEecCCCchHHHHHHHhhhc-CccccEEEEEEcCCCChHhHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIA-IEHKGCSVFIGVGERSREGNDFYHEMKES-NVLDKVSLIYGQMNEPSGNRL  757 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~-~~~~~~~v~~~iGer~~ev~e~~~~~~~~-~~~~~~~vv~~t~d~~~~~r~  757 (915)
                      ...+.++|.|.+|+|||+|+.++++... .++-+.++++-.+..... .++.+.+.+. +.-....    ..... ..  
T Consensus        17 ~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~-~~~~~~i~~~l~~~~~~~----~~~~~-~~--   88 (287)
T PF00931_consen   17 NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSL-EQLLEQILRQLGEPDSSI----SDPKD-IE--   88 (287)
T ss_dssp             TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCC-HHHHHHHHHHHTCC-STS----SCCSS-HH--
T ss_pred             CCeEEEEEEcCCcCCcceeeeeccccccccccccccccccccccccc-cccccccccccccccccc----ccccc-cc--
Confidence            4567789999999999999999998733 233477888877766655 3444444321 1000000    01111 11  


Q ss_pred             HHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          758 RVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       758 ~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                         ...-.+.+.+.  +++.|+|+||+....
T Consensus        89 ---~~~~~l~~~L~--~~~~LlVlDdv~~~~  114 (287)
T PF00931_consen   89 ---ELQDQLRELLK--DKRCLLVLDDVWDEE  114 (287)
T ss_dssp             ---HHHHHHHHHHC--CTSEEEEEEEE-SHH
T ss_pred             ---cccccchhhhc--cccceeeeeeecccc
Confidence               12334445555  459999999987533

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.

>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=95.45  E-value=0.027  Score=59.81  Aligned_cols=24  Identities=21%  Similarity=0.421  Sum_probs=20.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -+.++||||+|||||+.-|++.+.
T Consensus        52 h~lf~GPPG~GKTTLA~IIA~e~~   75 (233)
T PF05496_consen   52 HMLFYGPPGLGKTTLARIIANELG   75 (233)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHCT
T ss_pred             eEEEECCCccchhHHHHHHHhccC
Confidence            368999999999999988887653

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=95.41  E-value=0.045  Score=56.26  Aligned_cols=54  Identities=20%  Similarity=0.167  Sum_probs=35.1

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcC--------CcEEEEEEecCCCc-hHHHHHHHh
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEH--------KGCSVFIGVGERSR-EGNDFYHEM  733 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~--------~~~~v~~~iGer~~-ev~e~~~~~  733 (915)
                      .+|+-..|.|++|+|||+++.+++..+....        ....|+..-.|-.. ++.+-+..+
T Consensus        30 ~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~   92 (193)
T PF13481_consen   30 PRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRAL   92 (193)
T ss_dssp             -TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHH
T ss_pred             cCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHH
Confidence            3799999999999999999999999877521        22344444444443 565555444

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=95.31  E-value=0.036  Score=62.90  Aligned_cols=76  Identities=24%  Similarity=0.287  Sum_probs=52.3

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG  763 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a  763 (915)
                      -+-+.||||||||||+.-|+.....   .+.-+-++   ..-+.|                               ..-+
T Consensus        50 SmIl~GPPG~GKTTlA~liA~~~~~---~f~~~sAv---~~gvkd-------------------------------lr~i   92 (436)
T COG2256          50 SMILWGPPGTGKTTLARLIAGTTNA---AFEALSAV---TSGVKD-------------------------------LREI   92 (436)
T ss_pred             eeEEECCCCCCHHHHHHHHHHhhCC---ceEEeccc---cccHHH-------------------------------HHHH
Confidence            4567999999999999888875432   11111111   111111                               1226


Q ss_pred             HHHHHHHHHCCCcEEEEecchhhHHHhhhhhhh
Q psy210          764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA  796 (915)
Q Consensus       764 ~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~  796 (915)
                      ++.|+.++..|+.+++++|.+-||-.++.+.=+
T Consensus        93 ~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lL  125 (436)
T COG2256          93 IEEARKNRLLGRRTILFLDEIHRFNKAQQDALL  125 (436)
T ss_pred             HHHHHHHHhcCCceEEEEehhhhcChhhhhhhh
Confidence            677888888899999999999999999988654

>KOG2028|consensus

Probab=95.28  E-value=0.047  Score=60.99  Aligned_cols=76  Identities=22%  Similarity=0.382  Sum_probs=49.6

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC---CCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE---RSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL  761 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe---r~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~  761 (915)
                      +-+.||||||||+|+.-|+.+.+. +.  .-|+-+-.   ...+++++++.-++                          
T Consensus       165 mIlWGppG~GKTtlArlia~tsk~-~S--yrfvelSAt~a~t~dvR~ife~aq~--------------------------  215 (554)
T KOG2028|consen  165 MILWGPPGTGKTTLARLIASTSKK-HS--YRFVELSATNAKTNDVRDIFEQAQN--------------------------  215 (554)
T ss_pred             eEEecCCCCchHHHHHHHHhhcCC-Cc--eEEEEEeccccchHHHHHHHHHHHH--------------------------
Confidence            456899999999999988876543 22  33443332   33344443333221                          


Q ss_pred             HHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhh
Q psy210          762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA  796 (915)
Q Consensus       762 ~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~  796 (915)
                             +...-++..++++|.+.||-.+|..+-+
T Consensus       216 -------~~~l~krkTilFiDEiHRFNksQQD~fL  243 (554)
T KOG2028|consen  216 -------EKSLTKRKTILFIDEIHRFNKSQQDTFL  243 (554)
T ss_pred             -------HHhhhcceeEEEeHHhhhhhhhhhhccc
Confidence                   2334478899999999999999987654

>PRK05973 replicative DNA helicase; Provisional

Probab=95.25  E-value=0.088  Score=56.69  Aligned_cols=51  Identities=22%  Similarity=0.182  Sum_probs=40.4

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY  730 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~  730 (915)
                      +-+|+=+.|.|+||+|||+++.+++.+..++ ..-++|...-|..+++.+=.
T Consensus        61 l~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~-Ge~vlyfSlEes~~~i~~R~  111 (237)
T PRK05973         61 LKPGDLVLLGARPGHGKTLLGLELAVEAMKS-GRTGVFFTLEYTEQDVRDRL  111 (237)
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHHHHHhc-CCeEEEEEEeCCHHHHHHHH
Confidence            7789999999999999999999999987654 34567777777666655433

>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=95.20  E-value=0.083  Score=50.24  Aligned_cols=110  Identities=24%  Similarity=0.293  Sum_probs=59.6

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEE-EEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVF-IGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG  763 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~-~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a  763 (915)
                      ++|.|++|+|||+++..+++.+.     ..++ +-+++-..+                          ....-.......
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~-----~~~~~i~~~~~~~~--------------------------~~~~~~~~i~~~   49 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG-----FPFIEIDGSELISS--------------------------YAGDSEQKIRDF   49 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT-----SEEEEEETTHHHTS--------------------------STTHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc-----cccccccccccccc--------------------------cccccccccccc
Confidence            57899999999999999998763     2232 222211100                          000000111111


Q ss_pred             HHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEe
Q psy210          764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYV  838 (915)
Q Consensus       764 ~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~  838 (915)
                      +.   .....++..++++|++-.+....         .+....+...+...+..++++.-. ..+.++.+.|...
T Consensus        50 ~~---~~~~~~~~~vl~iDe~d~l~~~~---------~~~~~~~~~~~~~~L~~~l~~~~~-~~~~~~vI~ttn~  111 (132)
T PF00004_consen   50 FK---KAKKSAKPCVLFIDEIDKLFPKS---------QPSSSSFEQRLLNQLLSLLDNPSS-KNSRVIVIATTNS  111 (132)
T ss_dssp             HH---HHHHTSTSEEEEEETGGGTSHHC---------STSSSHHHHHHHHHHHHHHHTTTT-TSSSEEEEEEESS
T ss_pred             cc---cccccccceeeeeccchhccccc---------ccccccccccccceeeeccccccc-ccccceeEEeeCC
Confidence            11   11222357999999999766655         233344455556666666665432 2355777777543

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 ....

>PF13173 AAA_14: AAA domain

Probab=95.19  E-value=0.049  Score=52.60  Aligned_cols=26  Identities=35%  Similarity=0.432  Sum_probs=21.9

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ++-+.|.|++|+|||||+.++++...
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~   27 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL   27 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc
Confidence            34578999999999999999987653

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=94.90  E-value=0.028  Score=53.70  Aligned_cols=90  Identities=22%  Similarity=0.285  Sum_probs=50.4

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecCCCchHHHHHHHhhhc-CccccEEEEEEcCCCChHhH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGERSREGNDFYHEMKES-NVLDKVSLIYGQMNEPSGNR  756 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGer~~ev~e~~~~~~~~-~~~~~~~vv~~t~d~~~~~r  756 (915)
                      +=+.|.|++|+|||+++..+++.....     +.+ ++++-+.... ....|.+.+.+. +.-...             +
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~i~~~l~~~~~~-------------~   69 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPD-VIYVNCPSSR-TPRDFAQEILEALGLPLKS-------------R   69 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEE-EEEEEHHHHS-SHHHHHHHHHHHHT-SSSS-------------T
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCc-EEEEEeCCCC-CHHHHHHHHHHHhCccccc-------------c
Confidence            346789999999999999999976531     222 3455555544 455666665432 111000             1


Q ss_pred             HHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          757 LRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       757 ~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      .......-.+.+++...+. ++|++|+.-++.
T Consensus        70 ~~~~~l~~~~~~~l~~~~~-~~lviDe~~~l~  100 (131)
T PF13401_consen   70 QTSDELRSLLIDALDRRRV-VLLVIDEADHLF  100 (131)
T ss_dssp             S-HHHHHHHHHHHHHHCTE-EEEEEETTHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCC-eEEEEeChHhcC
Confidence            1122222344455555444 899999998754

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.88  E-value=0.055  Score=59.52  Aligned_cols=113  Identities=19%  Similarity=0.242  Sum_probs=71.7

Q ss_pred             Cccccccceeeecccccc--ccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEE-eec-cchhhHHHHHHHHhccCCc
Q psy210          238 NEPLLTGIKSIDSMIPIG--KGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYV-CIG-QKISSLINVINKLKYYNCM  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~pig--rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~-~iG-er~~ev~~~~~~l~~~~~~  313 (915)
                      .+.+.||..++|-++-=|  +|.-.=|||++++|||++|++.+++-...+-.|+|. .-| -+.+....+-..+     +
T Consensus        39 ~~~i~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~p~r~~~l~~~~-----~  113 (279)
T COG0468          39 IEAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQLGVDL-----L  113 (279)
T ss_pred             cccccccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCCCCCHHHHHHHHHhh-----h
Confidence            678899999999998833  377778999999999999999999854444345444 222 3444444443332     1


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCC--cEEEEeccchhHHHHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQ--DCLIIYDDLTKHAWAY  365 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~--~Vlv~~Ddltr~a~A~  365 (915)
                      +  -++++..++ ..       -++.+++.+...+.  ==|||+||++-+-++.
T Consensus       114 d--~l~v~~~~~-~e-------~q~~i~~~~~~~~~~~i~LvVVDSvaa~~r~~  157 (279)
T COG0468         114 D--NLLVSQPDT-GE-------QQLEIAEKLARSGAEKIDLLVVDSVAALVRAE  157 (279)
T ss_pred             c--ceeEecCCC-HH-------HHHHHHHHHHHhccCCCCEEEEecCcccchhh
Confidence            1  122222222 22       34566666665433  3489999999877653

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.84  E-value=0.032  Score=60.79  Aligned_cols=123  Identities=20%  Similarity=0.260  Sum_probs=71.4

Q ss_pred             ccccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecC--CCchHHHHHHH
Q psy210          662 NNNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGE--RSREGNDFYHE  732 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGe--r~~ev~e~~~~  732 (915)
                      ....+.||++.+|.++  -|-.|+=.=|+|+||+|||.|+.+++.++...     ...-+||+-.--  +.+-..++.+.
T Consensus        16 ~~~~i~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~~   95 (256)
T PF08423_consen   16 RWSRISTGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAER   95 (256)
T ss_dssp             TS-EE--SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHHH
T ss_pred             cCCeeCCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhhc
Confidence            3456899999999997  36678888899999999999999999876421     123466662111  22333333332


Q ss_pred             h--hhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhh
Q psy210          733 M--KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAG  791 (915)
Q Consensus       733 ~--~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~  791 (915)
                      +  ..+.+++|-.+ ....+-  .+.....   ......+.+ .+==||++||++.+-+..
T Consensus        96 ~~~~~~~~l~~I~v-~~~~~~--~~l~~~L---~~l~~~l~~-~~ikLIVIDSIaalfr~e  149 (256)
T PF08423_consen   96 FGLDPEEILDNIFV-IRVFDL--EELLELL---EQLPKLLSE-SKIKLIVIDSIAALFRSE  149 (256)
T ss_dssp             TTS-HHHHHHTEEE-EE-SSH--HHHHHHH---HHHHHHHHH-SCEEEEEEETSSHHHHHH
T ss_pred             cccccchhhhceee-eecCCH--HHHHHHH---HHHHhhccc-cceEEEEecchHHHHHHH
Confidence            2  22345666443 333332  2222221   123344544 455689999999886654

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 ....

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=94.81  E-value=0.084  Score=53.92  Aligned_cols=87  Identities=15%  Similarity=0.161  Sum_probs=55.8

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccc-hhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhh
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQK-ISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGC  338 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer-~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~  338 (915)
                      ++|.|++|+|||++|.+.+.. ...  .++|..-.+. ..|+.+-++..++..-.                ++.+.....
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-~~~--~~~y~at~~~~d~em~~rI~~H~~~R~~----------------~w~t~E~~~   62 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-LGG--PVTYIATAEAFDDEMAERIARHRKRRPA----------------HWRTIETPR   62 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-cCC--CeEEEEccCcCCHHHHHHHHHHHHhCCC----------------CceEeecHH
Confidence            579999999999998776554 222  3556666654 55667766665543311                122223345


Q ss_pred             hhHHHHHhc-CCcEEEEeccchhHHHHHH
Q psy210          339 TIGEYFRDL-GQDCLIIYDDLTKHAWAYR  366 (915)
Q Consensus       339 tiAEy~r~~-g~~Vlv~~Ddltr~a~A~r  366 (915)
                      .+.+.+.+. +.+ +|++|++|.|.....
T Consensus        63 ~l~~~l~~~~~~~-~VLIDclt~~~~n~l   90 (169)
T cd00544          63 DLVSALKELDPGD-VVLIDCLTLWVTNLL   90 (169)
T ss_pred             HHHHHHHhcCCCC-EEEEEcHhHHHHHhC
Confidence            566666653 444 799999999997764

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.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=94.68  E-value=0.4  Score=53.97  Aligned_cols=41  Identities=22%  Similarity=0.152  Sum_probs=30.7

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      .+|+.++++|++|+||||++..++....... .-+.++.++-
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g-~~V~Li~~D~  152 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKAQG-KKVLLAAGDT  152 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcC-CeEEEEecCc
Confidence            4688999999999999999999999876432 2233344553

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=94.66  E-value=0.13  Score=59.33  Aligned_cols=98  Identities=13%  Similarity=0.154  Sum_probs=55.6

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCc-EEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG-CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLR  758 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~  758 (915)
                      ++++.+.|.|++|+|||+++..+++......++ ..+++-|-+... ...++..+.+. +....   ......+.     
T Consensus        53 ~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~-~~~~~~~i~~~-l~~~~---~~~~~~~~-----  122 (394)
T PRK00411         53 SRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRT-RYAIFSEIARQ-LFGHP---PPSSGLSF-----  122 (394)
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCC-HHHHHHHHHHH-hcCCC---CCCCCCCH-----
Confidence            345679999999999999999999877543323 356665544332 23444443221 00000   00000111     


Q ss_pred             HHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          759 VALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       759 ~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                       -...-.+.+++...++.++|++|.+-.+.
T Consensus       123 -~~~~~~~~~~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411        123 -DELFDKIAEYLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             -HHHHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence             11122234566666888999999998765

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.63  E-value=0.078  Score=54.49  Aligned_cols=67  Identities=24%  Similarity=0.376  Sum_probs=41.2

Q ss_pred             cccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcC----------CCeEEEEEeeccchhhHHHHHHHHh
Q psy210          242 LTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKN----------KNVICIYVCIGQKISSLINVINKLK  308 (915)
Q Consensus       242 ~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~----------~~~~~V~~~iGer~~ev~~~~~~l~  308 (915)
                      .|++...|.+++  +.+|+-..|.|++|+|||+++++++.....          ....++|.-.....+++.+-+..+.
T Consensus        15 ~~~~~~~~~li~g~~~~g~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~~~~~~~rl~~~~   93 (193)
T PF13481_consen   15 DTGFPPLDWLIDGLLPRGELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDSESQIARRLRALL   93 (193)
T ss_dssp             HS------EEETTEE-TTSEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-HHHHHHHHHHHH
T ss_pred             cCCCCCcceeECCcccCCeEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCCHHHHHHHHHHHh
Confidence            344444444443  236899999999999999999888776532          3456778888888777777666544

>PRK05973 replicative DNA helicase; Provisional

Probab=94.51  E-value=0.16  Score=54.82  Aligned_cols=96  Identities=13%  Similarity=0.107  Sum_probs=59.8

Q ss_pred             cccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCc----ceEEEEEecCCCCHH
Q psy210          253 PIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCM----DYTVVVAATAADSAA  328 (915)
Q Consensus       253 pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~----~~tvvv~~~a~~~~~  328 (915)
                      -+-+|+=+.|.|.+|+|||+++++.+.+....+-.++|....+..+++.+   ++...|.-    .+. ......+.-..
T Consensus        60 Gl~~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfSlEes~~~i~~---R~~s~g~d~~~~~~~-~~~d~~d~~~~  135 (237)
T PRK05973         60 QLKPGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFTLEYTEQDVRD---RLRALGADRAQFADL-FEFDTSDAICA  135 (237)
T ss_pred             CCCCCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEEEeCCHHHHHH---HHHHcCCChHHhccc-eEeecCCCCCH
Confidence            45679999999999999999999988876544556789988888765554   44443441    111 22222222111


Q ss_pred             HhhhhhhhhhhhHHHHH-hcCCcEEEEeccchhHH
Q psy210          329 EQYISPYTGCTIGEYFR-DLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       329 ~r~~~~~~a~tiAEy~r-~~g~~Vlv~~Ddltr~a  362 (915)
                               -.+.+.+. +.+.+ +||+|+|+-+.
T Consensus       136 ---------~~ii~~l~~~~~~~-lVVIDsLq~l~  160 (237)
T PRK05973        136 ---------DYIIARLASAPRGT-LVVIDYLQLLD  160 (237)
T ss_pred             ---------HHHHHHHHHhhCCC-EEEEEcHHHHh
Confidence                     11233443 33444 89999998764

>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=94.51  E-value=0.32  Score=49.24  Aligned_cols=47  Identities=19%  Similarity=0.176  Sum_probs=33.5

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHE  732 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~  732 (915)
                      +++.|++|+|||+++..++....+. ..-++++-++-+..+..+.+..
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~-g~~v~~i~~D~~~~~~~~~l~~   49 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKK-GKKVLLVAADTYRPAAIEQLRV   49 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC-CCcEEEEEcCCCChHHHHHHHH
Confidence            5789999999999999999877654 2334556677665555554444

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.

>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=94.50  E-value=0.083  Score=56.16  Aligned_cols=70  Identities=23%  Similarity=0.238  Sum_probs=39.9

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhh
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCT  339 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~t  339 (915)
                      +.+.||+|+||||| ...|++..+.+++..-+-.=++..+.                                       
T Consensus        53 ~lf~GPPG~GKTTL-A~IIA~e~~~~~~~~sg~~i~k~~dl---------------------------------------   92 (233)
T PF05496_consen   53 MLFYGPPGLGKTTL-ARIIANELGVNFKITSGPAIEKAGDL---------------------------------------   92 (233)
T ss_dssp             EEEESSTTSSHHHH-HHHHHHHCT--EEEEECCC--SCHHH---------------------------------------
T ss_pred             EEEECCCccchhHH-HHHHHhccCCCeEeccchhhhhHHHH---------------------------------------
Confidence            67999999999999 47788887777643222111222222                                       


Q ss_pred             hHHHHHhcCCcEEEEeccchhHHHHHHHHHh
Q psy210          340 IGEYFRDLGQDCLIIYDDLTKHAWAYRQISL  370 (915)
Q Consensus       340 iAEy~r~~g~~Vlv~~Ddltr~a~A~reis~  370 (915)
                       |..+...+.+-++++|.+-|+-.++.|+=+
T Consensus        93 -~~il~~l~~~~ILFIDEIHRlnk~~qe~Ll  122 (233)
T PF05496_consen   93 -AAILTNLKEGDILFIDEIHRLNKAQQEILL  122 (233)
T ss_dssp             -HHHHHT--TT-EEEECTCCC--HHHHHHHH
T ss_pred             -HHHHHhcCCCcEEEEechhhccHHHHHHHH
Confidence             222222234457778999999999988643

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.

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=94.41  E-value=0.23  Score=50.74  Aligned_cols=88  Identities=18%  Similarity=0.183  Sum_probs=55.4

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCC-CchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGER-SREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG  763 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer-~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a  763 (915)
                      +.|.|++|+|||+++.+++...    ..-++|+...+. ..|+.+-++..++..-.+                +......
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~~----~~~~~y~at~~~~d~em~~rI~~H~~~R~~~----------------w~t~E~~   61 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAEL----GGPVTYIATAEAFDDEMAERIARHRKRRPAH----------------WRTIETP   61 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHhc----CCCeEEEEccCcCCHHHHHHHHHHHHhCCCC----------------ceEeecH
Confidence            5789999999999999998651    233566654443 456666666544332111                1111224


Q ss_pred             HHHHHHHHHC-CCcEEEEecchhhHHHhhhh
Q psy210          764 LSIAEEFRNS-GKDVLLFIDNIYRFTLAGTE  793 (915)
Q Consensus       764 ~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~re  793 (915)
                      ..+.+.+.+. +.+ ++++|++|-|......
T Consensus        62 ~~l~~~l~~~~~~~-~VLIDclt~~~~n~l~   91 (169)
T cd00544          62 RDLVSALKELDPGD-VVLIDCLTLWVTNLLF   91 (169)
T ss_pred             HHHHHHHHhcCCCC-EEEEEcHhHHHHHhCC
Confidence            4566666554 445 6889999999887763

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.

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=94.38  E-value=0.087  Score=56.29  Aligned_cols=50  Identities=18%  Similarity=0.201  Sum_probs=39.5

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGND  728 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e  728 (915)
                      +-+|+=+.|.|+||+|||+++.+++.+...++..-++|...-+.++++..
T Consensus        10 l~~G~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~~~~~~~~   59 (242)
T cd00984          10 LQPGDLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEMSKEQLLQ   59 (242)
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCCCHHHHHH
Confidence            67899999999999999999999999887653445566666666665544

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=94.34  E-value=0.39  Score=54.44  Aligned_cols=95  Identities=20%  Similarity=0.148  Sum_probs=51.2

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh-cCccccEEEEEEcCCCChHhHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE-SNVLDKVSLIYGQMNEPSGNRLR  758 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~-~~~~~~~~vv~~t~d~~~~~r~~  758 (915)
                      +++..++++|++|+||||++..++.....+. --++++.++--.....+.++...+ .++   -++-..+..+| .    
T Consensus       138 ~~~~vi~~~G~~GvGKTTtiakLA~~l~~~g-~~V~li~~Dt~R~~a~eqL~~~a~~lgv---~v~~~~~g~dp-~----  208 (336)
T PRK14974        138 GKPVVIVFVGVNGTGKTTTIAKLAYYLKKNG-FSVVIAAGDTFRAGAIEQLEEHAERLGV---KVIKHKYGADP-A----  208 (336)
T ss_pred             CCCeEEEEEcCCCCCHHHHHHHHHHHHHHcC-CeEEEecCCcCcHHHHHHHHHHHHHcCC---ceecccCCCCH-H----
Confidence            3467899999999999999999998776432 223345555333334344443322 221   11111111122 1    


Q ss_pred             HHHHHHHHHHHHHHCCCcEEEEecchhh
Q psy210          759 VALTGLSIAEEFRNSGKDVLLFIDNIYR  786 (915)
Q Consensus       759 ~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr  786 (915)
                        ..+....++....|+| +|++|.--|
T Consensus       209 --~v~~~ai~~~~~~~~D-vVLIDTaGr  233 (336)
T PRK14974        209 --AVAYDAIEHAKARGID-VVLIDTAGR  233 (336)
T ss_pred             --HHHHHHHHHHHhCCCC-EEEEECCCc
Confidence              1123333455567899 666676544

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.25  E-value=0.57  Score=51.56  Aligned_cols=47  Identities=23%  Similarity=0.236  Sum_probs=32.1

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEec-CCCchHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVG-ERSREGN  727 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iG-er~~ev~  727 (915)
                      .+++.+.++|++|+||||++..++........ -+.++-++ .|.....
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~-~V~li~~D~~r~~a~~  117 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQGK-SVLLAAGDTFRAAAIE  117 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCC-EEEEEeCCCCCHHHHH
Confidence            34677889999999999999999988765422 23344455 3443333

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.21  E-value=0.087  Score=57.42  Aligned_cols=120  Identities=18%  Similarity=0.231  Sum_probs=70.6

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhh------cCCCeEEEEEeecc--chhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQ------KNKNVICIYVCIGQ--KISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~------~~~~~~~V~~~iGe--r~~ev~~~~~~l  307 (915)
                      ...|-||++.+|.++-  +-.|+=.=|+|++|+|||.|+++..++.      ...+..+||.=..-  +.+...++.+++
T Consensus        17 ~~~i~Tg~~~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~~i~~~~   96 (256)
T PF08423_consen   17 WSRISTGCKSLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQQIAERF   96 (256)
T ss_dssp             S-EE--SSHHHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHHHHHHHT
T ss_pred             CCeeCCCCHHHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHHHHhhcc
Confidence            3568999999999984  4458888899999999999999886652      12456677875443  333444444432


Q ss_pred             h--ccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          308 K--YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       308 ~--~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      .  ...++++..+.-..  + ..+......   .+...+.+.. ==|||+||++.+-+.
T Consensus        97 ~~~~~~~l~~I~v~~~~--~-~~~l~~~L~---~l~~~l~~~~-ikLIVIDSIaalfr~  148 (256)
T PF08423_consen   97 GLDPEEILDNIFVIRVF--D-LEELLELLE---QLPKLLSESK-IKLIVIDSIAALFRS  148 (256)
T ss_dssp             TS-HHHHHHTEEEEE-S--S-HHHHHHHHH---HHHHHHHHSC-EEEEEEETSSHHHHH
T ss_pred             ccccchhhhceeeeecC--C-HHHHHHHHH---HHHhhccccc-eEEEEecchHHHHHH
Confidence            1  12346665544322  1 122221111   2334455444 459999999998664

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 ....

>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=94.15  E-value=0.021  Score=49.15  Aligned_cols=37  Identities=32%  Similarity=0.377  Sum_probs=32.9

Q ss_pred             cchhhhhhhccccceeeeccccCccCcccCCeEEeCC
Q psy210          576 NISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTG  612 (915)
Q Consensus       576 v~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg  612 (915)
                      .+...+.+.+|+++.+++++|+++.||++|++|++||
T Consensus        33 ~~~~~~~Vv~~~~~~v~~~~~~~t~Gl~~G~~V~~tG   69 (69)
T PF02874_consen   33 GNGVLGEVVGLDEDEVRLQVFGSTDGLSRGTEVRFTG   69 (69)
T ss_dssp             TTEEEEEEEEEETTEEEEEESSSGTTSBTTCEEEEEE
T ss_pred             eeeeeeeecccCccEEEEEEecCCCCCCCCCEEEcCc
Confidence            3455677789999999999999999999999999986

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 ....

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.14  E-value=0.033  Score=59.43  Aligned_cols=30  Identities=23%  Similarity=0.326  Sum_probs=26.6

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.|.+|+..||+|++|+|||||+..++--.
T Consensus        28 ~~i~~Ge~lgivGeSGsGKSTL~r~l~Gl~   57 (252)
T COG1124          28 LEIERGETLGIVGESGSGKSTLARLLAGLE   57 (252)
T ss_pred             EEecCCCEEEEEcCCCCCHHHHHHHHhccc
Confidence            579999999999999999999998877543

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=94.14  E-value=0.18  Score=48.16  Aligned_cols=89  Identities=17%  Similarity=0.120  Sum_probs=49.0

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhhcCC------CeEEEEEeeccchhhHHHHHHHHhc-cCCcceEEEEEecCCCCHHH
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQKNK------NVICIYVCIGQKISSLINVINKLKY-YNCMDYTVVVAATAADSAAE  329 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~~~~------~~~~V~~~iGer~~ev~~~~~~l~~-~~~~~~tvvv~~~a~~~~~~  329 (915)
                      ++-+.|.|++|+|||++ +..+.++...      +..++|.-+.... ....|.+.+.+ -+.....             
T Consensus         4 ~~~~~i~G~~G~GKT~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~~~l~~~~~~-------------   68 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTL-IKRLARQLNAEAEIKNHPDVIYVNCPSSR-TPRDFAQEILEALGLPLKS-------------   68 (131)
T ss_dssp             ---EEEEE-TTSSHHHH-HHHHHHHHHHHHHHCCCEEEEEEEHHHHS-SHHHHHHHHHHHHT-SSSS-------------
T ss_pred             CcccEEEcCCCCCHHHH-HHHHHHHhHHhhhccCCCcEEEEEeCCCC-CHHHHHHHHHHHhCccccc-------------
Confidence            34567899999999999 5666654321      5556777777766 55556655433 1211111             


Q ss_pred             hhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          330 QYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       330 r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      +.......-.+.+++.+.+. ++||+|+.-.+
T Consensus        69 ~~~~~~l~~~~~~~l~~~~~-~~lviDe~~~l   99 (131)
T PF13401_consen   69 RQTSDELRSLLIDALDRRRV-VLLVIDEADHL   99 (131)
T ss_dssp             TS-HHHHHHHHHHHHHHCTE-EEEEEETTHHH
T ss_pred             cCCHHHHHHHHHHHHHhcCC-eEEEEeChHhc
Confidence            00111111334445554444 89999999887

>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=94.14  E-value=0.028  Score=58.75  Aligned_cols=102  Identities=20%  Similarity=0.199  Sum_probs=53.3

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCc--hHHHHHH----------HhhhcCccccEEEEEE
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR--EGNDFYH----------EMKESNVLDKVSLIYG  747 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~--ev~e~~~----------~~~~~~~~~~~~vv~~  747 (915)
                      +.++-+.|+|++|+|||+|+..++...... ...++|...-+...  .+..++.          .+.. ..-+.+..-++
T Consensus        18 ~~~~~~~l~G~rg~GKTsLl~~~~~~~~~~-~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~   95 (234)
T PF01637_consen   18 GPSQHILLYGPRGSGKTSLLKEFINELKEK-GYKVVYIDFLEESNESSLRSFIEETSLADELSEALGI-SIPSITLEKIS   95 (234)
T ss_dssp             --SSEEEEEESTTSSHHHHHHHHHHHCT---EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHH-HCCTSTTEEEE
T ss_pred             hcCcEEEEEcCCcCCHHHHHHHHHHHhhhc-CCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhh-hcccccchhhh
Confidence            356899999999999999999998876322 12344543322222  2223311          0100 00000000011


Q ss_pred             cCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          748 QMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       748 t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      .     .........-..+.+++...+++++|++|++..+.
T Consensus        96 ~-----~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~  131 (234)
T PF01637_consen   96 K-----DLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLA  131 (234)
T ss_dssp             C-----TS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGG
T ss_pred             h-----cchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHh
Confidence            1     11112223345556778788888999999999866

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PF13173 AAA_14: AAA domain

Probab=94.08  E-value=0.15  Score=49.26  Aligned_cols=83  Identities=19%  Similarity=0.232  Sum_probs=48.3

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhh
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTG  337 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a  337 (915)
                      +-+.|.|++||||||++.+.+.... ..-.++|.-                              .+++...+...+.  
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~------------------------------~~~~~~~~~~~~~--   49 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN------------------------------FDDPRDRRLADPD--   49 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec------------------------------cCCHHHHHHhhhh--
Confidence            4568999999999999544443332 111122322                              2232232222111  


Q ss_pred             hhhHHHHHhc--CCcEEEEeccchhHHHHHHHHHhhcCCC
Q psy210          338 CTIGEYFRDL--GQDCLIIYDDLTKHAWAYRQISLLLRRP  375 (915)
Q Consensus       338 ~tiAEy~r~~--g~~Vlv~~Ddltr~a~A~reis~~~~~~  375 (915)
                        +.+++++.  ....+|++|++.+..+....+-......
T Consensus        50 --~~~~~~~~~~~~~~~i~iDEiq~~~~~~~~lk~l~d~~   87 (128)
T PF13173_consen   50 --LLEYFLELIKPGKKYIFIDEIQYLPDWEDALKFLVDNG   87 (128)
T ss_pred             --hHHHHHHhhccCCcEEEEehhhhhccHHHHHHHHHHhc
Confidence              55666643  4567899999999887777766666643

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=94.08  E-value=0.034  Score=59.67  Aligned_cols=35  Identities=20%  Similarity=0.416  Sum_probs=28.5

Q ss_pred             ceeee-cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          670 IKVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       670 ir~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      ..+++ .=+.+.+|+-+.|+|+||||||||+..|+-
T Consensus        16 ~~vl~~i~L~v~~GEfvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          16 VEVLEDINLSVEKGEFVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             eEEeccceeEECCCCEEEEECCCCCCHHHHHHHHhC
Confidence            34443 346899999999999999999999987764

>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=93.96  E-value=0.29  Score=52.08  Aligned_cols=36  Identities=25%  Similarity=0.440  Sum_probs=28.8

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEE
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFI  717 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~  717 (915)
                      .+-+-|+|++|+|||+|++.+++.+.+.+++. ++|.
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~   70 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYL   70 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEE
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceee
Confidence            34688999999999999999999877655554 5565

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.

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=93.95  E-value=0.085  Score=58.09  Aligned_cols=114  Identities=24%  Similarity=0.314  Sum_probs=73.6

Q ss_pred             ccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE-Eec-CCCchHHHHHHHhhhcC
Q psy210          662 NNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI-GVG-ERSREGNDFYHEMKESN  737 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~-~iG-er~~ev~e~~~~~~~~~  737 (915)
                      ..+.+.||...+|-++-  +-+|.=.=|||++|+|||+|+.+++.+..+. .+.++|+ .-| -+++....+-.+.    
T Consensus        38 ~~~~i~TGs~~LD~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~-g~~a~fIDtE~~l~p~r~~~l~~~~----  112 (279)
T COG0468          38 DIEAISTGSLALDEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKP-GGKAAFIDTEHALDPERAKQLGVDL----  112 (279)
T ss_pred             ccccccccchhHHHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcC-CCeEEEEeCCCCCCHHHHHHHHHhh----
Confidence            36679999999998876  2366777899999999999999999987753 3466776 344 3334443333332    


Q ss_pred             ccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCC--cEEEEecchhhHHHhh
Q psy210          738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGK--DVLLFIDNIYRFTLAG  791 (915)
Q Consensus       738 ~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~--~Vl~~~Ds~tr~a~A~  791 (915)
                       +++  ++++..+..        .-++.+++.+...+.  ==|+++||++-+-++.
T Consensus       113 -~d~--l~v~~~~~~--------e~q~~i~~~~~~~~~~~i~LvVVDSvaa~~r~~  157 (279)
T COG0468         113 -LDN--LLVSQPDTG--------EQQLEIAEKLARSGAEKIDLLVVDSVAALVRAE  157 (279)
T ss_pred             -hcc--eeEecCCCH--------HHHHHHHHHHHHhccCCCCEEEEecCcccchhh
Confidence             222  334444332        234555555555444  5578889999765554

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=93.90  E-value=0.16  Score=57.82  Aligned_cols=75  Identities=20%  Similarity=0.243  Sum_probs=50.5

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhh
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTG  337 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a  337 (915)
                      --+.+.||+|||||||| ..|+...+.++.-    +                          .++.+.-.-.|     ..
T Consensus        49 ~SmIl~GPPG~GKTTlA-~liA~~~~~~f~~----~--------------------------sAv~~gvkdlr-----~i   92 (436)
T COG2256          49 HSMILWGPPGTGKTTLA-RLIAGTTNAAFEA----L--------------------------SAVTSGVKDLR-----EI   92 (436)
T ss_pred             ceeEEECCCCCCHHHHH-HHHHHhhCCceEE----e--------------------------ccccccHHHHH-----HH
Confidence            34568999999999994 6677666666521    1                          11112212222     34


Q ss_pred             hhhHHHHHhcCCcEEEEeccchhHHHHHHHH
Q psy210          338 CTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI  368 (915)
Q Consensus       338 ~tiAEy~r~~g~~Vlv~~Ddltr~a~A~rei  368 (915)
                      +.-|+.++..|+.+++++|.+-||-.++.+.
T Consensus        93 ~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~  123 (436)
T COG2256          93 IEEARKNRLLGRRTILFLDEIHRFNKAQQDA  123 (436)
T ss_pred             HHHHHHHHhcCCceEEEEehhhhcChhhhhh
Confidence            5556667767999999999999999888663

>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=93.86  E-value=0.19  Score=54.21  Aligned_cols=41  Identities=22%  Similarity=0.320  Sum_probs=29.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREG  726 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev  726 (915)
                      |+.|+|++|+|||+|+..+..+.....  -+||....+...+.
T Consensus        15 r~viIG~sGSGKT~li~~lL~~~~~~f--~~I~l~t~~~n~~~   55 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYYLRHKF--DHIFLITPEYNNEY   55 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHhhcccC--CEEEEEecCCchhh
Confidence            789999999999999999998765432  24444444444433

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=93.76  E-value=0.22  Score=56.65  Aligned_cols=100  Identities=12%  Similarity=0.202  Sum_probs=53.6

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCc-----EEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG-----CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSG  754 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-----~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~  754 (915)
                      ++++-+.|.|++|+|||+++..+++.+.....+     ..+++-|-+- ..-.+++..+.+.  +.++-.-+.....+. 
T Consensus        38 ~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~-~~~~~~~~~i~~~--l~~~~~~~~~~~~~~-  113 (365)
T TIGR02928        38 SRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQIL-DTLYQVLVELANQ--LRGSGEEVPTTGLST-  113 (365)
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCC-CCHHHHHHHHHHH--HhhcCCCCCCCCCCH-
Confidence            345779999999999999999998866432221     2455544332 2223344443321  100000000011111 


Q ss_pred             hHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          755 NRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       755 ~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      .+     .--.+-+++...++.++|++|.+-.+.
T Consensus       114 ~~-----~~~~l~~~l~~~~~~~vlvIDE~d~L~  142 (365)
T TIGR02928       114 SE-----VFRRLYKELNERGDSLIIVLDEIDYLV  142 (365)
T ss_pred             HH-----HHHHHHHHHHhcCCeEEEEECchhhhc
Confidence            11     112233455556889999999998875

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.

>PRK08181 transposase; Validated

Probab=93.72  E-value=0.14  Score=56.35  Aligned_cols=47  Identities=21%  Similarity=0.291  Sum_probs=34.3

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhh
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK  734 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~  734 (915)
                      -+++.+.++|++|+|||+|+..+++....+ .--++|.       .+.++++.+.
T Consensus       104 ~~~~nlll~Gp~GtGKTHLa~Aia~~a~~~-g~~v~f~-------~~~~L~~~l~  150 (269)
T PRK08181        104 AKGANLLLFGPPGGGKSHLAAAIGLALIEN-GWRVLFT-------RTTDLVQKLQ  150 (269)
T ss_pred             hcCceEEEEecCCCcHHHHHHHHHHHHHHc-CCceeee-------eHHHHHHHHH
Confidence            368889999999999999999999876543 2224555       3456666664

>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=93.71  E-value=0.29  Score=46.43  Aligned_cols=38  Identities=26%  Similarity=0.366  Sum_probs=25.1

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhhc-CCCeEEEEEeecc
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQK-NKNVICIYVCIGQ  295 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~~-~~~~~~V~~~iGe  295 (915)
                      +.-+.|.|++|+|||++ +..++++. ..+..+++.-+.+
T Consensus        19 ~~~v~i~G~~G~GKT~l-~~~i~~~~~~~~~~v~~~~~~~   57 (151)
T cd00009          19 PKNLLLYGPPGTGKTTL-ARAIANELFRPGAPFLYLNASD   57 (151)
T ss_pred             CCeEEEECCCCCCHHHH-HHHHHHHhhcCCCCeEEEehhh
Confidence            56789999999999999 56666543 2233344554433

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.

>PRK09183 transposase/IS protein; Provisional

Probab=93.70  E-value=0.19  Score=54.94  Aligned_cols=29  Identities=31%  Similarity=0.359  Sum_probs=25.6

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+|+.+.|+||+|+|||+|+..++....
T Consensus        99 i~~~~~v~l~Gp~GtGKThLa~al~~~a~  127 (259)
T PRK09183         99 IERNENIVLLGPSGVGKTHLAIALGYEAV  127 (259)
T ss_pred             hhcCCeEEEEeCCCCCHHHHHHHHHHHHH
Confidence            66799999999999999999999977543

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=93.64  E-value=0.76  Score=48.12  Aligned_cols=90  Identities=22%  Similarity=0.351  Sum_probs=48.4

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG  763 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a  763 (915)
                      -+.++||+|+||||.+.-++.....++..+.++. ++--.-...|-++.+-+  .+ +.-++.....+.|.+-      +
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis-~D~~R~ga~eQL~~~a~--~l-~vp~~~~~~~~~~~~~------~   72 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS-ADTYRIGAVEQLKTYAE--IL-GVPFYVARTESDPAEI------A   72 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE-ESTSSTHHHHHHHHHHH--HH-TEEEEESSTTSCHHHH------H
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhccccceeec-CCCCCccHHHHHHHHHH--Hh-ccccchhhcchhhHHH------H
Confidence            3678999999999999999998776533444444 45333333333443322  12 2222333323222221      2


Q ss_pred             HHHHHHHHHCCCcEEEEecch
Q psy210          764 LSIAEEFRNSGKDVLLFIDNI  784 (915)
Q Consensus       764 ~~~Ae~f~~~g~~Vl~~~Ds~  784 (915)
                      ...-+++++++.|+++| |..
T Consensus        73 ~~~l~~~~~~~~D~vlI-DT~   92 (196)
T PF00448_consen   73 REALEKFRKKGYDLVLI-DTA   92 (196)
T ss_dssp             HHHHHHHHHTTSSEEEE-EE-
T ss_pred             HHHHHHHhhcCCCEEEE-ecC
Confidence            22235667778887766 644

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR00959 ffh signal recognition particle protein

Probab=93.53  E-value=0.8  Score=53.62  Aligned_cols=94  Identities=14%  Similarity=0.097  Sum_probs=53.4

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG  763 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a  763 (915)
                      -+.++|++|+||||++..+|.........-+.++.++-+...+.+-++.+.+.--.  .+. .......|.+      ++
T Consensus       101 vi~~vG~~GsGKTTtaakLA~~l~~~~g~kV~lV~~D~~R~~a~~QL~~~a~~~gv--p~~-~~~~~~~P~~------i~  171 (428)
T TIGR00959       101 VILMVGLQGSGKTTTCGKLAYYLKKKQGKKVLLVACDLYRPAAIEQLKVLGQQVGV--PVF-ALGKGQSPVE------IA  171 (428)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHhCCCeEEEEeccccchHHHHHHHHHHHhcCC--ceE-ecCCCCCHHH------HH
Confidence            46789999999999999999986422223456667887665555544444321111  122 2222233321      12


Q ss_pred             HHHHHHHHHCCCcEEEEecchhhH
Q psy210          764 LSIAEEFRNSGKDVLLFIDNIYRF  787 (915)
Q Consensus       764 ~~~Ae~f~~~g~~Vl~~~Ds~tr~  787 (915)
                      -..-+++...++|++ ++|.--|.
T Consensus       172 ~~al~~~~~~~~DvV-IIDTaGr~  194 (428)
T TIGR00959       172 RRALEYAKENGFDVV-IVDTAGRL  194 (428)
T ss_pred             HHHHHHHHhcCCCEE-EEeCCCcc
Confidence            233345666788765 45766654

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>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=93.47  E-value=0.058  Score=55.50  Aligned_cols=37  Identities=27%  Similarity=0.346  Sum_probs=30.8

Q ss_pred             eeeecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          671 KVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       671 r~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .+++..+.+.+|+.++|.|++|+|||||+..|+....
T Consensus        14 ~~l~~~~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~   50 (177)
T cd03222          14 FLLVELGVVKEGEVIGIVGPNGTGKTTAVKILAGQLI   50 (177)
T ss_pred             EEEccCcEECCCCEEEEECCCCChHHHHHHHHHcCCC
Confidence            4455557899999999999999999999998886543

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.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=93.38  E-value=0.18  Score=54.86  Aligned_cols=47  Identities=26%  Similarity=0.405  Sum_probs=37.7

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE  735 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~  735 (915)
                      +|--+.+.|++|+|||+|+..|++.+.+ ..--+.|+       .+.|++.++++
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~-~g~sv~f~-------~~~el~~~Lk~  150 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLK-AGISVLFI-------TAPDLLSKLKA  150 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHH-cCCeEEEE-------EHHHHHHHHHH
Confidence            8889999999999999999999998873 22335666       66778877765

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=93.33  E-value=0.056  Score=54.70  Aligned_cols=30  Identities=23%  Similarity=0.285  Sum_probs=26.5

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|.++.|.||+|+|||||+.+++.-+
T Consensus        24 l~v~~Ge~iaitGPSG~GKStllk~va~Li   53 (223)
T COG4619          24 LSVRAGEFIAITGPSGCGKSTLLKIVASLI   53 (223)
T ss_pred             eeecCCceEEEeCCCCccHHHHHHHHHhcc
Confidence            467799999999999999999999988643

>PRK10867 signal recognition particle protein; Provisional

Probab=93.19  E-value=0.9  Score=53.29  Aligned_cols=95  Identities=18%  Similarity=0.184  Sum_probs=53.4

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALT  762 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~  762 (915)
                      .-+.++|++|+||||++..+|.+.......-+.++.++-+.....+-++.+.+.-   ..-++.......|.      ..
T Consensus       101 ~vI~~vG~~GsGKTTtaakLA~~l~~~~G~kV~lV~~D~~R~aa~eQL~~~a~~~---gv~v~~~~~~~dp~------~i  171 (433)
T PRK10867        101 TVIMMVGLQGAGKTTTAGKLAKYLKKKKKKKVLLVAADVYRPAAIEQLKTLGEQI---GVPVFPSGDGQDPV------DI  171 (433)
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHhcCCcEEEEEccccchHHHHHHHHHHhhc---CCeEEecCCCCCHH------HH
Confidence            3577899999999999999999876541223455667765555555454443321   11123322222221      11


Q ss_pred             HHHHHHHHHHCCCcEEEEecchhhH
Q psy210          763 GLSIAEEFRNSGKDVLLFIDNIYRF  787 (915)
Q Consensus       763 a~~~Ae~f~~~g~~Vl~~~Ds~tr~  787 (915)
                      +-..-++++..++|++|+ |.--|.
T Consensus       172 ~~~a~~~a~~~~~DvVII-DTaGrl  195 (433)
T PRK10867        172 AKAALEEAKENGYDVVIV-DTAGRL  195 (433)
T ss_pred             HHHHHHHHHhcCCCEEEE-eCCCCc
Confidence            222234566667777655 766554

>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=93.12  E-value=0.048  Score=57.01  Aligned_cols=101  Identities=24%  Similarity=0.275  Sum_probs=52.1

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhc-CCCeEEEEEeeccch--hhHHHHHH----------HHhccCCcceEEEEEe
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQK-NKNVICIYVCIGQKI--SSLINVIN----------KLKYYNCMDYTVVVAA  321 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~-~~~~~~V~~~iGer~--~ev~~~~~----------~l~~~~~~~~tvvv~~  321 (915)
                      +.++.+.|.|++|+|||+| +..+.+.. ..+..++|....+..  +.+..++.          .+.. ...+.+..-..
T Consensus        18 ~~~~~~~l~G~rg~GKTsL-l~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~~~~~~   95 (234)
T PF01637_consen   18 GPSQHILLYGPRGSGKTSL-LKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADELSEALGI-SIPSITLEKIS   95 (234)
T ss_dssp             --SSEEEEEESTTSSHHHH-HHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHH-HCCTSTTEEEE
T ss_pred             hcCcEEEEEcCCcCCHHHH-HHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhh-hcccccchhhh
Confidence            3468899999999999999 66666653 444334555443322  22333311          1110 00000110111


Q ss_pred             cCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          322 TAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       322 ~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      .     .........-..+.+++...+++++||+|++..+.
T Consensus        96 ~-----~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~  131 (234)
T PF01637_consen   96 K-----DLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLA  131 (234)
T ss_dssp             C-----TS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGG
T ss_pred             h-----cchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHh
Confidence            1     01111222345566777777888999999999877

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>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=93.07  E-value=0.18  Score=55.04  Aligned_cols=91  Identities=19%  Similarity=0.294  Sum_probs=50.9

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHh---hcCCCeEEEEEeeccchhhH---HHHHHHHhccCCcceEEEEEecCCCCHHH
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIIN---QKNKNVICIYVCIGQKISSL---INVINKLKYYNCMDYTVVVAATAADSAAE  329 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~---~~~~~~~~V~~~iGer~~ev---~~~~~~l~~~~~~~~tvvv~~~a~~~~~~  329 (915)
                      ..+.++|.|..|+|||+||.+..-+   +..-+. ++|+-++......   ..+.+.|.....   ..     .+.....
T Consensus        18 ~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~-v~wv~~~~~~~~~~~~~~i~~~l~~~~~---~~-----~~~~~~~   88 (287)
T PF00931_consen   18 EVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDG-VIWVSLSKNPSLEQLLEQILRQLGEPDS---SI-----SDPKDIE   88 (287)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTE-EEEEEEES-SCCHHHHHHHHHHHTCC-S---TS-----SCCSSHH
T ss_pred             CeEEEEEEcCCcCCcceeeeeccccccccccccc-cccccccccccccccccccccccccccc---cc-----ccccccc
Confidence            3567889999999999998665544   233454 5677777765542   223333332210   00     1111111


Q ss_pred             hhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          330 QYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       330 r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      .     ..-.+.+.++  +++.|+|+||+....
T Consensus        89 ~-----~~~~l~~~L~--~~~~LlVlDdv~~~~  114 (287)
T PF00931_consen   89 E-----LQDQLRELLK--DKRCLLVLDDVWDEE  114 (287)
T ss_dssp             H-----HHHHHHHHHC--CTSEEEEEEEE-SHH
T ss_pred             c-----ccccchhhhc--cccceeeeeeecccc
Confidence            1     2334455555  449999999987666

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.

>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=93.05  E-value=0.064  Score=50.59  Aligned_cols=28  Identities=32%  Similarity=0.414  Sum_probs=24.9

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELI  703 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~  703 (915)
                      .+.+..|+.++|+|++|+|||||+..+.
T Consensus         9 sl~i~~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820           9 LVDVYGKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEcCCEEEEEEcCCCCCHHHHHHHhh
Confidence            3467889999999999999999998876

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

>PRK12377 putative replication protein; Provisional

Probab=93.03  E-value=0.28  Score=53.29  Aligned_cols=26  Identities=15%  Similarity=0.164  Sum_probs=23.0

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +-+.|.|++|||||+|+..|++.+..
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l~~  127 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRLLA  127 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            56789999999999999999998764

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.01  E-value=0.45  Score=54.62  Aligned_cols=42  Identities=31%  Similarity=0.491  Sum_probs=31.2

Q ss_pred             ccccceeeecc-cccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          666 LETGIKVIDLL-CPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       666 l~TGir~ID~l-~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +...+.+++.. ..+.+|+-++++||+|+||||++..++....
T Consensus       120 l~~~l~~~~~~~~~~~~g~ii~lvGptGvGKTTtiakLA~~~~  162 (374)
T PRK14722        120 LAANLPVLDSEDALMERGGVFALMGPTGVGKTTTTAKLAARCV  162 (374)
T ss_pred             HHhcchhhcCCCccccCCcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            33334444443 2356799999999999999999999998654

>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=92.96  E-value=0.8  Score=44.37  Aligned_cols=22  Identities=32%  Similarity=0.443  Sum_probs=18.8

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.|+||+||||++..+++..
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~~   23 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKRL   23 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999888653

...

>TIGR00750 lao LAO/AO transport system ATPase

Probab=92.95  E-value=0.47  Score=52.94  Aligned_cols=32  Identities=19%  Similarity=0.249  Sum_probs=28.3

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      ..+++..++|.|++|+|||||+..++......
T Consensus        30 ~~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        30 YTGNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            56789999999999999999999999876653

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=92.92  E-value=0.62  Score=53.09  Aligned_cols=111  Identities=14%  Similarity=0.138  Sum_probs=62.4

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCC----
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNE----  751 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~----  751 (915)
                      |+....||..+|=|-||||||++..++...++.++ + +.|+.-=--..-+.+.+  +..++.++++-++=++-|.    
T Consensus         4 FF~~~~G~TLLIKG~PGTGKTtfaLelL~~l~~~~-~-v~YISTRVd~d~vy~~y--~~~~~~i~~~~vlDatQd~~~~~   79 (484)
T PF07088_consen    4 FFTQEPGQTLLIKGEPGTGKTTFALELLNSLKDHG-N-VMYISTRVDQDTVYEMY--PWIEESIDPTNVLDATQDPFELP   79 (484)
T ss_pred             hhcCCCCcEEEEecCCCCCceeeehhhHHHHhccC-C-eEEEEeccCHHHHHHhh--hhhccccChhhhhhhccchhhcc
Confidence            56678899999999999999999999998776433 2 24543222233444333  3334455555555333331    


Q ss_pred             ----ChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhh
Q psy210          752 ----PSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAG  791 (915)
Q Consensus       752 ----~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~  791 (915)
                          -|.++ ..+......-+.+-..+++.++++||---..+.+
T Consensus        80 ~~~~vp~~~-l~~ds~~~f~~~i~~~~k~~iI~~DSWdaiieyl  122 (484)
T PF07088_consen   80 LDKDVPFER-LDIDSFRDFVDKINEAGKKPIIAFDSWDAIIEYL  122 (484)
T ss_pred             ccccCcccc-cCHHHHHHHHHHhhhcccCcEEEEecHHHHHHHh
Confidence                11111 1111122222222224999999999955444433

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>PRK13342 recombination factor protein RarA; Reviewed

Probab=92.88  E-value=0.28  Score=57.24  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=21.5

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ..-+.|.|++|||||+|+..+++..
T Consensus        36 ~~~ilL~GppGtGKTtLA~~ia~~~   60 (413)
T PRK13342         36 LSSMILWGPPGTGKTTLARIIAGAT   60 (413)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHh
Confidence            3468899999999999999998764

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=92.88  E-value=0.12  Score=52.71  Aligned_cols=89  Identities=17%  Similarity=0.214  Sum_probs=49.2

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-cccEEEEEEcCCCChHhHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-LDKVSLIYGQMNEPSGNRLRVALT  762 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-~~~~~vv~~t~d~~~~~r~~~~~~  762 (915)
                      +++|.|++|+|||+++..++....    .-++|+.-+.-.++  |+.+.+..+-. ....   ..|-..|          
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~----~~~~~iat~~~~~~--e~~~ri~~h~~~R~~~---w~t~E~~----------   63 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSG----LQVLYIATAQPFDD--EMAARIAHHRQRRPAH---WQTVEEP----------   63 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcC----CCcEeCcCCCCChH--HHHHHHHHHHhcCCCC---CeEeccc----------
Confidence            689999999999999999886532    12467666664433  23222211100 0111   1111222          


Q ss_pred             HHHHHHHHHH-CCCcEEEEecchhhHHHhhh
Q psy210          763 GLSIAEEFRN-SGKDVLLFIDNIYRFTLAGT  792 (915)
Q Consensus       763 a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~r  792 (915)
                       ..+++.+.+ ....=++++|++|-|....-
T Consensus        64 -~~l~~~i~~~~~~~~~VlID~Lt~~~~n~l   93 (170)
T PRK05800         64 -LDLAELLRADAAPGRCVLVDCLTTWVTNLL   93 (170)
T ss_pred             -ccHHHHHHhhcCCCCEEEehhHHHHHHHHh
Confidence             234444544 22122789999999977543

>TIGR00665 DnaB replicative DNA helicase

Probab=92.85  E-value=0.28  Score=57.52  Aligned_cols=63  Identities=14%  Similarity=0.250  Sum_probs=49.2

Q ss_pred             ccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhc-CCCeEEEEEeeccchhhHH
Q psy210          239 EPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQK-NKNVICIYVCIGQKISSLI  301 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~-~~~~~~V~~~iGer~~ev~  301 (915)
                      .-+.||+..+|.++- +-+|+=+.|-|.+|+|||+++++.+.+.. ..+-.+.|....+..+++.
T Consensus       176 ~gi~tG~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~~~i~  240 (434)
T TIGR00665       176 TGVPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQLA  240 (434)
T ss_pred             CcccCCchhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCHHHHH
Confidence            458899999999874 55699999999999999999988877643 2344456777887776654

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.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=92.85  E-value=0.4  Score=55.07  Aligned_cols=97  Identities=18%  Similarity=0.285  Sum_probs=64.1

Q ss_pred             ccccccCCe---eeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEEEecCCCc---hHHHHHHHhhhcCccccEEEEEEc
Q psy210          676 LCPFLKGGK---IGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFIGVGERSR---EGNDFYHEMKESNVLDKVSLIYGQ  748 (915)
Q Consensus       676 l~pigkGQr---~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~~iGer~~---ev~e~~~~~~~~~~~~~~~vv~~t  748 (915)
                      |.|.-+|.+   +.|.|++|||||+++..+++.+....+.. ++|+-|=+-..   -..++++.+.              
T Consensus        33 l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~--------------   98 (366)
T COG1474          33 LAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLG--------------   98 (366)
T ss_pred             HHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC--------------
Confidence            555555544   78999999999999999999876544455 68885443332   2233333331              


Q ss_pred             CCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          749 MNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       749 ~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                        +.|.........=-.+-+++..+++.+++++|.+-.+.
T Consensus        99 --~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~  136 (366)
T COG1474          99 --KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALV  136 (366)
T ss_pred             --CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhc
Confidence              44444444555555566788888999999999877543

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=92.84  E-value=0.18  Score=51.53  Aligned_cols=89  Identities=15%  Similarity=0.183  Sum_probs=49.0

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGC  338 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~  338 (915)
                      .++|.|++|+|||++|... +...+.  .++|..-++..++  ++.++...+... |            +.++.+.....
T Consensus         3 ~ili~G~~~sGKS~~a~~l-~~~~~~--~~~~iat~~~~~~--e~~~ri~~h~~~-R------------~~~w~t~E~~~   64 (170)
T PRK05800          3 LILVTGGARSGKSRFAERL-AAQSGL--QVLYIATAQPFDD--EMAARIAHHRQR-R------------PAHWQTVEEPL   64 (170)
T ss_pred             EEEEECCCCccHHHHHHHH-HHHcCC--CcEeCcCCCCChH--HHHHHHHHHHhc-C------------CCCCeEecccc
Confidence            5789999999999997554 333222  2568777765443  332332211100 0            01122222233


Q ss_pred             hhHHHHHh-cCCcEEEEeccchhHHHHH
Q psy210          339 TIGEYFRD-LGQDCLIIYDDLTKHAWAY  365 (915)
Q Consensus       339 tiAEy~r~-~g~~Vlv~~Ddltr~a~A~  365 (915)
                      .+++.+.+ ....=+|++|++|.|....
T Consensus        65 ~l~~~i~~~~~~~~~VlID~Lt~~~~n~   92 (170)
T PRK05800         65 DLAELLRADAAPGRCVLVDCLTTWVTNL   92 (170)
T ss_pred             cHHHHHHhhcCCCCEEEehhHHHHHHHH
Confidence            46666654 2222279999999998654

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=92.83  E-value=0.6  Score=50.13  Aligned_cols=43  Identities=23%  Similarity=0.247  Sum_probs=30.4

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhc----------CCcEEEEEEecCCCc
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIE----------HKGCSVFIGVGERSR  724 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~----------~~~~~v~~~iGer~~  724 (915)
                      |.=..|+|++|+|||+|+.+++.+++..          ...-.|+.+.+|-+.
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~   53 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPR   53 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCH
Confidence            4556899999999999999999876531          122345555577654

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.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.83  E-value=0.095  Score=55.83  Aligned_cols=66  Identities=12%  Similarity=0.136  Sum_probs=44.6

Q ss_pred             ccceeee-cccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE--EecCCCchHHHHHHHh
Q psy210          668 TGIKVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI--GVGERSREGNDFYHEM  733 (915)
Q Consensus       668 TGir~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~--~iGer~~ev~e~~~~~  733 (915)
                      -|.++++ .-+.|-+|+.+.|+|++|+|||||+..+..-+......+.+-.  ..+-++.|.+.+..++
T Consensus        15 ~~~~aL~~Vnl~I~~GE~VaiIG~SGaGKSTLLR~lngl~d~t~G~i~~~g~~i~~~~~k~lr~~r~~i   83 (258)
T COG3638          15 GGHQALKDVNLEINQGEMVAIIGPSGAGKSTLLRSLNGLVDPTSGEILFNGVQITKLKGKELRKLRRDI   83 (258)
T ss_pred             CCceeeeeEeEEeCCCcEEEEECCCCCcHHHHHHHHhcccCCCcceEEecccchhccchHHHHHHHHhc
Confidence            3444443 3357889999999999999999999998874332222222222  3677777888777654

>PF05729 NACHT: NACHT domain

Probab=92.80  E-value=0.36  Score=47.65  Aligned_cols=88  Identities=15%  Similarity=0.146  Sum_probs=46.9

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh-c---CCC---eEEEEEeeccchhhHH--HHHHHHhccCCcceEEEEEecCCCCHHH
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ-K---NKN---VICIYVCIGQKISSLI--NVINKLKYYNCMDYTVVVAATAADSAAE  329 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~-~---~~~---~~~V~~~iGer~~ev~--~~~~~l~~~~~~~~tvvv~~~a~~~~~~  329 (915)
                      -+.|.|++|+|||++ +..++.+ .   ..+   ..++|...+.......  .+.+.+...-         .... ....
T Consensus         2 ~l~I~G~~G~GKStl-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~---------~~~~-~~~~   70 (166)
T PF05729_consen    2 VLWISGEPGSGKSTL-LRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQL---------PESI-APIE   70 (166)
T ss_pred             EEEEECCCCCChHHH-HHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhh---------ccch-hhhH
Confidence            367899999999999 5565543 1   111   2345555555444322  1222221100         0000 0000


Q ss_pred             hhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHH
Q psy210          330 QYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYR  366 (915)
Q Consensus       330 r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~r  366 (915)
                      .         ....+.++..++++|+|.+.....-..
T Consensus        71 ~---------~~~~~~~~~~~~llilDglDE~~~~~~   98 (166)
T PF05729_consen   71 E---------LLQELLEKNKRVLLILDGLDELEEQDQ   98 (166)
T ss_pred             H---------HHHHHHHcCCceEEEEechHhcccchh
Confidence            0         333445678899999999987776443

>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=92.74  E-value=0.1  Score=56.75  Aligned_cols=55  Identities=25%  Similarity=0.271  Sum_probs=41.4

Q ss_pred             ccccceeeeccc-ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          666 LETGIKVIDLLC-PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       666 l~TGir~ID~l~-pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      +.||++.+|-++ -+.+|+=..|-|.||+|||+++.+++.+...++. .+|....-|
T Consensus         2 i~TG~~~LD~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~-~~vly~SlE   57 (259)
T PF03796_consen    2 IPTGFPALDRLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNGG-YPVLYFSLE   57 (259)
T ss_dssp             B-SSTHHHHHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTS-SEEEEEESS
T ss_pred             CCCChHHHHHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhcC-CeEEEEcCC
Confidence            579999999886 5778888999999999999999999999887543 444444444

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 ....

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=92.71  E-value=0.35  Score=56.15  Aligned_cols=41  Identities=15%  Similarity=0.201  Sum_probs=28.3

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      ++..++++|++|+||||++..++..........+.++.++.
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt  262 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDN  262 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccc
Confidence            46679999999999999999999754322222333444554

>PF07088 GvpD: GvpD gas vesicle protein; InterPro: IPR009788 This family consists of several archaeal GvpD gas vesicle proteins

Probab=92.65  E-value=0.58  Score=53.32  Aligned_cols=109  Identities=21%  Similarity=0.269  Sum_probs=61.2

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHH
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAE  329 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~  329 (915)
                      .|+.-..||.++|=|.+|||||+++++.+-.-+..+- +.|..-=--...+.+..  ....+.++++-++-++.+  +.+
T Consensus         3 ~FF~~~~G~TLLIKG~PGTGKTtfaLelL~~l~~~~~-v~YISTRVd~d~vy~~y--~~~~~~i~~~~vlDatQd--~~~   77 (484)
T PF07088_consen    3 RFFTQEPGQTLLIKGEPGTGKTTFALELLNSLKDHGN-VMYISTRVDQDTVYEMY--PWIEESIDPTNVLDATQD--PFE   77 (484)
T ss_pred             hhhcCCCCcEEEEecCCCCCceeeehhhHHHHhccCC-eEEEEeccCHHHHHHhh--hhhccccChhhhhhhccc--hhh
Confidence            3566778999999999999999999888776654332 23443322333333322  444555665555543333  121


Q ss_pred             h---hhhhh--h-hhhhHHHHH---hcCCcEEEEeccchhHHH
Q psy210          330 Q---YISPY--T-GCTIGEYFR---DLGQDCLIIYDDLTKHAW  363 (915)
Q Consensus       330 r---~~~~~--~-a~tiAEy~r---~~g~~Vlv~~Ddltr~a~  363 (915)
                      .   ...|+  + --++-+++-   ..+++.++++||---..+
T Consensus        78 ~~~~~~vp~~~l~~ds~~~f~~~i~~~~k~~iI~~DSWdaiie  120 (484)
T PF07088_consen   78 LPLDKDVPFERLDIDSFRDFVDKINEAGKKPIIAFDSWDAIIE  120 (484)
T ss_pred             ccccccCcccccCHHHHHHHHHHhhhcccCcEEEEecHHHHHH
Confidence            1   11222  0 112223333   258999999999444333

GvpD is thought to be involved in the regulation of gas vesicle formation [,].; GO: 0005524 ATP binding

>PRK05541 adenylylsulfate kinase; Provisional

Probab=92.64  E-value=0.71  Score=46.94  Aligned_cols=31  Identities=29%  Similarity=0.229  Sum_probs=27.1

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +.-+|.-+.|.|.+|+||||++..+++....
T Consensus         3 ~~~~~~~I~i~G~~GsGKst~a~~l~~~l~~   33 (176)
T PRK05541          3 MKPNGYVIWITGLAGSGKTTIAKALYERLKL   33 (176)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4567889999999999999999999988754

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=92.62  E-value=1  Score=47.45  Aligned_cols=35  Identities=11%  Similarity=-0.074  Sum_probs=28.9

Q ss_pred             eeeecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          671 KVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       671 r~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      -.-|.-+....|...+|.|++|+|||+++..++..
T Consensus        18 v~~~~~~~~~~~~~~~l~G~n~~GKstll~~i~~~   52 (204)
T cd03282          18 IPNDIYLTRGSSRFHIITGPNMSGKSTYLKQIALL   52 (204)
T ss_pred             EEeeeEEeeCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            34555666778899999999999999999988753

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

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=92.61  E-value=0.078  Score=56.28  Aligned_cols=31  Identities=26%  Similarity=0.365  Sum_probs=27.6

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+||.++|+|++|+|||||+..|+...
T Consensus        23 sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          23 NFSIKPGETVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            3578999999999999999999999988654

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.

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=92.50  E-value=0.34  Score=48.86  Aligned_cols=90  Identities=22%  Similarity=0.207  Sum_probs=58.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA  760 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~  760 (915)
                      ||--+-|.|-+|+|||||+..+.+.+...  ...++.+=|.   +++.   .+-.            .-.-+...|..-.
T Consensus         1 ~g~vIwltGlsGsGKtTlA~~L~~~L~~~--g~~~~~LDgD---~lR~---~l~~------------dl~fs~~dR~e~~   60 (156)
T PF01583_consen    1 KGFVIWLTGLSGSGKTTLARALERRLFAR--GIKVYLLDGD---NLRH---GLNA------------DLGFSKEDREENI   60 (156)
T ss_dssp             S-EEEEEESSTTSSHHHHHHHHHHHHHHT--TS-EEEEEHH---HHCT---TTTT------------T--SSHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEecCc---chhh---ccCC------------CCCCCHHHHHHHH
Confidence            45567899999999999999999988653  4566766553   2221   1100            0123456777777


Q ss_pred             HHHHHHHHHHHHCCCcEEEEecchhhHHHh
Q psy210          761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       761 ~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A  790 (915)
                      ...-.+|.-|.++|..|++=+-|.++=.+.
T Consensus        61 rr~~~~A~ll~~~G~ivIva~isp~~~~R~   90 (156)
T PF01583_consen   61 RRIAEVAKLLADQGIIVIVAFISPYREDRE   90 (156)
T ss_dssp             HHHHHHHHHHHHTTSEEEEE----SHHHHH
T ss_pred             HHHHHHHHHHHhCCCeEEEeeccCchHHHH
Confidence            788899999999999999888888764433

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=92.49  E-value=0.081  Score=59.97  Aligned_cols=36  Identities=25%  Similarity=0.393  Sum_probs=31.3

Q ss_pred             cceeee-cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          669 GIKVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       669 Gir~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +..++| .=+.|-+|.-+.+.|||||||||||.+||-
T Consensus        17 ~~~av~~isl~i~~Gef~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          17 DFTAVDDISLDIKKGEFVTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             CeeEEecceeeecCCcEEEEECCCCCCHHHHHHHHhC
Confidence            456665 667899999999999999999999999885

>TIGR00665 DnaB replicative DNA helicase

Probab=92.47  E-value=0.13  Score=60.23  Aligned_cols=62  Identities=21%  Similarity=0.217  Sum_probs=47.2

Q ss_pred             cccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchH
Q psy210          665 ILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREG  726 (915)
Q Consensus       665 ~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev  726 (915)
                      -+.||+..+|-++- +-+|+=+.|-|+||+|||+++.+++.+.+..+..-++|...-+..+++
T Consensus       177 gi~tG~~~LD~~~~G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~SlEm~~~~i  239 (434)
T TIGR00665       177 GVPTGFTDLDKLTSGLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFSLEMSAEQL  239 (434)
T ss_pred             cccCCchhhHhhcCCCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEeCcCCHHHH
Confidence            47899999998863 778999999999999999999999998765433334455454444444

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.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=92.45  E-value=0.086  Score=54.38  Aligned_cols=30  Identities=23%  Similarity=0.427  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        13 l~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        13 FAAERGEVLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999887643

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.

>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=92.45  E-value=0.11  Score=55.23  Aligned_cols=31  Identities=29%  Similarity=0.277  Sum_probs=27.7

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        20 sl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          20 SLDIPKGEITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3578899999999999999999999888655

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).

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=92.34  E-value=0.28  Score=56.13  Aligned_cols=105  Identities=16%  Similarity=0.206  Sum_probs=67.9

Q ss_pred             cccccceeeeccccc--cccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEE
Q psy210          240 PLLTGIKSIDSMIPI--GKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTV  317 (915)
Q Consensus       240 ~l~TGi~aiD~l~pi--grGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tv  317 (915)
                      .+.||+.-.|+.+==  ++|+=++|=|++|.|||||.||..++.+... .|.|+.=.|....++-   +...-++....+
T Consensus        74 Ri~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsGEES~~Qikl---RA~RL~~~~~~l  149 (456)
T COG1066          74 RISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGEESLQQIKL---RADRLGLPTNNL  149 (456)
T ss_pred             cccCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeCCcCHHHHHH---HHHHhCCCccce
Confidence            467999999988754  6799999999999999999888888776555 6788865554433333   333334433344


Q ss_pred             EEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          318 VVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       318 vv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      .+.+..+.....+            .+ ++-+--++|+||+.-.
T Consensus       150 ~l~aEt~~e~I~~------------~l-~~~~p~lvVIDSIQT~  180 (456)
T COG1066         150 YLLAETNLEDIIA------------EL-EQEKPDLVVIDSIQTL  180 (456)
T ss_pred             EEehhcCHHHHHH------------HH-HhcCCCEEEEecccee
Confidence            4443333222222            22 3345568899998643

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=92.31  E-value=0.86  Score=49.64  Aligned_cols=30  Identities=20%  Similarity=0.058  Sum_probs=24.8

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +...+..+.+.||||||||+++..+++...
T Consensus        38 ~~~~~~~vll~GppGtGKTtlA~~ia~~l~   67 (261)
T TIGR02881        38 TSKQVLHMIFKGNPGTGKTTVARILGKLFK   67 (261)
T ss_pred             CCCCcceEEEEcCCCCCHHHHHHHHHHHHH
Confidence            345567789999999999999999988653

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.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=92.30  E-value=0.69  Score=49.41  Aligned_cols=37  Identities=14%  Similarity=-0.072  Sum_probs=31.4

Q ss_pred             ceeeecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          670 IKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       670 ir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ....|.-+.+.+|++.+|.|+.+.|||+++..++.+.
T Consensus        19 ~v~n~i~~~~~~g~~~~itG~N~~GKStll~~i~~~~   55 (222)
T cd03287          19 FVPNDIHLSAEGGYCQIITGPNMGGKSSYIRQVALIT   55 (222)
T ss_pred             EEEEeEEEEecCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            3456666778899999999999999999999998844

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

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=92.27  E-value=0.28  Score=56.14  Aligned_cols=54  Identities=24%  Similarity=0.453  Sum_probs=41.2

Q ss_pred             cccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          665 ILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       665 ~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      .+.||+.=.|-.+  =+++|+=++|=|+||.||||||.+++.+++++.  -++|+ .||
T Consensus        74 Ri~tg~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~--~vLYV-sGE  129 (456)
T COG1066          74 RISTGIEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG--KVLYV-SGE  129 (456)
T ss_pred             cccCChHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC--cEEEE-eCC
Confidence            3667765555443  268999999999999999999999999988653  45666 454

>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=92.27  E-value=0.099  Score=53.45  Aligned_cols=31  Identities=19%  Similarity=0.217  Sum_probs=27.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 ~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          20 SLNIEAGEIVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3678899999999999999999999887543

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.

>PRK06921 hypothetical protein; Provisional

Probab=92.25  E-value=0.5  Score=51.86  Aligned_cols=46  Identities=15%  Similarity=0.216  Sum_probs=32.0

Q ss_pred             eeeccccc--ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          672 VIDLLCPF--LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       672 ~ID~l~pi--gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      .++-+.++  ..+.-+.+.|++|+|||+|+..|++.+...+.--++|+
T Consensus       105 ~~~~f~~~~~~~~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~  152 (266)
T PRK06921        105 YVKDFEKIQESRKNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYF  152 (266)
T ss_pred             HHHHHHHhcccCCCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEE
Confidence            34444433  24778999999999999999999987764312234555

>PRK09621 V-type ATP synthase subunit K; Provisional

Probab=92.24  E-value=0.17  Score=50.03  Aligned_cols=45  Identities=31%  Similarity=0.479  Sum_probs=41.4

Q ss_pred             CCchhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCccccccc
Q psy210            1 MGNIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSL   45 (915)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l   45 (915)
                      |..+.+++++++++++++|+++|+|.+++.++-.+.++||..++.
T Consensus         1 ~~~~~~~G~a~a~~ls~iGsa~G~~~aG~a~~G~~~e~p~~~~~~   45 (141)
T PRK09621          1 MIDMSVVGPALAMGLAMIGSAIGCGMAGVASHAVMSRIDEGHGKI   45 (141)
T ss_pred             CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCchhhhhH
Confidence            456778999999999999999999999999999999999988884

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=92.22  E-value=0.43  Score=48.18  Aligned_cols=46  Identities=22%  Similarity=0.243  Sum_probs=27.3

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCC
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGER  722 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer  722 (915)
                      ...-+.+.-+.|.|++|+|||+|+..+....... ....+..-+-..
T Consensus        18 ~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~-~~~~~~~~~~~~   63 (185)
T PF13191_consen   18 AAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER-GGYVISINCDDS   63 (185)
T ss_dssp             GTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH-T--EEEEEEETT
T ss_pred             HHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc-CCEEEEEEEecc
Confidence            3556677889999999999999999999887764 233444444443

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.20  E-value=0.1  Score=56.05  Aligned_cols=29  Identities=28%  Similarity=0.478  Sum_probs=26.3

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+.+|+-+.|+|++||||||| |..|+--
T Consensus        24 L~v~~GEfvsilGpSGcGKSTL-LriiAGL   52 (248)
T COG1116          24 LSVEKGEFVAILGPSGCGKSTL-LRLIAGL   52 (248)
T ss_pred             eEECCCCEEEEECCCCCCHHHH-HHHHhCC
Confidence            5788899999999999999999 8988864

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=92.19  E-value=0.1  Score=54.38  Aligned_cols=32  Identities=25%  Similarity=0.330  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+..
T Consensus        19 ~~s~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~   50 (200)
T PRK13540         19 QISFHLPAGGLLHLKGSNGAGKTTLLKLIAGL   50 (200)
T ss_pred             eeeEEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            33467889999999999999999999987754

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=92.18  E-value=0.099  Score=55.19  Aligned_cols=32  Identities=22%  Similarity=0.221  Sum_probs=27.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        24 isl~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        24 VSLSIGKGEIVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34678899999999999999999999988643

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.

>PF13479 AAA_24: AAA domain

Probab=92.16  E-value=0.38  Score=50.81  Aligned_cols=22  Identities=41%  Similarity=0.468  Sum_probs=19.5

Q ss_pred             cCCeeeeccCCCCChhhHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMEL  702 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i  702 (915)
                      ++.|++|.|+||+|||+++..+
T Consensus         2 ~~~~~lIyG~~G~GKTt~a~~~   23 (213)
T PF13479_consen    2 KPIKILIYGPPGSGKTTLAASL   23 (213)
T ss_pred             CceEEEEECCCCCCHHHHHHhC
Confidence            4679999999999999999765

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=92.11  E-value=0.1  Score=54.62  Aligned_cols=32  Identities=31%  Similarity=0.489  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        19 v~~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          19 ISFSVEKGEIFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34578899999999999999999999888643

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.

>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=92.10  E-value=0.1  Score=54.71  Aligned_cols=33  Identities=18%  Similarity=0.253  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        19 ~~sl~i~~G~~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          19 GINISISAGEFVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344678899999999999999999999888643

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK06893 DNA replication initiation factor; Validated

Probab=92.06  E-value=0.55  Score=50.21  Aligned_cols=32  Identities=16%  Similarity=0.440  Sum_probs=24.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      +.|+|++|+|||+|+..+++...++...+ +|.
T Consensus        42 l~l~G~~G~GKThL~~ai~~~~~~~~~~~-~y~   73 (229)
T PRK06893         42 FYIWGGKSSGKSHLLKAVSNHYLLNQRTA-IYI   73 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCe-EEe
Confidence            68999999999999999998765443333 454

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=92.04  E-value=0.1  Score=54.43  Aligned_cols=33  Identities=24%  Similarity=0.229  Sum_probs=27.8

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        16 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        16 DLNLTIEKGKMYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             ceEEEEeCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            334568899999999999999999999887643

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.

>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=92.03  E-value=0.1  Score=53.67  Aligned_cols=27  Identities=19%  Similarity=0.139  Sum_probs=24.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELI  703 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~  703 (915)
                      +++.+|++++|.|++|+|||||+..+.
T Consensus        16 l~i~~G~~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          16 VSIPLNVLVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHh
Confidence            579999999999999999999998774

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.

>PRK08727 hypothetical protein; Validated

Probab=92.02  E-value=1.5  Score=47.01  Aligned_cols=93  Identities=16%  Similarity=0.186  Sum_probs=49.8

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALT  762 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~  762 (915)
                      +-+.|.|++|+|||+|+..+++...... --++|.-..+..+...+.++.+..     ..++|.--.+.-+..+.. ...
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~~~~~-~~~~y~~~~~~~~~~~~~~~~l~~-----~dlLiIDDi~~l~~~~~~-~~~  114 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAAEQAG-RSSAYLPLQAAAGRLRDALEALEG-----RSLVALDGLESIAGQRED-EVA  114 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHHcC-CcEEEEeHHHhhhhHHHHHHHHhc-----CCEEEEeCcccccCChHH-HHH
Confidence            3489999999999999999988765432 234666554433333344433322     234555444332211110 111


Q ss_pred             HHHHHHHHHHCCCcEEEEec
Q psy210          763 GLSIAEEFRNSGKDVLLFID  782 (915)
Q Consensus       763 a~~~Ae~f~~~g~~Vl~~~D  782 (915)
                      -..+=.+..++|+.|++..+
T Consensus       115 lf~l~n~~~~~~~~vI~ts~  134 (233)
T PRK08727        115 LFDFHNRARAAGITLLYTAR  134 (233)
T ss_pred             HHHHHHHHHHcCCeEEEECC
Confidence            12233444556666776655

>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=92.01  E-value=0.11  Score=54.82  Aligned_cols=30  Identities=23%  Similarity=0.212  Sum_probs=26.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        25 ~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          25 LSIEKGEFVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEcCCCEEEEEcCCCCCHHHHHHHHhCCc
Confidence            578899999999999999999999887643

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.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=92.00  E-value=0.1  Score=54.64  Aligned_cols=31  Identities=23%  Similarity=0.213  Sum_probs=27.1

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        21 s~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          21 SLTIKKGEFVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhcCC
Confidence            3578899999999999999999999887643

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.

>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=91.99  E-value=0.096  Score=50.65  Aligned_cols=30  Identities=20%  Similarity=0.318  Sum_probs=26.2

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+...
T Consensus         6 ~~i~~g~~~~i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen    6 LEIKPGEIVAIVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEEETTSEEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEcCCCEEEEEccCCCccccceeeecccc
Confidence            467899999999999999999998777643

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 ....

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=91.98  E-value=0.87  Score=50.31  Aligned_cols=39  Identities=23%  Similarity=0.265  Sum_probs=30.9

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      .|+-+++||.|.||+|||||...+++.......-|-|++
T Consensus        48 tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlA   86 (323)
T COG1703          48 TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLA   86 (323)
T ss_pred             CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEE
Confidence            588899999999999999999999998754322344444

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=91.98  E-value=0.11  Score=54.76  Aligned_cols=32  Identities=25%  Similarity=0.286  Sum_probs=27.6

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        22 isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        22 LNFHITKGEMVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            34678899999999999999999999888643

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=91.95  E-value=0.89  Score=48.77  Aligned_cols=50  Identities=10%  Similarity=0.181  Sum_probs=33.6

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhh------------cCCCeEEEEEeeccchhhHHHHHHH
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQ------------KNKNVICIYVCIGQKISSLINVINK  306 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~------------~~~~~~~V~~~iGer~~ev~~~~~~  306 (915)
                      |.=..|+|++|+|||+|++++..+-            ......|+|....+...++.+=++.
T Consensus         1 g~~~ll~g~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~   62 (239)
T cd01125           1 GYVSALVAPGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEA   62 (239)
T ss_pred             CceeEEEcCCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHH
Confidence            3445799999999999998886542            1234567787776666555544443

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.

>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=91.94  E-value=0.12  Score=48.80  Aligned_cols=23  Identities=30%  Similarity=0.366  Sum_probs=20.8

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++|.|+||+||||++..++...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999999865

...

>PRK04296 thymidine kinase; Provisional

Probab=91.93  E-value=0.63  Score=48.30  Aligned_cols=35  Identities=20%  Similarity=0.344  Sum_probs=25.7

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEE
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYV  291 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~  291 (915)
                      |.=..|.|+.|+||||++++.+.+....+-+|++.
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~   36 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVF   36 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEE
Confidence            45567889999999999998888765445444443

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=91.91  E-value=0.11  Score=55.77  Aligned_cols=31  Identities=19%  Similarity=0.280  Sum_probs=27.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        22 NLNINPGEFVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3578899999999999999999999887543

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.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=91.89  E-value=0.12  Score=54.06  Aligned_cols=40  Identities=20%  Similarity=0.308  Sum_probs=31.3

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC  713 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~  713 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.....+...+
T Consensus        23 ~~s~~i~~G~~~~i~G~nG~GKSTLl~~i~G~~~~~~G~i   62 (204)
T cd03250          23 DINLEVPKGELVAIVGPVGSGKSSLLSALLGELEKLSGSV   62 (204)
T ss_pred             eeeEEECCCCEEEEECCCCCCHHHHHHHHhCcCCCCCCeE
Confidence            3446788999999999999999999999887554333334

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.

>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=91.88  E-value=0.11  Score=54.95  Aligned_cols=30  Identities=23%  Similarity=0.419  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          21 LTVPEGEIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             EEEcCCeEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999887543

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.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=91.84  E-value=0.11  Score=55.61  Aligned_cols=31  Identities=23%  Similarity=0.264  Sum_probs=27.2

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+-.
T Consensus        21 vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   51 (242)
T PRK11124         21 ITLDCPQGETLVLLGPSGAGKSSLLRVLNLL   51 (242)
T ss_pred             eeeEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3367889999999999999999999988754

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=91.84  E-value=0.49  Score=48.87  Aligned_cols=86  Identities=24%  Similarity=0.266  Sum_probs=55.9

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCC---Cc----------hHHHHHHHhhhcCccccEEEEEE
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGER---SR----------EGNDFYHEMKESNVLDKVSLIYG  747 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer---~~----------ev~e~~~~~~~~~~~~~~~vv~~  747 (915)
                      +|.=+.|+||+|+|||||+.++....     ++.+-+..--|   +-          ...||.+-+.....++.+.++-+
T Consensus         3 ~G~l~vlsgPSG~GKsTl~k~L~~~~-----~l~~SVS~TTR~pR~gEv~G~dY~Fvs~~EF~~~i~~~~fLE~a~~~gn   77 (191)
T COG0194           3 KGLLIVLSGPSGVGKSTLVKALLEDD-----KLRFSVSATTRKPRPGEVDGVDYFFVTEEEFEELIERDEFLEWAEYHGN   77 (191)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhhc-----CeEEEEEeccCCCCCCCcCCceeEeCCHHHHHHHHhcCCcEEEEEEcCC
Confidence            68888999999999999998887643     23233322222   22          23567777777788988888642


Q ss_pred             cCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEec
Q psy210          748 QMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFID  782 (915)
Q Consensus       748 t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~D  782 (915)
                      -.--           ...-.|--.++|+||++-+|
T Consensus        78 yYGT-----------~~~~ve~~~~~G~~vildId  101 (191)
T COG0194          78 YYGT-----------SREPVEQALAEGKDVILDID  101 (191)
T ss_pred             cccC-----------cHHHHHHHHhcCCeEEEEEe
Confidence            2111           11222444567999999998

>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=91.83  E-value=0.34  Score=52.26  Aligned_cols=43  Identities=21%  Similarity=0.271  Sum_probs=27.1

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHH
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLIN  302 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~  302 (915)
                      |+.|+|++|+|||++.+..+.. ......+||....+...+...
T Consensus        15 r~viIG~sGSGKT~li~~lL~~-~~~~f~~I~l~t~~~n~~~~~   57 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLYY-LRHKFDHIFLITPEYNNEYYK   57 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHHh-hcccCCEEEEEecCCchhhhh
Confidence            6789999999999996666544 222223455555544444433

This is thought to be an ATPase involved in viral DNA packaging [].

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=91.82  E-value=0.17  Score=52.10  Aligned_cols=93  Identities=18%  Similarity=0.291  Sum_probs=50.3

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCC--cEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHK--GCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL  761 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~--~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~  761 (915)
                      |+.|+|+||+||||++..|+....--|=  +-..-..+-++ .|.....+.+...|     .+|      |      --.
T Consensus         2 riiilG~pGaGK~T~A~~La~~~~i~hlstgd~~r~~~~~~-t~lg~~~k~~i~~g-----~lv------~------d~i   63 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKLGLPHLDTGDILRAAIAER-TELGEEIKKYIDKG-----ELV------P------DEI   63 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCcEEcHhHHhHhhhccC-ChHHHHHHHHHHcC-----Ccc------c------hHH
Confidence            7899999999999999999986422121  11122234444 44444444432222     111      0      112


Q ss_pred             HHHHHHHHHHHC-CCcEEEEecchhhHHHhhhhhh
Q psy210          762 TGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVS  795 (915)
Q Consensus       762 ~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A~reis  795 (915)
                      +--.+-+++... .+. .+|+|..-|+..-.+.+-
T Consensus        64 ~~~~v~~rl~~~d~~~-~~I~dg~PR~~~qa~~l~   97 (178)
T COG0563          64 VNGLVKERLDEADCKA-GFILDGFPRTLCQARALK   97 (178)
T ss_pred             HHHHHHHHHHhhcccC-eEEEeCCCCcHHHHHHHH
Confidence            233445566553 445 788887766544444433

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=91.81  E-value=0.11  Score=55.25  Aligned_cols=33  Identities=27%  Similarity=0.358  Sum_probs=28.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        18 ~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        18 GVSLEVPKGEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             ceeeEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            445678899999999999999999999888644

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.

>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=91.80  E-value=0.11  Score=54.74  Aligned_cols=33  Identities=27%  Similarity=0.428  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        18 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          18 GVSFRVRRGEIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             ceeEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            444678899999999999999999999887543

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.

>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=91.76  E-value=0.11  Score=55.32  Aligned_cols=31  Identities=23%  Similarity=0.294  Sum_probs=27.5

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+.+|+.++|+|++|+|||||+..|+....
T Consensus        26 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   56 (233)
T cd03258          26 LSVPKGEIFGIIGRSGAGKSTLIRCINGLER   56 (233)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            6788999999999999999999998886543

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.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=91.75  E-value=0.93  Score=45.12  Aligned_cols=23  Identities=30%  Similarity=0.288  Sum_probs=20.4

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.|.|.+|+|||||+..++....
T Consensus         2 i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           2 IWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHH
Confidence            46889999999999999998765

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=91.73  E-value=0.12  Score=56.42  Aligned_cols=36  Identities=25%  Similarity=0.376  Sum_probs=29.1

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +++.+..+.+|+.++|+|++|+|||||+..|+.-..
T Consensus        16 ~l~~i~~i~~Ge~~~IvG~nGsGKSTLlk~l~Gl~~   51 (255)
T cd03236          16 KLHRLPVPREGQVLGLVGPNGIGKSTALKILAGKLK   51 (255)
T ss_pred             hhhcCCCCCCCCEEEEECCCCCCHHHHHHHHhCCcC
Confidence            344444488999999999999999999988886543

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=91.71  E-value=0.12  Score=54.20  Aligned_cols=30  Identities=20%  Similarity=0.199  Sum_probs=26.8

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        21 ~~i~~G~~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          21 LTVKKGEVVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999888643

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

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=91.69  E-value=0.99  Score=51.95  Aligned_cols=92  Identities=18%  Similarity=0.206  Sum_probs=52.0

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEeeccchhh---HHHHHHHHhccCCcceEEEEEecCCCCHHH
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVCIGQKISS---LINVINKLKYYNCMDYTVVVAATAADSAAE  329 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~iGer~~e---v~~~~~~l~~~~~~~~tvvv~~~a~~~~~~  329 (915)
                      +++.+.|.|++|+|||++ +..+.++   ...++.++|+-+-.....   ..++.+.+.......+        ..+ ..
T Consensus        54 ~~~~~lI~G~~GtGKT~l-~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~--------~~~-~~  123 (394)
T PRK00411         54 RPLNVLIYGPPGTGKTTT-VKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSS--------GLS-FD  123 (394)
T ss_pred             CCCeEEEECCCCCCHHHH-HHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCC--------CCC-HH
Confidence            456789999999999999 5655553   223566777766544322   2233333322110000        000 11


Q ss_pred             hhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          330 QYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       330 r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      .     .--.+.+++...++.++|++|++..+.
T Consensus       124 ~-----~~~~~~~~l~~~~~~~viviDE~d~l~  151 (394)
T PRK00411        124 E-----LFDKIAEYLDERDRVLIVALDDINYLF  151 (394)
T ss_pred             H-----HHHHHHHHHHhcCCEEEEEECCHhHhh
Confidence            1     111234555567888999999998776

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=91.69  E-value=0.12  Score=55.35  Aligned_cols=33  Identities=24%  Similarity=0.293  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        20 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          20 DVSLDIPSGELVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334678899999999999999999999887643

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.

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=91.68  E-value=0.12  Score=55.32  Aligned_cols=30  Identities=23%  Similarity=0.300  Sum_probs=26.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          22 LSINPGEFVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            578999999999999999999999888643

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.

>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=91.68  E-value=0.11  Score=54.59  Aligned_cols=31  Identities=29%  Similarity=0.388  Sum_probs=27.1

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|.|++|+|||||+..|+.-.
T Consensus        25 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          25 SFTVKPGEVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            3567899999999999999999999888644

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=91.67  E-value=0.12  Score=53.90  Aligned_cols=30  Identities=33%  Similarity=0.324  Sum_probs=26.5

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          21 LDLYAGEIIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999999999887643

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.

>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=91.60  E-value=0.12  Score=55.04  Aligned_cols=33  Identities=15%  Similarity=0.306  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        18 ~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          18 GVDLDVRRGEILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334589999999999999999999999888643

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.

>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=91.60  E-value=0.14  Score=53.76  Aligned_cols=33  Identities=18%  Similarity=0.242  Sum_probs=29.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.-.
T Consensus        16 ~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~gl~   48 (211)
T cd03298          16 HFDLTFAQGEITAIVGPSGSGKSTLLNLIAGFE   48 (211)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            666889999999999999999999999887643

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=91.58  E-value=0.11  Score=55.35  Aligned_cols=30  Identities=27%  Similarity=0.302  Sum_probs=26.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|.|++|+|||||+..|+...
T Consensus        21 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          21 FSVRPGEIHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             EEecCCcEEEEECCCCCCHHHHHHHHcCCC
Confidence            578899999999999999999999887643

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).

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=91.58  E-value=0.49  Score=55.84  Aligned_cols=35  Identities=17%  Similarity=0.306  Sum_probs=26.7

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEE
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFI  717 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~  717 (915)
                      ..+.|.|++|+|||+|+..+++.+.+.+++. ++|+
T Consensus       142 npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv  177 (450)
T PRK14087        142 NPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYM  177 (450)
T ss_pred             CceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEE
Confidence            3478999999999999999988766544444 4555

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.58  E-value=0.12  Score=54.07  Aligned_cols=31  Identities=23%  Similarity=0.249  Sum_probs=27.3

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.|.+|+.++|+|++|+|||||+..|+...
T Consensus        22 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         22 SFTLAAGEALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3478899999999999999999999888643

>PRK08118 topology modulation protein; Reviewed

Probab=91.57  E-value=0.13  Score=52.23  Aligned_cols=25  Identities=32%  Similarity=0.408  Sum_probs=22.6

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +|+.|+|++|+|||||+..++....
T Consensus         2 ~rI~I~G~~GsGKSTlak~L~~~l~   26 (167)
T PRK08118          2 KKIILIGSGGSGKSTLARQLGEKLN   26 (167)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhC
Confidence            6899999999999999999998653

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.54  E-value=0.12  Score=55.59  Aligned_cols=33  Identities=21%  Similarity=0.233  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~is~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   53 (250)
T PRK14247         21 GVNLEIPDNTITALMGPSGSGKSTLLRVFNRLI   53 (250)
T ss_pred             cceeEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            334578899999999999999999999888654

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=91.53  E-value=0.13  Score=55.03  Aligned_cols=30  Identities=27%  Similarity=0.321  Sum_probs=26.7

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+-.
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (236)
T TIGR03864        21 SFTVRPGEFVALLGPNGAGKSTLFSLLTRL   50 (236)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            357889999999999999999999988754

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.

>PRK03846 adenylylsulfate kinase; Provisional

Probab=91.53  E-value=0.79  Score=47.74  Aligned_cols=28  Identities=25%  Similarity=0.215  Sum_probs=24.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +|.-+.|.|.+|+|||||+..+......
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~~l~~   50 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEEALHE   50 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5778999999999999999999987643

>PRK04296 thymidine kinase; Provisional

Probab=91.51  E-value=0.92  Score=47.10  Aligned_cols=28  Identities=14%  Similarity=0.223  Sum_probs=23.4

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      |.=..|.|++|+||||++..++.+....
T Consensus         2 g~i~litG~~GsGKTT~~l~~~~~~~~~   29 (190)
T PRK04296          2 AKLEFIYGAMNSGKSTELLQRAYNYEER   29 (190)
T ss_pred             cEEEEEECCCCCHHHHHHHHHHHHHHHc
Confidence            5567889999999999999999887543

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=91.51  E-value=0.13  Score=55.92  Aligned_cols=34  Identities=29%  Similarity=0.405  Sum_probs=29.5

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |.=+++-+|.-.+|+||.|+|||||+..|++-++
T Consensus        20 ~ls~~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          20 DLSFSIPKGEITGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             cceEEecCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            3446789999999999999999999999998554

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=91.51  E-value=0.14  Score=52.41  Aligned_cols=34  Identities=29%  Similarity=0.487  Sum_probs=28.8

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |.=+.+-+|+.++|.|++|+|||||+..|+....
T Consensus        20 ~i~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~~   53 (178)
T cd03247          20 NLSLELKQGEKIALLGRSGSGKSTLLQLLTGDLK   53 (178)
T ss_pred             EEEEEEcCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            3446678999999999999999999999887543

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=91.50  E-value=0.95  Score=51.27  Aligned_cols=98  Identities=20%  Similarity=0.183  Sum_probs=51.9

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCch-HHHHH---HHhhhcCccccEEEEEEcCCCChH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSRE-GNDFY---HEMKESNVLDKVSLIYGQMNEPSG  754 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~e-v~e~~---~~~~~~~~~~~~~vv~~t~d~~~~  754 (915)
                      .++.-+++|.|++|+|||||+..++..+......+.|+. ++-.... ...++   ..+.+.+.- ..+++-++......
T Consensus        53 ~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~g~~v~vi~-~Dp~s~~~~gallgd~~r~~~~~~~-~~~~~r~~~~~~~l  130 (332)
T PRK09435         53 TGNALRIGITGVPGVGKSTFIEALGMHLIEQGHKVAVLA-VDPSSTRTGGSILGDKTRMERLSRH-PNAFIRPSPSSGTL  130 (332)
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE-eCCCccccchhhhchHhHHHhhcCC-CCeEEEecCCcccc
Confidence            456679999999999999999999988765322333333 3322111 00011   112221111 22455554443221


Q ss_pred             hHHHHHHHHHHHHHHHHHCCCcEEEE
Q psy210          755 NRLRVALTGLSIAEEFRNSGKDVLLF  780 (915)
Q Consensus       755 ~r~~~~~~a~~~Ae~f~~~g~~Vl~~  780 (915)
                      .-  .+.......+.+...|+|++|+
T Consensus       131 ~~--~a~~~~~~~~~~~~~g~d~vii  154 (332)
T PRK09435        131 GG--VARKTRETMLLCEAAGYDVILV  154 (332)
T ss_pred             cc--hHHHHHHHHHHHhccCCCEEEE
Confidence            10  1223344445566679999887

>PRK11701 phnK phosphonate C-P lyase system protein PhnK; Provisional

Probab=91.49  E-value=0.12  Score=55.96  Aligned_cols=33  Identities=27%  Similarity=0.484  Sum_probs=28.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|.|++|+|||||+..|+...
T Consensus        24 ~is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   56 (258)
T PRK11701         24 DVSFDLYPGEVLGIVGESGSGKTTLLNALSARL   56 (258)
T ss_pred             eeeEEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            445678999999999999999999999888654

>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=91.48  E-value=0.16  Score=51.68  Aligned_cols=31  Identities=16%  Similarity=0.295  Sum_probs=27.3

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 ~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          22 SFSIEPGESLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            3567899999999999999999999888654

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

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.48  E-value=0.15  Score=52.96  Aligned_cols=36  Identities=22%  Similarity=0.305  Sum_probs=29.7

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.|.=+.+-+|++++|.|++|+|||||+..|+....
T Consensus        16 l~~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   51 (195)
T PRK13541         16 LFDLSITFLPSAITYIKGANGCGKSSLLRMIAGIMQ   51 (195)
T ss_pred             EEEEEEEEcCCcEEEEECCCCCCHHHHHHHHhcCCC
Confidence            345446788999999999999999999998886543

>KOG0727|consensus

Probab=91.48  E-value=0.22  Score=53.30  Aligned_cols=62  Identities=21%  Similarity=0.228  Sum_probs=42.2

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE------EecCCCchHHHHHHHhhhcCccccEEEEEEc
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI------GVGERSREGNDFYHEMKESNVLDKVSLIYGQ  748 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~------~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t  748 (915)
                      -+-++++||||||||+|+...+++.++.  -+-|.+      -.||-+|-|+++.+--++..   -+++|..-
T Consensus       189 prgvllygppg~gktml~kava~~t~a~--firvvgsefvqkylgegprmvrdvfrlakena---psiifide  256 (408)
T KOG0727|consen  189 PRGVLLYGPPGTGKTMLAKAVANHTTAA--FIRVVGSEFVQKYLGEGPRMVRDVFRLAKENA---PSIIFIDE  256 (408)
T ss_pred             CcceEEeCCCCCcHHHHHHHHhhccchh--eeeeccHHHHHHHhccCcHHHHHHHHHHhccC---CcEEEeeh
Confidence            4558999999999999999888876642  233443      46777888877776554432   34555443

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=91.45  E-value=0.14  Score=51.72  Aligned_cols=30  Identities=27%  Similarity=0.292  Sum_probs=27.1

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          21 LSVRRGEVHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            678899999999999999999999887654

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.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=91.45  E-value=0.13  Score=54.52  Aligned_cols=31  Identities=26%  Similarity=0.451  Sum_probs=27.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        25 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          25 SFSIKKGETLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             eeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3567899999999999999999999888654

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=91.44  E-value=0.13  Score=53.96  Aligned_cols=30  Identities=23%  Similarity=0.254  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          21 LTVEPGEFLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999887643

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.

>PRK14274 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.41  E-value=0.13  Score=55.72  Aligned_cols=33  Identities=18%  Similarity=0.255  Sum_probs=28.0

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        30 ~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   62 (259)
T PRK14274         30 NINLSIPENEVTAIIGPSGCGKSTFIKTLNLMI   62 (259)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            334668899999999999999999999888643

>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=91.40  E-value=0.14  Score=51.91  Aligned_cols=34  Identities=24%  Similarity=0.292  Sum_probs=28.6

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |.=+.+-+|++++|+|++|+|||||+..|+....
T Consensus        19 ~i~l~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   52 (166)
T cd03223          19 DLSFEIKPGDRLLITGPSGTGKSSLFRALAGLWP   52 (166)
T ss_pred             cCeEEECCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3346788999999999999999999999886543

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

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=91.39  E-value=0.12  Score=54.15  Aligned_cols=30  Identities=17%  Similarity=0.338  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 l~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          20 FEVKPGEFLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            478899999999999999999999887643

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.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=91.39  E-value=0.13  Score=54.12  Aligned_cols=27  Identities=26%  Similarity=0.327  Sum_probs=24.3

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELI  703 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~  703 (915)
                      +.+-+|+.+.|+||+|+|||||+..|-
T Consensus        23 l~v~~Gevv~iiGpSGSGKSTlLRclN   49 (240)
T COG1126          23 LSVEKGEVVVIIGPSGSGKSTLLRCLN   49 (240)
T ss_pred             eeEcCCCEEEEECCCCCCHHHHHHHHH
Confidence            478999999999999999999998654

>TIGR03263 guanyl_kin guanylate kinase

Probab=91.38  E-value=0.31  Score=49.54  Aligned_cols=24  Identities=33%  Similarity=0.466  Sum_probs=21.8

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.+.|.|++|+|||||+..+++.
T Consensus         1 g~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         1 GLLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHcc
Confidence            678999999999999999998874

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.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=91.37  E-value=0.13  Score=54.99  Aligned_cols=32  Identities=19%  Similarity=0.241  Sum_probs=27.6

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+..
T Consensus        18 ~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        18 GVNLTVKKGEIHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             ccceEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            34467889999999999999999999988754

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.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.33  E-value=0.14  Score=55.06  Aligned_cols=33  Identities=27%  Similarity=0.396  Sum_probs=28.5

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         21 DISVKFEGGAIYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455678899999999999999999999888643

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=91.30  E-value=0.14  Score=54.51  Aligned_cols=32  Identities=22%  Similarity=0.294  Sum_probs=27.4

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+--.
T Consensus        21 i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (234)
T cd03251          21 ISLDIPAGETVALVGPSGSGKSTLVNLIPRFY   52 (234)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            34568899999999999999999999887543

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.

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.28  E-value=0.14  Score=55.42  Aligned_cols=32  Identities=22%  Similarity=0.355  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        23 is~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   54 (253)
T PRK14267         23 VDLKIPQNGVFALMGPSGCGKSTLLRTFNRLL   54 (253)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            34678899999999999999999999887643

>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=91.28  E-value=0.14  Score=54.53  Aligned_cols=30  Identities=27%  Similarity=0.516  Sum_probs=26.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          21 LSVKQGEIVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             eEecCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            678899999999999999999999887643

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.

>PRK14240 phosphate transporter ATP-binding protein; Provisional

Probab=91.28  E-value=0.14  Score=55.29  Aligned_cols=33  Identities=21%  Similarity=0.240  Sum_probs=28.5

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      -|.=+.+-+|+.++|+|++|+|||||+..|+-.
T Consensus        20 ~~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   52 (250)
T PRK14240         20 KKINLDIEENQVTALIGPSGCGKSTFLRTLNRM   52 (250)
T ss_pred             ecceEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            355567889999999999999999999988753

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=91.28  E-value=0.14  Score=55.61  Aligned_cols=32  Identities=19%  Similarity=0.267  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        20 vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         20 INLTLESGELLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             eeEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33578899999999999999999999888643

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=91.26  E-value=0.14  Score=54.01  Aligned_cols=32  Identities=25%  Similarity=0.178  Sum_probs=27.8

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|++++|+|++|+|||||+..|+.-
T Consensus        29 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         29 PLDFHVDAGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             cceEEECCCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            44467889999999999999999999988764

>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=91.23  E-value=0.15  Score=51.95  Aligned_cols=32  Identities=28%  Similarity=0.406  Sum_probs=27.5

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..++...
T Consensus        19 ~~~~i~~Ge~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          19 ISLTVEKGEIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34568899999999999999999999887643

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.

>PRK06526 transposase; Provisional

Probab=91.23  E-value=0.39  Score=52.36  Aligned_cols=28  Identities=21%  Similarity=0.204  Sum_probs=24.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +++.+.|.||+|+|||+|+..|+.....
T Consensus        97 ~~~nlll~Gp~GtGKThLa~al~~~a~~  124 (254)
T PRK06526         97 GKENVVFLGPPGTGKTHLAIGLGIRACQ  124 (254)
T ss_pred             cCceEEEEeCCCCchHHHHHHHHHHHHH
Confidence            5788999999999999999999887654

>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=91.18  E-value=0.14  Score=54.69  Aligned_cols=33  Identities=21%  Similarity=0.336  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        20 ~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (237)
T cd03252          20 NISLRIKPGEVVGIVGRSGSGKSTLTKLIQRFY   52 (237)
T ss_pred             ceEEEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            334678899999999999999999999888643

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.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=91.14  E-value=0.15  Score=53.86  Aligned_cols=33  Identities=24%  Similarity=0.099  Sum_probs=28.4

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .=+.+.+|+.++|.|++|+|||||+..|+....
T Consensus         6 vs~~i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~   38 (213)
T PRK15177          6 TDFVMGYHEHIGILAAPGSGKTTLTRLLCGLDA   38 (213)
T ss_pred             eeEEEcCCCEEEEECCCCCCHHHHHHHHhCCcc
Confidence            346789999999999999999999998886543

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=91.13  E-value=0.14  Score=53.88  Aligned_cols=30  Identities=23%  Similarity=0.336  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|.|++|+|||||+..|+-..
T Consensus        25 ~~i~~G~~~~i~G~nGsGKSTLl~~i~G~~   54 (220)
T cd03245          25 LTIRAGEKVAIIGRVGSGKSTLLKLLAGLY   54 (220)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            578899999999999999999999887543

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.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=91.11  E-value=0.23  Score=52.74  Aligned_cols=42  Identities=21%  Similarity=0.164  Sum_probs=29.0

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCc-EE-EEEEecCCCchH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKG-CS-VFIGVGERSREG  726 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-~~-v~~~iGer~~ev  726 (915)
                      .+|+|||++||||||.+|+|.++..-.. .+ =.+.|+||.+-.
T Consensus       140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIa  183 (308)
T COG3854         140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIA  183 (308)
T ss_pred             eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhh
Confidence            6789999999999999999987642111 11 123567776544

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=91.11  E-value=0.14  Score=57.73  Aligned_cols=31  Identities=23%  Similarity=0.318  Sum_probs=27.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+-+|.-+.|+||+||||||||.+||=
T Consensus        21 ~i~l~i~~Gef~vllGPSGcGKSTlLr~IAG   51 (338)
T COG3839          21 DVNLDIEDGEFVVLLGPSGCGKSTLLRMIAG   51 (338)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            3456789999999999999999999998874

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=91.10  E-value=0.15  Score=54.65  Aligned_cols=33  Identities=15%  Similarity=0.203  Sum_probs=28.3

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        19 ~~s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   51 (240)
T PRK09493         19 NIDLNIDQGEVVVIIGPSGSGKSTLLRCINKLE   51 (240)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            344678899999999999999999999888654

>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=91.10  E-value=0.62  Score=49.55  Aligned_cols=34  Identities=21%  Similarity=0.428  Sum_probs=26.2

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEe
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVC  292 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~  292 (915)
                      +-+-|.|++|+|||+| |++|++.   ...+.+|+|.-
T Consensus        35 ~~l~l~G~~G~GKTHL-L~Ai~~~~~~~~~~~~v~y~~   71 (219)
T PF00308_consen   35 NPLFLYGPSGLGKTHL-LQAIANEAQKQHPGKRVVYLS   71 (219)
T ss_dssp             SEEEEEESTTSSHHHH-HHHHHHHHHHHCTTS-EEEEE
T ss_pred             CceEEECCCCCCHHHH-HHHHHHHHHhccccccceeec
Confidence            3577999999999999 8888874   34676777874

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.

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=91.08  E-value=0.14  Score=55.87  Aligned_cols=33  Identities=33%  Similarity=0.411  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        29 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T PRK10575         29 PLSLTFPAGKVTGLIGHNGSGKSTLLKMLGRHQ   61 (265)
T ss_pred             eeeeEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            344678899999999999999999999887643

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=91.08  E-value=0.21  Score=53.46  Aligned_cols=29  Identities=24%  Similarity=0.470  Sum_probs=25.1

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.|.+|++.||+|++||||||| ..+++-.
T Consensus        28 ~~i~~Ge~lgivGeSGsGKSTL-~r~l~Gl   56 (252)
T COG1124          28 LEIERGETLGIVGESGSGKSTL-ARLLAGL   56 (252)
T ss_pred             EEecCCCEEEEEcCCCCCHHHH-HHHHhcc
Confidence            5789999999999999999999 5666653

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=91.07  E-value=0.15  Score=53.23  Aligned_cols=33  Identities=24%  Similarity=0.243  Sum_probs=27.9

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|++++|+|++|+|||||+..|+...
T Consensus        18 ~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          18 GLSFTLAAGEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334578899999999999999999999887643

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.

>PRK14255 phosphate ABC transporter ATP-binding protein; Provisional

Probab=91.06  E-value=0.15  Score=55.12  Aligned_cols=29  Identities=28%  Similarity=0.360  Sum_probs=26.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+.
T Consensus        25 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G   53 (252)
T PRK14255         25 DLDFNQNEITALIGPSGCGKSTYLRTLNR   53 (252)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            35688999999999999999999998875

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=91.06  E-value=0.15  Score=53.51  Aligned_cols=29  Identities=31%  Similarity=0.277  Sum_probs=26.1

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +.+-+|+.++|+|++|+|||||+..|+..
T Consensus        23 ~~i~~G~~~~l~G~nGsGKSTLl~~i~Gl   51 (214)
T TIGR02673        23 LHIRKGEFLFLTGPSGAGKTTLLKLLYGA   51 (214)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            57889999999999999999999887754

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.

>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=91.05  E-value=0.15  Score=54.63  Aligned_cols=30  Identities=33%  Similarity=0.358  Sum_probs=26.8

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+-.
T Consensus        21 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~   50 (242)
T cd03295          21 NLEIAKGEFLVLIGPSGSGKTTTMKMINRL   50 (242)
T ss_pred             EEEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            367889999999999999999999988754

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.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=91.04  E-value=0.15  Score=54.11  Aligned_cols=32  Identities=25%  Similarity=0.287  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        29 ~s~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~   60 (228)
T PRK10584         29 VELVVKRGETIALIGESGSGKSTLLAILAGLD   60 (228)
T ss_pred             cEEEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            34678899999999999999999999888643

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=91.03  E-value=0.84  Score=49.44  Aligned_cols=25  Identities=32%  Similarity=0.526  Sum_probs=21.4

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +-+.|.|++|+|||+|+..+++...
T Consensus        44 ~~~~l~G~~G~GKTtl~~~l~~~l~   68 (269)
T TIGR03015        44 GFILITGEVGAGKTTLIRNLLKRLD   68 (269)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHhcC
Confidence            3688999999999999999887654

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.

>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=91.03  E-value=0.15  Score=53.93  Aligned_cols=31  Identities=19%  Similarity=0.219  Sum_probs=27.0

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        24 s~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          24 SLSVEEGEFVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             eEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578899999999999999999999887543

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.

>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=91.03  E-value=0.15  Score=52.20  Aligned_cols=33  Identities=27%  Similarity=0.450  Sum_probs=27.8

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|.|++|+|||||+..|+...
T Consensus        17 ~~~~~i~~G~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          17 DLSLSIEAGEIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             eeEEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334567899999999999999999999887644

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.

>PRK05748 replicative DNA helicase; Provisional

Probab=90.99  E-value=0.22  Score=58.65  Aligned_cols=63  Identities=16%  Similarity=0.183  Sum_probs=46.9

Q ss_pred             ccccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchH
Q psy210          664 NILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREG  726 (915)
Q Consensus       664 e~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev  726 (915)
                      .-+.||+..+|-++. +-+|+=+.|-|.||+|||+++.+++.+.+..+..-++|...-+..+++
T Consensus       184 ~gi~TG~~~LD~~~~G~~~G~livIaarpg~GKT~~al~ia~~~a~~~g~~v~~fSlEms~~~l  247 (448)
T PRK05748        184 TGIPTGFTDLDKMTSGLQPNDLIIVAARPSVGKTAFALNIAQNVATKTDKNVAIFSLEMGAESL  247 (448)
T ss_pred             CCccCChHHHHHhcCCCCCCceEEEEeCCCCCchHHHHHHHHHHHHhCCCeEEEEeCCCCHHHH
Confidence            358999999999864 778999999999999999999999998764333333444444444433

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=90.99  E-value=0.15  Score=53.37  Aligned_cols=31  Identities=23%  Similarity=0.252  Sum_probs=27.1

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|.|++|+|||||+..|+...
T Consensus        20 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          20 NLDIADGEFVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3568899999999999999999998888643

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=90.98  E-value=0.49  Score=57.44  Aligned_cols=34  Identities=18%  Similarity=0.280  Sum_probs=26.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEE
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFI  717 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~  717 (915)
                      -+.|.|++|+|||+|+..|++.+...+++. ++|+
T Consensus       316 pL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yi  350 (617)
T PRK14086        316 PLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYV  350 (617)
T ss_pred             cEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEe
Confidence            388999999999999999999876543343 4566

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=90.97  E-value=0.15  Score=52.27  Aligned_cols=33  Identities=21%  Similarity=0.188  Sum_probs=28.2

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .=+.+.+|+..+|+|++|+|||||+..|+....
T Consensus        19 vs~~i~~G~~~~i~G~nGsGKSTLl~~l~G~~~   51 (182)
T cd03215          19 VSFEVRAGEIVGIAGLVGNGQTELAEALFGLRP   51 (182)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            346788999999999999999999998886543

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.

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=90.97  E-value=0.16  Score=54.23  Aligned_cols=30  Identities=20%  Similarity=0.244  Sum_probs=26.8

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        29 sl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   58 (233)
T PRK11629         29 SFSIGEGEMMAIVGSSGSGKSTLLHLLGGL   58 (233)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            357889999999999999999999988764

>COG2874 FlaH Predicted ATPases involved in biogenesis of archaeal flagella [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=90.97  E-value=1.5  Score=46.39  Aligned_cols=155  Identities=17%  Similarity=0.171  Sum_probs=87.6

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc------CccccEEEEEEc----CC
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES------NVLDKVSLIYGQ----MN  750 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~------~~~~~~~vv~~t----~d  750 (915)
                      -|+=+.|.|+.|+|||.|.++++.....+  +..|...--  ...+.+|++.+..-      -.+...-.++..    .+
T Consensus        27 ~GsL~lIEGd~~tGKSvLsqr~~YG~L~~--g~~v~yvsT--e~T~refi~qm~sl~ydv~~~~l~G~l~~~~~~~~~~~  102 (235)
T COG2874          27 VGSLILIEGDNGTGKSVLSQRFAYGFLMN--GYRVTYVST--ELTVREFIKQMESLSYDVSDFLLSGRLLFFPVNLEPVN  102 (235)
T ss_pred             cCeEEEEECCCCccHHHHHHHHHHHHHhC--CceEEEEEe--chhHHHHHHHHHhcCCCchHHHhcceeEEEEecccccc
Confidence            48999999999999999999999977654  333332222  34677888776542      123233344443    33


Q ss_pred             CChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC-CCCc
Q psy210          751 EPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-KNGT  829 (915)
Q Consensus       751 ~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~-~~GS  829 (915)
                      .....+-..-..   +.|+.+-..+||++ +||++-++.--.|.                   ..-.|++...+. ..|-
T Consensus       103 ~~~~~~~~~L~~---l~~~~k~~~~dViI-IDSls~~~~~~~~~-------------------~vl~fm~~~r~l~d~gK  159 (235)
T COG2874         103 WGRRSARKLLDL---LLEFIKRWEKDVII-IDSLSAFATYDSED-------------------AVLNFMTFLRKLSDLGK  159 (235)
T ss_pred             cChHHHHHHHHH---HHhhHHhhcCCEEE-EecccHHhhcccHH-------------------HHHHHHHHHHHHHhCCC
Confidence            322222222121   23344444567765 59999765322111                   222333333321 2343


Q ss_pred             eeEEEEEEecCCCCCCCcccccccccCcEEEeeHHH
Q psy210          830 ITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQI  865 (915)
Q Consensus       830 iT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~L  865 (915)
                       |++-||  ....+.+.+..-++++-|+++.|+-+-
T Consensus       160 -vIilTv--hp~~l~e~~~~rirs~~d~~l~L~~~~  192 (235)
T COG2874         160 -VIILTV--HPSALDEDVLTRIRSACDVYLRLRLEE  192 (235)
T ss_pred             -EEEEEe--ChhhcCHHHHHHHHHhhheeEEEEhhh
Confidence             344444  444566777777888899999987653

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=90.95  E-value=0.15  Score=54.70  Aligned_cols=31  Identities=23%  Similarity=0.141  Sum_probs=27.4

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   52 (242)
T TIGR03411        22 SLYVDPGELRVIIGPNGAGKTTMMDVITGKT   52 (242)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578899999999999999999999888654

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.

>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=90.94  E-value=0.15  Score=54.52  Aligned_cols=32  Identities=28%  Similarity=0.369  Sum_probs=27.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        22 i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   53 (238)
T cd03249          22 LSLTIPPGKTVALVGSSGCGKSTVVSLLERFY   53 (238)
T ss_pred             eEEEecCCCEEEEEeCCCCCHHHHHHHHhccC
Confidence            34578899999999999999999999888654

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.

>cd03290 ABCC_SUR1_N The SUR domain 1

Probab=90.93  E-value=0.16  Score=53.65  Aligned_cols=30  Identities=17%  Similarity=0.360  Sum_probs=26.6

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+--.
T Consensus        22 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   51 (218)
T cd03290          22 IRIPTGQLTMIVGQVGCGKSSLLLAILGEM   51 (218)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            468899999999999999999999887543

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=90.92  E-value=0.39  Score=49.47  Aligned_cols=49  Identities=24%  Similarity=0.409  Sum_probs=34.9

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE  735 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~  735 (915)
                      +.+|+-+.|+|++|+|||+|+..|++.+... .--+.|+       .+.++++.++.
T Consensus        44 ~~~~~~l~l~G~~G~GKThLa~ai~~~~~~~-g~~v~f~-------~~~~L~~~l~~   92 (178)
T PF01695_consen   44 IENGENLILYGPPGTGKTHLAVAIANEAIRK-GYSVLFI-------TASDLLDELKQ   92 (178)
T ss_dssp             -SC--EEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEE-------EHHHHHHHHHC
T ss_pred             cccCeEEEEEhhHhHHHHHHHHHHHHHhccC-CcceeEe-------ecCceeccccc
Confidence            3478889999999999999999999876642 2335666       56778888754

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=90.90  E-value=0.17  Score=59.45  Aligned_cols=34  Identities=21%  Similarity=0.333  Sum_probs=29.9

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      -+++-+|+|+.|+|.+|+|||||++-++++..-+
T Consensus       358 ~l~l~~GEkvAIlG~SGsGKSTllqLl~~~~~~~  391 (573)
T COG4987         358 NLTLAQGEKVAILGRSGSGKSTLLQLLAGAWDPQ  391 (573)
T ss_pred             ceeecCCCeEEEECCCCCCHHHHHHHHHhccCCC
Confidence            3578999999999999999999999999876543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=90.90  E-value=0.71  Score=55.64  Aligned_cols=27  Identities=30%  Similarity=0.207  Sum_probs=22.0

Q ss_pred             cCCe-eeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGK-IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr-~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +... .++.|++|+|||+++..+++.+.
T Consensus        36 rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~   63 (546)
T PRK14957         36 KVHHAYLFTGTRGVGKTTLGRLLAKCLN   63 (546)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            3434 57889999999999999998764

>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=90.89  E-value=0.17  Score=53.71  Aligned_cols=30  Identities=23%  Similarity=0.264  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|.|++|+|||||+..|+-..
T Consensus        35 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   64 (226)
T cd03248          35 FTLHPGEVTALVGPSGSGKSTVVALLENFY   64 (226)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCc
Confidence            567899999999999999999999887643

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.

>PRK08727 hypothetical protein; Validated

Probab=90.89  E-value=0.87  Score=48.86  Aligned_cols=37  Identities=16%  Similarity=0.197  Sum_probs=25.7

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEeecc
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIGQ  295 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~iGe  295 (915)
                      +-+.|.|++|+|||+| +.+++++ ...+..++|.-+.+
T Consensus        42 ~~l~l~G~~G~GKThL-~~a~~~~~~~~~~~~~y~~~~~   79 (233)
T PRK08727         42 DWLYLSGPAGTGKTHL-ALALCAAAEQAGRSSAYLPLQA   79 (233)
T ss_pred             CeEEEECCCCCCHHHH-HHHHHHHHHHcCCcEEEEeHHH
Confidence            3488999999999999 6777664 23344456665544

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=90.89  E-value=0.15  Score=54.24  Aligned_cols=32  Identities=19%  Similarity=0.446  Sum_probs=27.8

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      =+.+-+|+.++|.|++|+|||||+..|+....
T Consensus         6 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   37 (230)
T TIGR02770         6 NLSLKRGEVLALVGESGSGKSLTCLAILGLLP   37 (230)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35678999999999999999999999887543

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.

>PRK07261 topology modulation protein; Provisional

Probab=90.87  E-value=0.16  Score=51.81  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=21.7

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|+.|+|++|+|||||+..++...
T Consensus         1 ~ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          1 MKIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             CEEEEEcCCCCCHHHHHHHHHHHh
Confidence            589999999999999999998753

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=90.83  E-value=0.17  Score=54.28  Aligned_cols=33  Identities=27%  Similarity=0.480  Sum_probs=28.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~sl~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         21 DVSLTVNSGEIVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            344678899999999999999999999888654

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=90.79  E-value=0.16  Score=57.96  Aligned_cols=33  Identities=24%  Similarity=0.310  Sum_probs=28.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+--.
T Consensus        20 ~isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl~   52 (353)
T PRK10851         20 DISLDIPSGQMVALLGPSGSGKTTLLRIIAGLE   52 (353)
T ss_pred             EeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            445778899999999999999999999988743

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=90.79  E-value=0.16  Score=54.65  Aligned_cols=32  Identities=19%  Similarity=0.178  Sum_probs=27.4

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        22 vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         22 IDLEVKPGEVVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            33668899999999999999999999887543

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=90.78  E-value=0.22  Score=49.99  Aligned_cols=22  Identities=32%  Similarity=0.465  Sum_probs=17.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.|.|++++|||||+..+++.
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7899999999999999998865

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=90.78  E-value=1.6  Score=44.81  Aligned_cols=82  Identities=18%  Similarity=0.187  Sum_probs=47.4

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRV  759 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~  759 (915)
                      .+|--+.|.|.+|+||||++..+.......  ...++.+   .+..++.   .+...            ..-.+..+...
T Consensus        16 ~~~~~i~i~G~~GsGKstla~~l~~~l~~~--~~~~~~l---~~d~~r~---~l~~~------------~~~~~~~~~~~   75 (184)
T TIGR00455        16 HRGVVIWLTGLSGSGKSTIANALEKKLESK--GYRVYVL---DGDNVRH---GLNKD------------LGFSEEDRKEN   75 (184)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHc--CCcEEEE---CChHHHh---hhccc------------cCCCHHHHHHH
Confidence            467788999999999999999999876532  2222221   1223321   22111            11123344433


Q ss_pred             HHHHHHHHHHHHHCCCcEEEEe
Q psy210          760 ALTGLSIAEEFRNSGKDVLLFI  781 (915)
Q Consensus       760 ~~~a~~~Ae~f~~~g~~Vl~~~  781 (915)
                      ......++..+.++|..|++=.
T Consensus        76 ~~~~~~~~~~~~~~G~~VI~d~   97 (184)
T TIGR00455        76 IRRIGEVAKLFVRNGIIVITSF   97 (184)
T ss_pred             HHHHHHHHHHHHcCCCEEEEec
Confidence            3334557778888897777443

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=90.78  E-value=0.17  Score=55.21  Aligned_cols=33  Identities=21%  Similarity=0.212  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        30 ~isl~i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         30 QLDLHIPAGQFVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            344578899999999999999999999887643

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=90.77  E-value=0.17  Score=52.92  Aligned_cols=32  Identities=31%  Similarity=0.448  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        19 ~~~~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          19 ISLHVKKGEIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhCCc
Confidence            33578899999999999999999999988644

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=90.77  E-value=0.16  Score=53.45  Aligned_cols=32  Identities=34%  Similarity=0.522  Sum_probs=27.5

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        21 is~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          21 LSLNVYKGEIFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34568899999999999999999999888643

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.

>PRK14241 phosphate transporter ATP-binding protein; Provisional

Probab=90.77  E-value=0.16  Score=55.03  Aligned_cols=32  Identities=19%  Similarity=0.199  Sum_probs=27.8

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        23 isl~i~~Ge~~~i~G~nGsGKSTLl~~laGl~   54 (258)
T PRK14241         23 VNLNIEPRSVTAFIGPSGCGKSTVLRTLNRMH   54 (258)
T ss_pred             eeEEEcCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            34678899999999999999999999888644

>KOG0057|consensus

Probab=90.74  E-value=0.24  Score=58.46  Aligned_cols=31  Identities=29%  Similarity=0.484  Sum_probs=28.4

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ++|.||.|++|+|++|+||||++..+-+-..
T Consensus       373 f~I~kGekVaIvG~nGsGKSTilr~LlrF~d  403 (591)
T KOG0057|consen  373 FTIPKGEKVAIVGSNGSGKSTILRLLLRFFD  403 (591)
T ss_pred             EEecCCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4699999999999999999999999998654

>PRK15056 manganese/iron transporter ATP-binding protein; Provisional

Probab=90.73  E-value=0.17  Score=55.53  Aligned_cols=32  Identities=25%  Similarity=0.268  Sum_probs=27.9

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        25 ~vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   56 (272)
T PRK15056         25 DASFTVPGGSIAALVGVNGSGKSTLFKALMGF   56 (272)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            44468899999999999999999999988764

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=90.72  E-value=0.19  Score=53.74  Aligned_cols=42  Identities=14%  Similarity=0.209  Sum_probs=32.8

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      -+.+-||+=.+|.||+|+|||||+..|.--..-....+-|+.
T Consensus        28 ~l~V~~Gei~~iiGgSGsGKStlLr~I~Gll~P~~GeI~i~G   69 (263)
T COG1127          28 DLDVPRGEILAILGGSGSGKSTLLRLILGLLRPDKGEILIDG   69 (263)
T ss_pred             eeeecCCcEEEEECCCCcCHHHHHHHHhccCCCCCCeEEEcC
Confidence            357889999999999999999999988865544334455554

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=90.71  E-value=0.32  Score=51.32  Aligned_cols=91  Identities=15%  Similarity=0.231  Sum_probs=54.9

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh--cCCCeEEEEEe--eccchhhHHHHHHH----HhccCCcceEEEEEecC
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ--KNKNVICIYVC--IGQKISSLINVINK----LKYYNCMDYTVVVAATA  323 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~--~~~~~~~V~~~--iGer~~ev~~~~~~----l~~~~~~~~tvvv~~~a  323 (915)
                      +.+-+|+.+.|+|++|+||||| |..|..-  -+.+- +.+.+  ++.+. ++..+.+.    |++..+..+-++.-|-.
T Consensus        23 l~v~~Gevv~iiGpSGSGKSTl-LRclN~LE~~~~G~-I~i~g~~~~~~~-~~~~~R~~vGmVFQ~fnLFPHlTvleNv~   99 (240)
T COG1126          23 LSVEKGEVVVIIGPSGSGKSTL-LRCLNGLEEPDSGS-ITVDGEDVGDKK-DILKLRRKVGMVFQQFNLFPHLTVLENVT   99 (240)
T ss_pred             eeEcCCCEEEEECCCCCCHHHH-HHHHHCCcCCCCce-EEECCEeccchh-hHHHHHHhcCeecccccccccchHHHHHH
Confidence            4677899999999999999999 7777653  23332 33332  33333 55555543    45555655555555554


Q ss_pred             CCCHHHhhhhhhhhhhhHHHHH
Q psy210          324 ADSAAEQYISPYTGCTIGEYFR  345 (915)
Q Consensus       324 ~~~~~~r~~~~~~a~tiAEy~r  345 (915)
                      -.|.-.+-.....|-..|..+-
T Consensus       100 lap~~v~~~~k~eA~~~A~~lL  121 (240)
T COG1126         100 LAPVKVKKLSKAEAREKALELL  121 (240)
T ss_pred             hhhHHHcCCCHHHHHHHHHHHH
Confidence            5555555555556666664443

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=90.70  E-value=0.17  Score=54.66  Aligned_cols=33  Identities=27%  Similarity=0.365  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        18 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (252)
T TIGR03005        18 GLNFSVAAGEKVALIGPSGSGKSTILRILMTLE   50 (252)
T ss_pred             eeeEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            334678899999999999999999999887643

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=90.70  E-value=0.17  Score=52.80  Aligned_cols=32  Identities=22%  Similarity=0.309  Sum_probs=27.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+..
T Consensus        18 ~is~~i~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          18 GVNLTIKKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             ccceEECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            33457899999999999999999999988765

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.

>PRK13646 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.70  E-value=0.16  Score=56.17  Aligned_cols=32  Identities=19%  Similarity=0.305  Sum_probs=27.9

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      =+.|-+|+.++|+|++|+|||||+..|+....
T Consensus        27 sl~i~~Ge~~~i~G~nGsGKSTLl~~L~Gl~~   58 (286)
T PRK13646         27 NTEFEQGKYYAIVGQTGSGKSTLIQNINALLK   58 (286)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35788999999999999999999999886543

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=90.69  E-value=0.17  Score=57.82  Aligned_cols=31  Identities=26%  Similarity=0.326  Sum_probs=27.4

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        25 isl~i~~Ge~~~llGpsGsGKSTLLr~IaGl   55 (351)
T PRK11432         25 LNLTIKQGTMVTLLGPSGCGKTTVLRLVAGL   55 (351)
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHHCC
Confidence            4567889999999999999999999988753

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=90.69  E-value=3.4  Score=44.93  Aligned_cols=25  Identities=24%  Similarity=0.553  Sum_probs=21.1

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhhc
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      --+++++|.+|+|||+| +.+|.+..
T Consensus        31 ~~~IllvG~tGvGKSSl-iNaLlg~~   55 (249)
T cd01853          31 SLTILVLGKTGVGKSST-INSIFGER   55 (249)
T ss_pred             CeEEEEECCCCCcHHHH-HHHHhCCC
Confidence            34788999999999999 78888753

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=90.69  E-value=0.17  Score=53.77  Aligned_cols=32  Identities=19%  Similarity=0.187  Sum_probs=27.5

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        26 vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (225)
T PRK10247         26 ISFSLRAGEFKLITGPSGCGKSTLLKIVASLI   57 (225)
T ss_pred             cEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            33678899999999999999999999887643

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=90.67  E-value=0.17  Score=54.73  Aligned_cols=33  Identities=24%  Similarity=0.436  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   53 (253)
T TIGR02323        21 DVSFDLYPGEVLGIVGESGSGKSTLLGCLAGRL   53 (253)
T ss_pred             cceEEEeCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            334678899999999999999999999888654

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.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=90.66  E-value=0.17  Score=54.22  Aligned_cols=32  Identities=25%  Similarity=0.490  Sum_probs=27.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|.++||+|..|+|||||++.|+--
T Consensus        45 disf~i~~Ge~vGiiG~NGaGKSTLlkliaGi   76 (249)
T COG1134          45 DISFEIYKGERVGIIGHNGAGKSTLLKLIAGI   76 (249)
T ss_pred             CceEEEeCCCEEEEECCCCCcHHHHHHHHhCc
Confidence            44467999999999999999999999888753

>TIGR01618 phage_P_loop phage nucleotide-binding protein

Probab=90.65  E-value=0.48  Score=50.53  Aligned_cols=21  Identities=29%  Similarity=0.411  Sum_probs=17.8

Q ss_pred             CeeeeccCCCCChhhHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELI  703 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~  703 (915)
                      -.++|.|+||+|||+++..+.
T Consensus        13 ~~~liyG~~G~GKtt~a~~~~   33 (220)
T TIGR01618        13 NMYLIYGKPGTGKTSTIKYLP   33 (220)
T ss_pred             cEEEEECCCCCCHHHHHHhcC
Confidence            358899999999999987664

This model represents an uncharacterized family of proteins from a number of phage of Gram-positive bacteria. This protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near its amino end. The function of this protein is unknown.

>PRK14273 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.64  E-value=0.17  Score=54.71  Aligned_cols=30  Identities=30%  Similarity=0.367  Sum_probs=27.0

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+...
T Consensus        28 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (254)
T PRK14273         28 IKILKNSITALIGPSGCGKSTFLRTLNRMN   57 (254)
T ss_pred             eEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            578899999999999999999999988644

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=90.61  E-value=0.17  Score=54.62  Aligned_cols=29  Identities=28%  Similarity=0.335  Sum_probs=26.4

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +.+-+|+.++|+|++|+|||||+..|+..
T Consensus        27 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         27 LEFEQNQVTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEEeCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            57889999999999999999999988854

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=90.59  E-value=0.18  Score=53.44  Aligned_cols=32  Identities=25%  Similarity=0.327  Sum_probs=27.8

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|.|++|+|||||+..|+.-.
T Consensus        27 vs~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   58 (224)
T TIGR02324        27 VSLTVNAGECVALSGPSGAGKSTLLKSLYANY   58 (224)
T ss_pred             ceEEECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            33678899999999999999999999887643

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.

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=90.56  E-value=0.18  Score=55.25  Aligned_cols=33  Identities=21%  Similarity=0.356  Sum_probs=28.6

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   57 (269)
T PRK11831         25 NISLTVPRGKITAIMGPSGIGKTTLLRLIGGQI   57 (269)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            455788999999999999999999999887643

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=90.56  E-value=0.18  Score=56.28  Aligned_cols=31  Identities=26%  Similarity=0.393  Sum_probs=27.5

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        13 s~~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   43 (302)
T TIGR01188        13 NFKVREGEVFGFLGPNGAGKTTTIRMLTTLL   43 (302)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578999999999999999999999888644

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.

>PRK14262 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.55  E-value=0.18  Score=54.33  Aligned_cols=32  Identities=22%  Similarity=0.358  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        21 ~i~~~i~~Ge~~~i~G~nGsGKSTLl~~i~Gl   52 (250)
T PRK14262         21 NVTMKIFKNQITAIIGPSGCGKTTLLRSINRM   52 (250)
T ss_pred             eeeEeecCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            33467889999999999999999999988853

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=90.55  E-value=0.18  Score=53.88  Aligned_cols=30  Identities=23%  Similarity=0.297  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus         6 ~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   35 (230)
T TIGR01184         6 LTIQQGEFISLIGHSGCGKSTLLNLISGLA   35 (230)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            567899999999999999999999887654

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.

>PRK10908 cell division protein FtsE; Provisional

Probab=90.54  E-value=0.18  Score=53.26  Aligned_cols=31  Identities=19%  Similarity=0.119  Sum_probs=27.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        22 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         22 TFHMRPGEMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578899999999999999999999887543

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.54  E-value=0.18  Score=55.30  Aligned_cols=30  Identities=20%  Similarity=0.287  Sum_probs=26.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        30 l~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   59 (271)
T PRK13632         30 FEINEGEYVAILGHNGSGKSTISKILTGLL   59 (271)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            578899999999999999999999887654

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=90.54  E-value=0.18  Score=53.83  Aligned_cols=33  Identities=15%  Similarity=0.333  Sum_probs=28.9

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        17 ~is~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   49 (232)
T PRK10771         17 RFDLTVERGERVAILGPSGAGKSTLLNLIAGFL   49 (232)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            556778999999999999999999999887643

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=90.51  E-value=0.18  Score=52.45  Aligned_cols=32  Identities=19%  Similarity=0.230  Sum_probs=27.8

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|.|++|+|||||+..|+...
T Consensus        28 ~~~~i~~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          28 VSGKAKPGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             ceEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33678899999999999999999999887644

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.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=90.48  E-value=0.18  Score=52.69  Aligned_cols=34  Identities=24%  Similarity=0.203  Sum_probs=28.9

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |.=+.+-+|+..+|+|++|+|||||+..|+....
T Consensus        19 ~vs~~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~   52 (204)
T PRK13538         19 GLSFTLNAGELVQIEGPNGAGKTSLLRILAGLAR   52 (204)
T ss_pred             cceEEECCCcEEEEECCCCCCHHHHHHHHhCCCC
Confidence            4456788999999999999999999998886543

>PRK13641 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.47  E-value=0.17  Score=56.07  Aligned_cols=33  Identities=21%  Similarity=0.357  Sum_probs=28.3

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        25 ~vsl~i~~Ge~~~iiG~NGaGKSTLl~~l~Gl~   57 (287)
T PRK13641         25 NISFELEEGSFVALVGHTGSGKSTLMQHFNALL   57 (287)
T ss_pred             eeEEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            334678899999999999999999999887644

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=90.46  E-value=0.2  Score=52.33  Aligned_cols=32  Identities=31%  Similarity=0.566  Sum_probs=27.4

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        27 isl~i~~G~~~~i~G~nGsGKSTLl~~l~Gl~   58 (207)
T cd03369          27 VSFKVKAGEKIGIVGRTGAGKSTLILALFRFL   58 (207)
T ss_pred             ceEEECCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            33567899999999999999999999887643

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.

>PRK14248 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.46  E-value=0.18  Score=55.10  Aligned_cols=30  Identities=23%  Similarity=0.276  Sum_probs=26.7

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        41 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   70 (268)
T PRK14248         41 SMDIEKHAVTALIGPSGCGKSTFLRSINRM   70 (268)
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            356889999999999999999999988763

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=90.45  E-value=0.19  Score=54.59  Aligned_cols=32  Identities=19%  Similarity=0.309  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        23 vs~~i~~Ge~~~I~G~NGsGKSTLl~~i~Gl~   54 (251)
T PRK09544         23 VSLELKPGKILTLLGPNGAGKSTLVRVVLGLV   54 (251)
T ss_pred             EEEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            33678899999999999999999999887643

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=90.45  E-value=0.18  Score=53.56  Aligned_cols=29  Identities=34%  Similarity=0.504  Sum_probs=25.8

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+-+|+.++|+|++|+|||||+..++...
T Consensus         2 ~i~~Ge~~~l~G~nGsGKSTLl~~l~G~~   30 (223)
T TIGR03771         2 SADKGELLGLLGPNGAGKTTLLRAILGLI   30 (223)
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            46789999999999999999999888654

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.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=90.43  E-value=0.18  Score=57.69  Aligned_cols=32  Identities=22%  Similarity=0.215  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+--
T Consensus        22 ~vsl~i~~Ge~~~llG~sGsGKSTLLr~iaGl   53 (356)
T PRK11650         22 GIDLDVADGEFIVLVGPSGCGKSTLLRMVAGL   53 (356)
T ss_pred             eeeEEEcCCCEEEEECCCCCcHHHHHHHHHCC
Confidence            35578899999999999999999999988864

>PRK14237 phosphate transporter ATP-binding protein; Provisional

Probab=90.42  E-value=0.19  Score=54.95  Aligned_cols=32  Identities=28%  Similarity=0.324  Sum_probs=27.8

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        39 vsl~i~~Ge~~~I~G~nGsGKSTLl~~l~Gl~   70 (267)
T PRK14237         39 IDMQFEKNKITALIGPSGSGKSTYLRSLNRMN   70 (267)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            33678899999999999999999999887643

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=90.41  E-value=0.18  Score=54.76  Aligned_cols=30  Identities=20%  Similarity=0.401  Sum_probs=26.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+...
T Consensus        23 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   52 (258)
T PRK13548         23 LTLRPGEVVAILGPNGAGKSTLLRALSGEL   52 (258)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            578899999999999999999999888643

>CHL00181 cbbX CbbX; Provisional

Probab=90.41  E-value=2.6  Score=46.81  Aligned_cols=140  Identities=13%  Similarity=0.121  Sum_probs=68.1

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcC---CcEEEEE--------EecCCCchHHHHHHHhhhcCccccEEEEEE
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH---KGCSVFI--------GVGERSREGNDFYHEMKESNVLDKVSLIYG  747 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~---~~~~v~~--------~iGer~~ev~e~~~~~~~~~~~~~~~vv~~  747 (915)
                      ..+|-.+.+.|+||||||+++..+++......   .+-.+.+        .+|+....+.++++..      ...|+|.-
T Consensus        56 ~~~~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~~l~~~~~g~~~~~~~~~l~~a------~ggVLfID  129 (287)
T CHL00181         56 SNPGLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRDDLVGQYIGHTAPKTKEVLKKA------MGGVLFID  129 (287)
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHHHHHHHHhccchHHHHHHHHHc------cCCEEEEE
Confidence            33466788999999999999999988653210   1112222        3454443333333321      24567665


Q ss_pred             cCCCC--h-HhHHHHHHHHHHHHHHHHHCCCcEEEEecchh-hHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhc
Q psy210          748 QMNEP--S-GNRLRVALTGLSIAEEFRNSGKDVLLFIDNIY-RFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS  823 (915)
Q Consensus       748 t~d~~--~-~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~t-r~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag  823 (915)
                      -.+.-  + ..+-......-++-+.+-+...++++|+-.-. +.-..++---....+.+..--||++-..++..+.++..
T Consensus       130 E~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l  209 (287)
T CHL00181        130 EAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIML  209 (287)
T ss_pred             ccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHH
Confidence            54431  0 00001112222222333233345666554322 21111110122334555555677777777777777665


Q ss_pred             C
Q psy210          824 S  824 (915)
Q Consensus       824 ~  824 (915)
                      +
T Consensus       210 ~  210 (287)
T CHL00181        210 E  210 (287)
T ss_pred             H
Confidence            3

>PRK06649 V-type ATP synthase subunit K; Validated

Probab=90.40  E-value=0.33  Score=47.90  Aligned_cols=42  Identities=17%  Similarity=0.110  Sum_probs=38.3

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccc
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENS   44 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~   44 (915)
                      ++..+++|+.+|++.+.+|+.||.++...++++++|||.-.+
T Consensus        78 g~~~l~aGL~vGl~gl~Sa~~qG~v~aagi~~~ak~p~~f~~  119 (143)
T PRK06649         78 PWLLLGAGIGGGLAIAASAFAQGKAAAGACDALAETGKGFAN  119 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            456789999999999999999999999999999999987655

>PRK14239 phosphate transporter ATP-binding protein; Provisional

Probab=90.39  E-value=0.19  Score=54.26  Aligned_cols=32  Identities=22%  Similarity=0.320  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+..
T Consensus        23 ~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   54 (252)
T PRK14239         23 SVSLDFYPNEITALIGPSGSGKSTLLRSINRM   54 (252)
T ss_pred             eeeEEEcCCcEEEEECCCCCCHHHHHHHHhcc
Confidence            33467889999999999999999999988753

>PRK14245 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.38  E-value=0.19  Score=54.23  Aligned_cols=31  Identities=16%  Similarity=0.282  Sum_probs=27.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.
T Consensus        21 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~i~G   51 (250)
T PRK14245         21 GISMEIEEKSVVAFIGPSGCGKSTFLRLFNR   51 (250)
T ss_pred             eeeEEEeCCCEEEEECCCCCCHHHHHHHHhh
Confidence            3446788999999999999999999999874

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=90.38  E-value=0.18  Score=55.04  Aligned_cols=32  Identities=25%  Similarity=0.355  Sum_probs=27.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        26 isl~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   57 (265)
T PRK10253         26 LTVEIPDGHFTAIIGPNGCGKSTLLRTLSRLM   57 (265)
T ss_pred             cceEECCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            33678899999999999999999999887643

>PRK15093 antimicrobial peptide ABC transporter ATP-binding protein; Provisional

Probab=90.34  E-value=0.19  Score=56.86  Aligned_cols=37  Identities=24%  Similarity=0.411  Sum_probs=30.8

Q ss_pred             ceeeecc-cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          670 IKVIDLL-CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       670 ir~ID~l-~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+++|.+ +.|.+|+.++|+|++|+|||||+..|+.-.
T Consensus        20 ~~~l~~vsl~i~~Ge~~~ivG~sGsGKSTLl~~i~Gl~   57 (330)
T PRK15093         20 VKAVDRVSMTLTEGEIRGLVGESGSGKSLIAKAICGVT   57 (330)
T ss_pred             EEEEeeeEEEECCCCEEEEECCCCCCHHHHHHHHHccC
Confidence            3455555 489999999999999999999999887643

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=90.33  E-value=0.19  Score=57.44  Aligned_cols=32  Identities=28%  Similarity=0.350  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-.
T Consensus        22 ~vs~~i~~Ge~~~l~GpsGsGKSTLLr~iaGl   53 (353)
T TIGR03265        22 DISLSVKKGEFVCLLGPSGCGKTTLLRIIAGL   53 (353)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHCC
Confidence            35567889999999999999999999998864

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.

>PRK13645 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.32  E-value=0.19  Score=55.66  Aligned_cols=31  Identities=23%  Similarity=0.193  Sum_probs=27.4

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+...
T Consensus        31 s~~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~   61 (289)
T PRK13645         31 SLTFKKNKVTCVIGTTGSGKSTMIQLTNGLI   61 (289)
T ss_pred             EEEEeCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            3678899999999999999999999888644

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.31  E-value=0.19  Score=54.89  Aligned_cols=33  Identities=24%  Similarity=0.242  Sum_probs=28.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        27 ~isl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   59 (269)
T PRK13648         27 DVSFNIPKGQWTSIVGHNGSGKSTIAKLMIGIE   59 (269)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            444678899999999999999999999887644

>PRK14243 phosphate transporter ATP-binding protein; Provisional

Probab=90.29  E-value=0.19  Score=54.78  Aligned_cols=32  Identities=19%  Similarity=0.245  Sum_probs=27.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        28 ~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   59 (264)
T PRK14243         28 NVWLDIPKNQITAFIGPSGCGKSTILRCFNRL   59 (264)
T ss_pred             cceEEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            34467889999999999999999999988853

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=90.28  E-value=0.17  Score=52.83  Aligned_cols=33  Identities=18%  Similarity=0.239  Sum_probs=28.0

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        25 ~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   57 (202)
T cd03233          25 DFSGVVKPGEMVLVLGRPGSGCSTLLKALANRT   57 (202)
T ss_pred             eEEEEECCCcEEEEECCCCCCHHHHHHHhcccC
Confidence            334578899999999999999999999888654

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.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=90.28  E-value=0.23  Score=56.63  Aligned_cols=33  Identities=21%  Similarity=0.322  Sum_probs=29.8

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +|.=+.+-+|+.++|+|++|+|||||+..|+-.
T Consensus        15 ~~vsl~i~~Ge~~~l~G~nGsGKSTLl~~iaGl   47 (352)
T PRK11144         15 LTVNLTLPAQGITAIFGRSGAGKTSLINAISGL   47 (352)
T ss_pred             EEEEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            477788999999999999999999999988864

>PRK14266 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.26  E-value=0.2  Score=54.01  Aligned_cols=33  Identities=24%  Similarity=0.283  Sum_probs=28.2

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      -|.=+.+.+|+.++|+|++|+|||||+..|+..
T Consensus        20 ~~~s~~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   52 (250)
T PRK14266         20 KNVNLDIPKNSVTALIGPSGCGKSTFIRTLNRM   52 (250)
T ss_pred             eeeEEEEcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            344467889999999999999999999988753

>PRK14269 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.25  E-value=0.2  Score=53.99  Aligned_cols=32  Identities=22%  Similarity=0.293  Sum_probs=27.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+.-
T Consensus        20 ~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (246)
T PRK14269         20 DINMQIEQNKITALIGASGCGKSTFLRCFNRM   51 (246)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            44467889999999999999999999988864

>PF13245 AAA_19: Part of AAA domain

Probab=90.25  E-value=0.37  Score=42.51  Aligned_cols=26  Identities=27%  Similarity=0.433  Sum_probs=19.9

Q ss_pred             CCeee-eccCCCCChhhHHHHHHHHHH
Q psy210          682 GGKIG-LFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       682 GQr~~-I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |+++. |-||||+|||+++...+....
T Consensus         9 ~~~~~vv~g~pGtGKT~~~~~~i~~l~   35 (76)
T PF13245_consen    9 GSPLFVVQGPPGTGKTTTLAARIAELL   35 (76)
T ss_pred             hCCeEEEECCCCCCHHHHHHHHHHHHH
Confidence            44444 599999999988888777665

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.25  E-value=0.18  Score=55.20  Aligned_cols=32  Identities=31%  Similarity=0.400  Sum_probs=27.4

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        20 isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   51 (271)
T PRK13638         20 LNLDFSLSPVTGLVGANGCGKSTLFMNLSGLL   51 (271)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHcCCC
Confidence            33678899999999999999999999887543

>PRK14238 phosphate transporter ATP-binding protein; Provisional

Probab=90.22  E-value=0.2  Score=54.90  Aligned_cols=32  Identities=19%  Similarity=0.313  Sum_probs=27.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        43 vsl~i~~Ge~~~I~G~nGsGKSTLl~~i~Gl~   74 (271)
T PRK14238         43 INLDIHENEVTAIIGPSGCGKSTYIKTLNRMV   74 (271)
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            33578899999999999999999999888654

>PRK14256 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.22  E-value=0.2  Score=54.18  Aligned_cols=30  Identities=20%  Similarity=0.340  Sum_probs=26.8

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        25 l~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   54 (252)
T PRK14256         25 MDFPENSVTAIIGPSGCGKSTVLRSINRMH   54 (252)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            478899999999999999999999887643

>PRK13649 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=90.18  E-value=0.19  Score=55.19  Aligned_cols=31  Identities=23%  Similarity=0.190  Sum_probs=27.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        27 s~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   57 (280)
T PRK13649         27 NLTIEDGSYTAFIGHTGSGKSTIMQLLNGLH   57 (280)
T ss_pred             EEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3578899999999999999999999887643

>PRK00889 adenylylsulfate kinase; Provisional

Probab=90.17  E-value=1.7  Score=44.02  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=24.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +|.-+.|.|.+|+||||++..++.....
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5778999999999999999999987754

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=90.16  E-value=3  Score=48.35  Aligned_cols=39  Identities=28%  Similarity=0.423  Sum_probs=28.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEec
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVG  720 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iG  720 (915)
                      ++.+++++|+.|+||||++..++.........+. ++.++
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVg-lI~aD  278 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVG-FITTD  278 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEE-EEecC
Confidence            3578999999999999999999987764322343 34343

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=90.16  E-value=0.2  Score=53.39  Aligned_cols=35  Identities=20%  Similarity=0.304  Sum_probs=28.4

Q ss_pred             ceee-ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          670 IKVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       670 ir~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +.++ |.=+.+-+|.-+.|.||+|+||||||..+.-
T Consensus        18 ~~~L~~v~l~i~~Ge~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          18 VEALKDVNLEIEAGEFVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             eEecccceEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3444 4456899999999999999999999976653

>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=90.16  E-value=0.2  Score=53.73  Aligned_cols=31  Identities=29%  Similarity=0.419  Sum_probs=27.3

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+...
T Consensus        41 s~~i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~   71 (236)
T cd03267          41 SFTIEKGEIVGFIGPNGAGKTTTLKILSGLL   71 (236)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhCCc
Confidence            3578899999999999999999999988644

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.

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=90.13  E-value=0.2  Score=53.92  Aligned_cols=33  Identities=24%  Similarity=0.279  Sum_probs=28.0

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        19 ~vs~~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~   51 (247)
T TIGR00972        19 NINLDIPKNQVTALIGPSGCGKSTLLRSLNRMN   51 (247)
T ss_pred             ceeEEECCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            334678899999999999999999999887544

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.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=90.13  E-value=0.21  Score=50.92  Aligned_cols=26  Identities=23%  Similarity=0.446  Sum_probs=23.0

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELI  703 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~  703 (915)
                      -+-+|++++|+|++|+|||||+.-++
T Consensus        32 ~v~~Ge~vaiVG~SGSGKSTLl~vlA   57 (228)
T COG4181          32 VVKRGETVAIVGPSGSGKSTLLAVLA   57 (228)
T ss_pred             EecCCceEEEEcCCCCcHHhHHHHHh
Confidence            37789999999999999999997555

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=90.12  E-value=2.5  Score=46.88  Aligned_cols=137  Identities=12%  Similarity=0.083  Sum_probs=66.4

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcC---CcEEEEE--------EecCCCchHHHHHHHhhhcCccccEEEEEEcCC
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEH---KGCSVFI--------GVGERSREGNDFYHEMKESNVLDKVSLIYGQMN  750 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~---~~~~v~~--------~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d  750 (915)
                      |--+.+.|+||||||+++..+++.+....   .+-.+++        ++|+....+.++++..      ...++|.--.+
T Consensus        58 ~~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~~~l~~~~~g~~~~~~~~~~~~a------~~gvL~iDEi~  131 (284)
T TIGR02880        58 TLHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEILKRA------MGGVLFIDEAY  131 (284)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecHHHHhHhhcccchHHHHHHHHHc------cCcEEEEechh
Confidence            44588999999999999988887664311   1112222        2344333333332221      23566654333


Q ss_pred             CC--h-HhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhh-hhhcCCCCCCCCCcchhhHHHHHHHHHhcC
Q psy210          751 EP--S-GNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEV-SAMLGRTPSAVGYQPTLAEEMGKLQERISS  824 (915)
Q Consensus       751 ~~--~-~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~rei-s~~~ge~p~~~gyp~~l~~~l~~l~ERag~  824 (915)
                      .=  + ..+-......-.+.+.+-+...++.+|+-.-+.--+.+..+ -....+.+..--||+.-..++..|..+.-+
T Consensus       132 ~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~  209 (284)
T TIGR02880       132 YLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLK  209 (284)
T ss_pred             hhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHH
Confidence            10  0 00111112222334444444567777665443211222111 122334555555666667777777776543

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>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=90.11  E-value=0.19  Score=53.57  Aligned_cols=33  Identities=21%  Similarity=0.225  Sum_probs=28.3

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .=+.+.+|+.++|.|++|+|||||+..|+....
T Consensus        19 i~~~i~~Ge~~~i~G~nGsGKSTLl~~l~g~~~   51 (232)
T cd03300          19 VSLDIKEGEFFTLLGPSGCGKTTLLRLIAGFET   51 (232)
T ss_pred             ceEEECCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            336788999999999999999999999886543

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.

>PRK14244 phosphate ABC transporter ATP-binding protein; Provisional

Probab=90.11  E-value=0.21  Score=53.96  Aligned_cols=33  Identities=21%  Similarity=0.242  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-..
T Consensus        23 ~is~~i~~Ge~~~I~G~nGsGKSTLl~~i~G~~   55 (251)
T PRK14244         23 DINLDIYKREVTAFIGPSGCGKSTFLRCFNRMN   55 (251)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            334578999999999999999999999887643

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=90.10  E-value=0.2  Score=55.93  Aligned_cols=31  Identities=29%  Similarity=0.425  Sum_probs=27.4

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|.|++|+|||||+..|+-..
T Consensus        24 sl~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~   54 (303)
T TIGR01288        24 SFTIARGECFGLLGPNGAGKSTIARMLLGMI   54 (303)
T ss_pred             eEEEcCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            3678899999999999999999999887643

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=90.09  E-value=0.21  Score=50.65  Aligned_cols=30  Identities=27%  Similarity=0.432  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+..+|+|++|+|||||+..|+-..
T Consensus        23 ~~i~~G~~~~l~G~nGsGKstLl~~i~G~~   52 (171)
T cd03228          23 LTIKPGEKVAIVGPSGSGKSTLLKLLLRLY   52 (171)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHHcCC
Confidence            568899999999999999999999887643

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.

>PRK08084 DNA replication initiation factor; Provisional

Probab=90.08  E-value=1  Score=48.42  Aligned_cols=69  Identities=16%  Similarity=0.276  Sum_probs=0.0

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEE---------------------EEEecCCCc---------hHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSV---------------------FIGVGERSR---------EGNDFY  730 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v---------------------~~~iGer~~---------ev~e~~  730 (915)
                      .+.-+.|+||+|+|||+|+..+++...++...+..                     +++|+|=..         ++-+++
T Consensus        44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~~~~~~~~~~~~~dlliiDdi~~~~~~~~~~~~lf~l~  123 (235)
T PRK08084         44 HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAWFVPEVLEGMEQLSLVCIDNIECIAGDELWEMAIFDLY  123 (235)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhhhhHHHHHHhhhCCEEEEeChhhhcCCHHHHHHHHHHH


Q ss_pred             HHhhhcCccccEEEEEEcCCCC
Q psy210          731 HEMKESNVLDKVSLIYGQMNEP  752 (915)
Q Consensus       731 ~~~~~~~~~~~~~vv~~t~d~~  752 (915)
                      +.+.+.+   +..++.++...|
T Consensus       124 n~~~e~g---~~~li~ts~~~p  142 (235)
T PRK08084        124 NRILESG---RTRLLITGDRPP  142 (235)
T ss_pred             HHHHHcC---CCeEEEeCCCCh

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=90.07  E-value=0.2  Score=53.60  Aligned_cols=30  Identities=20%  Similarity=0.269  Sum_probs=26.8

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|+.++|+|++|+|||||+..|+...
T Consensus        21 ~~i~~Ge~~~l~G~nGsGKSTLl~~i~G~~   50 (237)
T TIGR00968        21 LEVPTGSLVALLGPSGSGKSTLLRIIAGLE   50 (237)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            468899999999999999999999888643

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=90.04  E-value=0.2  Score=54.64  Aligned_cols=33  Identities=24%  Similarity=0.388  Sum_probs=28.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|.|++|+|||||+..|+.-.
T Consensus        29 ~isl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   61 (265)
T TIGR02769        29 NVSLSIEEGETVGLLGRSGCGKSTLARLLLGLE   61 (265)
T ss_pred             CceeEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            444678899999999999999999999887643

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.

>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=90.04  E-value=2.7  Score=42.45  Aligned_cols=46  Identities=24%  Similarity=0.265  Sum_probs=28.8

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHH
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVIN  305 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~  305 (915)
                      +++.|++|+|||+++..........+.+++++-+.-+..+..+.+.
T Consensus         3 ~~~~G~~G~GKTt~~~~la~~~~~~g~~v~~i~~D~~~~~~~~~l~   48 (173)
T cd03115           3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLR   48 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEcCCCChHHHHHHH
Confidence            5688999999999964444333333445566666655544444333

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.

>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=90.03  E-value=0.27  Score=53.44  Aligned_cols=61  Identities=20%  Similarity=0.345  Sum_probs=44.3

Q ss_pred             ccccceeeeccc-cccccceeeeecCCCCChhHHHHHHHHhhcC-CCeEEEEEeeccchhhHH
Q psy210          241 LLTGIKSIDSMI-PIGKGQRELIIGDRQTGKTTIAIDTIINQKN-KNVICIYVCIGQKISSLI  301 (915)
Q Consensus       241 l~TGi~aiD~l~-pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~-~~~~~V~~~iGer~~ev~  301 (915)
                      +.||++.+|.++ -+.+|+=..|-|.+|+|||+++++...+... .+..++|.......+++.
T Consensus         2 i~TG~~~LD~~lgG~~~g~L~vi~a~pg~GKT~~~l~ia~~~a~~~~~~vly~SlEm~~~~l~   64 (259)
T PF03796_consen    2 IPTGFPALDRLLGGLRPGELTVIAARPGVGKTAFALQIALNAALNGGYPVLYFSLEMSEEELA   64 (259)
T ss_dssp             B-SSTHHHHHHHSSB-TT-EEEEEESTTSSHHHHHHHHHHHHHHTTSSEEEEEESSS-HHHHH
T ss_pred             CCCChHHHHHHhcCCCcCcEEEEEecccCCchHHHHHHHHHHHHhcCCeEEEEcCCCCHHHHH
Confidence            569999999987 4667888999999999999999888777543 235567777776665543

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 ....

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=90.03  E-value=0.21  Score=53.21  Aligned_cols=33  Identities=27%  Similarity=0.421  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|.|++|+|||||+..|+-..
T Consensus        19 ~i~~~i~~Ge~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          19 DVSFTIPAGKKVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            444578899999999999999999999887643

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.

>PRK10744 pstB phosphate transporter ATP-binding protein; Provisional

Probab=90.02  E-value=0.21  Score=54.36  Aligned_cols=31  Identities=19%  Similarity=0.232  Sum_probs=27.2

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+-..
T Consensus        33 sl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   63 (260)
T PRK10744         33 NLDIAKNQVTAFIGPSGCGKSTLLRTFNRMY   63 (260)
T ss_pred             eEEEcCCCEEEEECCCCCCHHHHHHHHhccc
Confidence            3668899999999999999999999887643

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=90.02  E-value=0.34  Score=52.57  Aligned_cols=44  Identities=30%  Similarity=0.409  Sum_probs=31.0

Q ss_pred             ecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          674 DLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       674 D~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      +.+.| .|+..++||.|+||+|||||...+++...+....|-|++
T Consensus        20 ~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlA   64 (266)
T PF03308_consen   20 KRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLA   64 (266)
T ss_dssp             HHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             HHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEE
Confidence            33343 578889999999999999999999998776433455543

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PRK14261 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.99  E-value=0.21  Score=53.95  Aligned_cols=29  Identities=24%  Similarity=0.295  Sum_probs=26.4

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      =+.+.+|+.++|+|++|+|||||+..|+.
T Consensus        26 s~~i~~Ge~~~i~G~nGsGKSTLl~~l~G   54 (253)
T PRK14261         26 TISIPKNRVTALIGPSGCGKSTLLRCFNR   54 (253)
T ss_pred             EEEECCCcEEEEECCCCCCHHHHHHHHhc
Confidence            35788999999999999999999999875

>PRK13643 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=89.98  E-value=0.2  Score=55.43  Aligned_cols=33  Identities=27%  Similarity=0.349  Sum_probs=28.6

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.|.+|+.++|.|++|+|||||+..|+-..
T Consensus        24 ~vsl~i~~Ge~v~i~G~nGsGKSTLl~~l~Gl~   56 (288)
T PRK13643         24 DIDLEVKKGSYTALIGHTGSGKSTLLQHLNGLL   56 (288)
T ss_pred             eeEEEEcCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            555678999999999999999999999887543

>PRK14272 phosphate ABC transporter ATP-binding protein; Provisional

Probab=89.96  E-value=0.21  Score=53.86  Aligned_cols=30  Identities=27%  Similarity=0.322  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+...
T Consensus        25 ~~i~~Ge~~~i~G~nGsGKSTLl~~i~G~~   54 (252)
T PRK14272         25 LDVQRGTVNALIGPSGCGKTTFLRAINRMH   54 (252)
T ss_pred             EEEcCCCEEEEECCCCCCHHHHHHHHhccC
Confidence            568899999999999999999999887643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	915
3oaa_D	459	Structure Of The E.Coli F1-Atp Synthase Inhibited B		1e-134
3oaa_A	513	Structure Of The E.Coli F1-Atp Synthase Inhibited B		1e-129
3oaa_A	513	Structure Of The E.Coli F1-Atp Synthase Inhibited B		4e-18
2qe7_A	502	Crystal Structure Of The F1-Atpase From The Thermoa		1e-121
2qe7_A	502	Crystal Structure Of The F1-Atpase From The Thermoa		7e-21
2qe7_D	462	Crystal Structure Of The F1-Atpase From The Thermoa		1e-117
2xok_D	511	Refined Structure Of Yeast F1c10 Atpase Complex To		1e-117
4b2q_D	470	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		1e-117
3fks_D	484	Yeast F1 Atpase In The Absence Of Bound Nucleotides		1e-117
2hld_D	478	Crystal Structure Of Yeast Mitochondrial F1-Atpase		1e-117
4b2q_E	473	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		1e-117
3oeh_D	484	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		1e-116
1mab_B	479	Rat Liver F1-Atpase Length = 479		1e-115
2r9v_A	515	Crystal Structure Of Atp Synthase Subunit Alpha (Tm		1e-115
2r9v_A	515	Crystal Structure Of Atp Synthase Subunit Alpha (Tm		6e-18
2w6e_D	528	Low Resolution Structures Of Bovine Mitochondrial F		1e-114
1nbm_D	480	The Structure Of Bovine F1-Atpase Covalently Inhibi		1e-114
1cow_D	482	Bovine Mitochondrial F1-Atpase Complexed With Aurov		1e-114
4asu_D	480	F1-Atpase In Which All Three Catalytic Sites Contai		1e-114
2xnd_D	467	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		1e-114
1sky_E	473	Crystal Structure Of The Nucleotide Free Alpha3beta		1e-114
1nbm_E	480	The Structure Of Bovine F1-Atpase Covalently Inhibi		1e-113
2w6e_A	553	Low Resolution Structures Of Bovine Mitochondrial F		1e-111
2w6e_A	553	Low Resolution Structures Of Bovine Mitochondrial F		7e-20
2jiz_A	510	The Structure Of F1-Atpase Inhibited By Resveratrol		1e-111
2jiz_A	510	The Structure Of F1-Atpase Inhibited By Resveratrol		6e-20
1sky_B	502	Crystal Structure Of The Nucleotide Free Alpha3beta		1e-111
1sky_B	502	Crystal Structure Of The Nucleotide Free Alpha3beta		2e-20
1cow_A	510	Bovine Mitochondrial F1-Atpase Complexed With Aurov		1e-111
1cow_A	510	Bovine Mitochondrial F1-Atpase Complexed With Aurov		7e-20
1bmf_A	510	Bovine Mitochondrial F1-Atpase Length = 510		1e-111
1bmf_A	510	Bovine Mitochondrial F1-Atpase Length = 510		6e-20
2xnd_A	492	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		1e-111
2xnd_A	492	Crystal Structure Of Bovine F1-C8 Sub-Complex Of At		5e-20
2f43_A	510	Rat Liver F1-atpase Length = 510		1e-111
2f43_A	510	Rat Liver F1-atpase Length = 510		4e-20
1fx0_A	507	Crystal Structure Of The Chloroplast F1-Atpase From		1e-111
1fx0_A	507	Crystal Structure Of The Chloroplast F1-Atpase From		3e-16
1mab_A	510	Rat Liver F1-Atpase Length = 510		1e-111
1mab_A	510	Rat Liver F1-Atpase Length = 510		4e-20
2xok_A	545	Refined Structure Of Yeast F1c10 Atpase Complex To		1e-109
2xok_A	545	Refined Structure Of Yeast F1c10 Atpase Complex To		9e-21
3ofn_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		1e-109
3ofn_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		7e-21
2hld_A	510	Crystal Structure Of Yeast Mitochondrial F1-Atpase		1e-109
2hld_A	510	Crystal Structure Of Yeast Mitochondrial F1-Atpase		7e-21
4b2q_B	486	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		1e-109
4b2q_B	486	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		5e-21
4b2q_A	485	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		1e-109
4b2q_A	485	Model Of The Yeast F1fo-Atp Synthase Dimer Based On		5e-21
3oee_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		1e-108
3oee_A	510	Structure Of Four Mutant Forms Of Yeast F1 Atpase:		6e-21
1ohh_B	487	Bovine Mitochondrial F1-Atpase Complexed With The I		1e-106
1ohh_B	487	Bovine Mitochondrial F1-Atpase Complexed With The I		3e-20
1fx0_B	498	Crystal Structure Of The Chloroplast F1-Atpase From		1e-105
3ces_A	651	Crystal Structure Of E.Coli Mnmg (Gida), A Highly-C		6e-35
3cp2_A	649	Crystal Structure Of Gida From E. Coli Length = 649		6e-35
3g05_A	576	Crystal Structure Of N-Terminal Domain (2-550) Of E		8e-35
3cp8_A	641	Crystal Structure Of Gida From Chlorobium Tepidum L		5e-31
2zxh_A	637	Structure Of Aquifex Aeolicus Gida In The Form I Cr		3e-29
2dpy_A	438	Crystal Structure Of The Flagellar Type Iii Atpase		2e-24
2obl_A	347	Structural And Biochemical Analysis Of A Prototypic		3e-24
3ssa_A	460	Crystal Structure Of Subunit B Mutant N157t Of The		2e-18
3vr6_A	600	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		5e-18
3vr6_A	600	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		4e-14
3tiv_A	460	Crystal Structure Of Subunit B Mutant N157a Of The		5e-18
3tgw_A	460	Crystal Structure Of Subunit B Mutant H156a Of The		6e-18
2rkw_A	469	Intermediate Position Of Atp On Its Trail To The Bi		7e-18
2c61_A	469	Crystal Structure Of The Non-Catalytic B Subunit Of		8e-18
3vr6_D	465	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		8e-18
3vr6_D	465	Crystal Structure Of Amp-pnp Bound Enterococcus Hir		6e-16
3gqb_B	464	Crystal Structure Of The A3b3 Complex From V-atpase		1e-17
3a5c_D	478	Inter-Subunit Interaction And Quaternary Rearrangem		2e-17
3a5c_A	578	Inter-Subunit Interaction And Quaternary Rearrangem		2e-17
3gqb_A	578	Crystal Structure Of The A3b3 Complex From V-atpase		1e-16
3vr2_D	465	Crystal Structure Of Nucleotide-free A3b3 Complex F		2e-16
3vr2_D	465	Crystal Structure Of Nucleotide-free A3b3 Complex F		8e-13
3qg1_A	588	Crystal Structure Of P-Loop G239a Mutant Of Subunit		2e-16
3mfy_A	588	Structural Characterization Of The Subunit A Mutant		2e-16
3sdz_A	588	Structural Characterization Of The Subunit A Mutant		2e-16
3m4y_A	588	Structural Characterization Of The Subunit A Mutant		2e-16
3qjy_A	588	Crystal Structure Of P-Loop G234a Mutant Of Subunit		3e-16
3qia_A	588	Crystal Structure Of P-Loop G237a Mutant Of Subunit		3e-16
1vdz_A	588	Crystal Structure Of A-Type Atpase Catalytic Subuni		3e-16
3nd8_A	588	Structural Characterization For The Nucleotide Bind		3e-16
3ikj_A	588	Structural Characterization For The Nucleotide Bind		3e-16
3i4l_A	588	Structural Characterization For The Nucleotide Bind		3e-16
3se0_A	588	Structural Characterization Of The Subunit A Mutant		3e-16
3nd9_A	588	Structural Characterization For The Nucleotide Bind		1e-15
3vr2_A	600	Crystal Structure Of Nucleotide-free A3b3 Complex F		2e-15
3vr2_A	600	Crystal Structure Of Nucleotide-free A3b3 Complex F		3e-14
3g5s_A	443	Crystal Structure Of Thermus Thermophilus Trmfo In		3e-08
3g5q_A	443	Crystal Structure Of Thermus Thermophilus Trmfo Len		7e-08

>pdb|3OAA|D Chain D, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 459

Iteration: 1
 Score =  476 bits (1225), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 224/331 (67%), Positives = 267/331 (80%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           VQQQ+G  IVRTIA G+++G++R   V D   PI  PVG+ TLGRI+NVLG+P+D KGEI
Sbjct: 42  VQQQLGGGIVRTIAMGSSDGLRRGLDVKDLEHPIEVPVGEATLGRIMNVLGEPVDMKGEI 101
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
             +++  IH   P +     +  +LETGIKVIDL+CPF                TVNMME
Sbjct: 102 GEEERWAIHRAAPSYEELSNSQELLETGIKVIDLMCPFAKGGKVGLFGGAGVGKTVNMME 161
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVAL 761
           LIRNIAIEH G SVF GVGER+REGNDFYHEM +SNV+DKVSL+YGQMNEP GNRLRVAL
Sbjct: 162 LIRNIAIEHSGYSVFAGVGERTREGNDFYHEMTDSNVIDKVSLVYGQMNEPPGNRLRVAL 221
Query: 762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER 821
           TGL++AE+FR+ G+DVLLF+DNIYR+TLAGTEVSA+LGR PSAVGYQPTLAEEMG LQER
Sbjct: 222 TGLTMAEKFRDEGRDVLLFVDNIYRYTLAGTEVSALLGRMPSAVGYQPTLAEEMGVLQER 281
Query: 822 ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS 881
           I+STK G+ITSVQA+YVPADDLTDPSP+TTF HLD+T+VLSRQIA LGIYPA+DPL+S S
Sbjct: 282 ITSTKTGSITSVQAVYVPADDLTDPSPATTFAHLDATVVLSRQIASLGIYPAVDPLDSTS 341
Query: 882 KQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +QLDP +VG+EHY  A  V+  LQ+Y+ELKD
Sbjct: 342 RQLDPLVVGQEHYDTARGVQSILQRYQELKD 372

>pdb|3OAA|A Chain A, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 513

Iteration: 1
 Score =  460 bits (1184), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 219/402 (54%), Positives = 286/402 (71%), Gaps = 2/402 (0%)
Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AV++    +L +G K  CT +I E+PVG  LLGR+VN+ G  ID K          VE I
Sbjct: 73  AVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFSAVEAI 132
Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG+++R+SV++P+ TG K++DSMIPIG+GQRELIIGDRQTGKT +AID IINQ++  + 
Sbjct: 133 APGVIERQSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQRDSGIK 192
Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++ NV+ KL+ +  +                QY++PY GC +GEYFRD 
Sbjct: 193 CIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDR 252
Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEK- 406
           G+D LIIYDDL+K A AYRQISLLLRRPPGREAFPGDVFYLHSRLLER++++N  ++E  
Sbjct: 253 GEDALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAF 312
Query: 407 -KKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL 465
            K       G+LTA PIIET  GDV++F+PTNVISITDGQIFL+TNLFN+  RPA+N G+
Sbjct: 313 TKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPGI 372
Query: 466 SVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMK 525
           SVSRVGGAAQ KI+KKLSG IR  LAQYREL +FS+F+SDLD  T+ QL +G+K++ L+K
Sbjct: 373 SVSRVGGAAQTKIMKKLSGGIRTALAQYRELAAFSQFASDLDDATRKQLDHGQKVTELLK 432
Query: 526 QKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKY 567
           QK +   S+ +        +  +   + + +I  FE  ++ Y
Sbjct: 433 QKQYAPMSVAQQSLVLFAAERGYLADVELSKIGSFEAALLAY 474

>pdb|3OAA|A Chain A, Structure Of The E.Coli F1-Atp Synthase Inhibited By Subunit Epsilon Length = 513

Iteration: 1
 Score = 90.5 bits (223), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 70/319 (21%), Positives = 138/319 (43%), Gaps = 25/319 (7%)
Query: 611 TGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGI 670
           TG+ +  PVG   LGR++N LG PID KG ++    S +  + P    +   +  ++TG 
Sbjct: 91  TGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFSAVEAIAPGVIERQSVDQPVQTGY 150
Query: 671 KVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY 730
           K +D + P                 T   ++ I N       C +++ +G+++   ++  
Sbjct: 151 KAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQRDSGIKC-IYVAIGQKASTISNVV 209
Query: 731 HEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA 790
            +++E   L    ++    +E +  +      G ++ E FR+ G+D L+  D++ +  +A
Sbjct: 210 RKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQAVA 269
Query: 791 GTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST---------------KNGTITSVQA 835
             ++S +L R P    +   +     +L ER +                 K G++T++  
Sbjct: 270 YRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAFTKGEVKGKTGSLTALPI 329
Query: 836 IYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK 895
           I   A D++   P+   +  D  I L   +   GI PA++P  S S+     + G    K
Sbjct: 330 IETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPGISVSR-----VGGAAQTK 384
Query: 896 V----ANEVKFYLQKYKEL 910
           +    +  ++  L +Y+EL
Sbjct: 385 IMKKLSGGIRTALAQYREL 403

>pdb|2QE7|A Chain A, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 502

Iteration: 1
 Score =  434 bits (1115), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 214/428 (50%), Positives = 290/428 (67%), Gaps = 14/428 (3%)
Query: 147 VLSGQI----NGTTGYEEAAAQGFVAVLI-DDLKNLTQGQKCFCTEKIFEIPVGFELLGR 201
           V++G++    NG  G  +   +  V V+I      + +G +   T +I E+PVG  LLGR
Sbjct: 47  VMAGELLEFENGVMGMAQNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGR 106
Query: 202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQREL 261
           +VN  G+ +D +          +E  APG+MDR+SV+EPL TGIK+IDSMIPIG+GQREL
Sbjct: 107 VVNPLGQPLDGRGPIETAEYRPIESPAPGVMDRKSVHEPLQTGIKAIDSMIPIGRGQREL 166
Query: 262 IIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXX 321
           IIGDRQTGKTTIAIDTIINQK ++VICIYV IGQK S++  V+  L+ ++ +DY      
Sbjct: 167 IIGDRQTGKTTIAIDTIINQKGQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTA 226
Query: 322 XXXXXXXEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAF 381
                    Y++PY GC +GEYF   G+  L++YDDL+K A AYR++SLLLRRPPGREA+
Sbjct: 227 SASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAAAYRELSLLLRRPPGREAY 286
Query: 382 PGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISI 441
           PGDVFYLHSRLLER++K++           K  G+LTA P IET  GDV+++IPTNVISI
Sbjct: 287 PGDVFYLHSRLLERAAKLSD---------EKGGGSLTALPFIETQAGDVSAYIPTNVISI 337
Query: 442 TDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSK 501
           TDGQIFL+++LF S  RPA+NVG+SVSRVGGAAQ K +KK++G +R+ LAQYREL++F++
Sbjct: 338 TDGQIFLESDLFYSGVRPAVNVGISVSRVGGAAQIKAMKKVAGTLRLDLAQYRELQAFAQ 397
Query: 502 FSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           F SDLD  T+ +L  GE+   ++KQ  H+   + E         N F   IP++ +  FE
Sbjct: 398 FGSDLDKATQAKLNRGERTVEILKQDEHKPMPVEEQVISIYAVTNGFMDDIPVEDVRRFE 457
Query: 562 INIIKYFR 569
             ++ + R
Sbjct: 458 EELLSFMR 465

>pdb|2QE7|A Chain A, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 502

Iteration: 1
 Score = 99.8 bits (247), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 80/332 (24%), Positives = 148/332 (44%), Gaps = 6/332 (1%)
Query: 584 QQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINS 643
           Q + E+ V  +  G    I+  T V  TG+ +  PVG+  LGR++N LG P+D +G I +
Sbjct: 64  QNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLGQPLDGRGPIET 123
Query: 644 KKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELI 703
            +  PI +  P   ++   +  L+TGIK ID + P                 T   ++ I
Sbjct: 124 AEYRPIESPAPGVMDRKSVHEPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTI 183
Query: 704 RNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            N   +   C +++ +G++          +++ + LD   ++    +EP+         G
Sbjct: 184 INQKGQDVIC-IYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAG 242
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            ++ E F   GK  L+  D++ +   A  E+S +L R P    Y   +     +L ER +
Sbjct: 243 CAMGEYFMYKGKHALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAA 302
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L   +   G+ PA++   S
Sbjct: 303 KLSDEKGGGSLTALPFIETQAGDVSAYIPTNVISITDGQIFLESDLFYSGVRPAVNVGIS 362
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKELK 911
            S+      + +   KVA  ++  L +Y+EL+
Sbjct: 363 VSRVGGAAQI-KAMKKVAGTLRLDLAQYRELQ 393

>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1 Length = 462

Iteration: 1
 Score =  420 bits (1080), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 199/329 (60%), Positives = 250/329 (75%), Gaps = 1/329 (0%)
Query: 585 QIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSK 644
            +G+N+VR +A  +T+G+ R    VDTG PI  PVG  TLGR+ NVLG+PID +GE+N++
Sbjct: 47  HLGDNVVRCVAMASTDGLVRGLEAVDTGAPISVPVGKATLGRVFNVLGEPIDEQGEVNAE 106
Query: 645 KKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIR 704
           ++ PIH   P+F      + ILETGIKVIDLL P+                TV + ELI 
Sbjct: 107 ERHPIHRPAPEFEELSTADEILETGIKVIDLLAPYAKGGKIGLFGGAGVGKTVLIQELIN 166
Query: 705 NIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGL 764
           N+A EH G SVF GVGER+REGND YHEMK+S V+ K S+++GQMNEP G RLRVALTGL
Sbjct: 167 NVAQEHGGLSVFAGVGERTREGNDLYHEMKDSGVISKTSMVFGQMNEPPGARLRVALTGL 226
Query: 765 SIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
           ++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA EMG+LQERI+
Sbjct: 227 TMAEYFRDREGQDVLLFIDNIFRFTQAGSEVSALLGRMPSAVGYQPTLATEMGQLQERIT 286
Query: 824 STKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ 883
           STK G+ITS+QAIYVPADD TDP+P+TTF HLD+T  L R++AE+GIYPA+DPL S S+ 
Sbjct: 287 STKKGSITSIQAIYVPADDYTDPAPATTFAHLDATTNLERKLAEMGIYPAVDPLASTSRI 346
Query: 884 LDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           L P +VGEEHY+VA  V+  LQ+Y +L+D
Sbjct: 347 LSPAVVGEEHYRVARGVQQVLQRYNDLQD 375

>pdb|2XOK|D Chain D, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 511

Iteration: 1
 Score =  419 bits (1077), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 207/337 (61%), Positives = 252/337 (74%), Gaps = 6/337 (1%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GEN VRTIA   T G+ R   V+DTG PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 83  VAQHLGENTVRTIAMDGTEGLVRGEKVLDTGGPISVPVGRETLGRIINVIGEPIDERGPI 142
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            SK + PIH  PP F+ Q  +  ILETGIKV+DLL P+                TV + E
Sbjct: 143 KSKLRKPIHADPPSFAEQSTSAEILETGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQE 202
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-----KVSLIYGQMNEPSGNR 756
           LI NIA  H G SVF GVGER+REGND Y EMKE+ V++     KV+L++GQMNEP G R
Sbjct: 203 LINNIAKAHGGFSVFTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGAR 262
Query: 757 LRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            RVALTGL+IAE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +M
Sbjct: 263 ARVALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDM 322
Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           G LQERI++TK G++TSVQA+YVPADDLTDP+P+TTF HLD+T VLSR I+ELGIYPA+D
Sbjct: 323 GLLQERITTTKKGSVTSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGISELGIYPAVD 382
Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           PL+S S+ LD  +VG+EHY VA++V+  LQ YK L+D
Sbjct: 383 PLDSKSRLLDAAVVGQEHYDVASKVQETLQTYKSLQD 419

>pdb|4B2Q|D Chain D, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 470

Iteration: 1
 Score =  419 bits (1077), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 207/337 (61%), Positives = 252/337 (74%), Gaps = 6/337 (1%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GEN VRTIA   T G+ R   V+DTG PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 45  VAQHLGENTVRTIAMDGTEGLVRGEKVLDTGGPISVPVGRETLGRIINVIGEPIDERGPI 104
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            SK + PIH  PP F+ Q  +  ILETGIKV+DLL P+                TV + E
Sbjct: 105 KSKLRKPIHADPPSFAEQSTSAEILETGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQE 164
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-----KVSLIYGQMNEPSGNR 756
           LI NIA  H G SVF GVGER+REGND Y EMKE+ V++     KV+L++GQMNEP G R
Sbjct: 165 LINNIAKAHGGFSVFTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGAR 224
Query: 757 LRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            RVALTGL+IAE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +M
Sbjct: 225 ARVALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDM 284
Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           G LQERI++TK G++TSVQA+YVPADDLTDP+P+TTF HLD+T VLSR I+ELGIYPA+D
Sbjct: 285 GLLQERITTTKKGSVTSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGISELGIYPAVD 344
Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           PL+S S+ LD  +VG+EHY VA++V+  LQ YK L+D
Sbjct: 345 PLDSKSRLLDAAVVGQEHYDVASKVQETLQTYKSLQD 381

>pdb|3FKS|D Chain D, Yeast F1 Atpase In The Absence Of Bound Nucleotides Length = 484

Iteration: 1
 Score =  419 bits (1076), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 207/337 (61%), Positives = 252/337 (74%), Gaps = 6/337 (1%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GEN VRTIA   T G+ R   V+DTG PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 56  VAQHLGENTVRTIAMDGTEGLVRGEKVLDTGGPISVPVGRETLGRIINVIGEPIDERGPI 115
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            SK + PIH  PP F+ Q  +  ILETGIKV+DLL P+                TV + E
Sbjct: 116 KSKLRKPIHADPPSFAEQSTSAEILETGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQE 175
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-----KVSLIYGQMNEPSGNR 756
           LI NIA  H G SVF GVGER+REGND Y EMKE+ V++     KV+L++GQMNEP G R
Sbjct: 176 LINNIAKAHGGFSVFTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGAR 235
Query: 757 LRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            RVALTGL+IAE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +M
Sbjct: 236 ARVALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDM 295
Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           G LQERI++TK G++TSVQA+YVPADDLTDP+P+TTF HLD+T VLSR I+ELGIYPA+D
Sbjct: 296 GLLQERITTTKKGSVTSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGISELGIYPAVD 355
Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           PL+S S+ LD  +VG+EHY VA++V+  LQ YK L+D
Sbjct: 356 PLDSKSRLLDAAVVGQEHYDVASKVQETLQTYKSLQD 392

>pdb|2HLD|D Chain D, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 478

Iteration: 1
 Score =  419 bits (1076), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 207/337 (61%), Positives = 252/337 (74%), Gaps = 6/337 (1%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GEN VRTIA   T G+ R   V+DTG PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 50  VAQHLGENTVRTIAMDGTEGLVRGEKVLDTGGPISVPVGRETLGRIINVIGEPIDERGPI 109
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            SK + PIH  PP F+ Q  +  ILETGIKV+DLL P+                TV + E
Sbjct: 110 KSKLRKPIHADPPSFAEQSTSAEILETGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQE 169
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-----KVSLIYGQMNEPSGNR 756
           LI NIA  H G SVF GVGER+REGND Y EMKE+ V++     KV+L++GQMNEP G R
Sbjct: 170 LINNIAKAHGGFSVFTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGAR 229
Query: 757 LRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            RVALTGL+IAE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +M
Sbjct: 230 ARVALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDM 289
Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           G LQERI++TK G++TSVQA+YVPADDLTDP+P+TTF HLD+T VLSR I+ELGIYPA+D
Sbjct: 290 GLLQERITTTKKGSVTSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGISELGIYPAVD 349
Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           PL+S S+ LD  +VG+EHY VA++V+  LQ YK L+D
Sbjct: 350 PLDSKSRLLDAAVVGQEHYDVASKVQETLQTYKSLQD 386

>pdb|4B2Q|E Chain E, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 473

Iteration: 1
 Score =  418 bits (1074), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 207/337 (61%), Positives = 252/337 (74%), Gaps = 6/337 (1%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GEN VRTIA   T G+ R   V+DTG PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 45  VAQHLGENTVRTIAMDGTEGLVRGEKVLDTGGPISVPVGRETLGRIINVIGEPIDERGPI 104
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            SK + PIH  PP F+ Q  +  ILETGIKV+DLL P+                TV + E
Sbjct: 105 KSKLRKPIHADPPSFAEQSTSAEILETGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQE 164
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-----KVSLIYGQMNEPSGNR 756
           LI NIA  H G SVF GVGER+REGND Y EMKE+ V++     KV+L++GQMNEP G R
Sbjct: 165 LINNIAKAHGGFSVFTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGAR 224
Query: 757 LRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            RVALTGL+IAE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +M
Sbjct: 225 ARVALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDM 284
Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           G LQERI++TK G++TSVQA+YVPADDLTDP+P+TTF HLD+T VLSR I+ELGIYPA+D
Sbjct: 285 GLLQERITTTKKGSVTSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGISELGIYPAVD 344
Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           PL+S S+ LD  +VG+EHY VA++V+  LQ YK L+D
Sbjct: 345 PLDSKSRLLDAAVVGQEHYDVASKVQETLQTYKSLQD 381

>pdb|3OEH|D Chain D, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Beta-V279f Length = 484

Iteration: 1
 Score =  416 bits (1070), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 206/337 (61%), Positives = 251/337 (74%), Gaps = 6/337 (1%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GEN VRTIA   T G+ R   V+DTG PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 56  VAQHLGENTVRTIAMDGTEGLVRGEKVLDTGGPISVPVGRETLGRIINVIGEPIDERGPI 115
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            SK + PIH  PP F+ Q  +  ILETGIKV+DLL P+                TV + E
Sbjct: 116 KSKLRKPIHADPPSFAEQSTSAEILETGIKVVDLLAPYARGGKIGLFGGAGVGKTVFIQE 175
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-----KVSLIYGQMNEPSGNR 756
           LI NIA  H G SVF GVGER+REGND Y EMKE+ V++     KV+L++GQMNEP G R
Sbjct: 176 LINNIAKAHGGFSVFTGVGERTREGNDLYREMKETGVINLEGESKVALVFGQMNEPPGAR 235
Query: 757 LRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            RVALTGL+IAE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSA GYQPTLA +M
Sbjct: 236 ARVALTGLTIAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAFGYQPTLATDM 295
Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAID 875
           G LQERI++TK G++TSVQA+YVPADDLTDP+P+TTF HLD+T VLSR I+ELGIYPA+D
Sbjct: 296 GLLQERITTTKKGSVTSVQAVYVPADDLTDPAPATTFAHLDATTVLSRGISELGIYPAVD 355
Query: 876 PLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           PL+S S+ LD  +VG+EHY VA++V+  LQ YK L+D
Sbjct: 356 PLDSKSRLLDAAVVGQEHYDVASKVQETLQTYKSLQD 392

>pdb|1MAB|B Chain B, Rat Liver F1-Atpase Length = 479

Iteration: 1
 Score =  413 bits (1061), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 205/338 (60%), Positives = 248/338 (73%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 49  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIKIPVGPETLGRIMNVIGEPIDERGPI 108
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ +PIH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 109 KTKQFAPIHAEAPEFIEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 168
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 169 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 228
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 229 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 288
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 289 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 348
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 349 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 386

>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 =  412 bits (1058), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 198/399 (49%), Positives = 273/399 (68%), Gaps = 9/399 (2%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           +++ + K++ +G      ++I E+PVG ELLGR+VN  GE +D K     KN   +E  A
Sbjct: 87  IILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFRPIEIKA 146
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG++ R+ V+ PL TGIK+IDS IPIG+GQRELIIGDRQTGKT IAIDTIINQK + V C
Sbjct: 147 PGVIYRKPVDTPLQTGIKAIDSXIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGQGVYC 206
Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDLG 348
           IYV IGQK S++  +I+KL+ Y   +Y              QYI+PY GC  GEYF   G
Sbjct: 207 IYVAIGQKKSAIARIIDKLRQYGAXEYTTVVVASASDPASLQYIAPYAGCAXGEYFAYSG 266
Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           +D L++YDDL+KHA AYRQ+SLL RRPPGREA+PGD+FYLHSRLLER+ ++N        
Sbjct: 267 RDALVVYDDLSKHAVAYRQLSLLXRRPPGREAYPGDIFYLHSRLLERAVRLNDKL----- 321
Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
                 G+LTA PI+ET   D++++IPTNVISITDGQI+L+  LF +  RPAINVGLSVS
Sbjct: 322 ----GGGSLTALPIVETQANDISAYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLSVS 377
Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGG+AQ K  K+++G +RI LAQYRELE+F++F+++LD  T+ Q+  G+++  L+KQ+ 
Sbjct: 378 RVGGSAQIKAXKQVAGXLRIDLAQYRELETFAQFATELDPATRAQIIRGQRLXELLKQEQ 437
Query: 529 HENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKY 567
           +    + E           +   +P++++  FE   +++
Sbjct: 438 YSPXPVEEQVVVLFAGVRGYLDDLPVEEVRRFEKEFLRF 476

>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 = 89.7 bits (221), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 79/332 (23%), Positives = 143/332 (43%), Gaps = 14/332 (4%)
Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
           E+ V  I  G    IK    V    + I  PVG+  LGR++N LG+P+D KG IN+K   
Sbjct: 81  EDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFR 140
Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIA 707
           PI    P    +   +  L+TGIK ID   P                 T   ++ I N  
Sbjct: 141 PIEIKAPGVIYRKPVDTPLQTGIKAIDSXIPIGRGQRELIIGDRQTGKTAIAIDTIINQK 200
Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
            +   C +++ +G++         ++++    +  +++    ++P+  +      G +  
Sbjct: 201 GQGVYC-IYVAIGQKKSAIARIIDKLRQYGAXEYTTVVVASASDPASLQYIAPYAGCAXG 259
Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN 827
           E F  SG+D L+  D++ +  +A  ++S +  R P    Y   +     +L ER     +
Sbjct: 260 EYFAYSGRDALVVYDDLSKHAVAYRQLSLLXRRPPGREAYPGDIFYLHSRLLERAVRLND 319
Query: 828 ----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ 883
               G++T++  +   A+D++   P+   +  D  I L   +   G  PAI+   S S+ 
Sbjct: 320 KLGGGSLTALPIVETQANDISAYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLSVSR- 378
Query: 884 LDPYIVGEEHYK----VANEVKFYLQKYKELK 911
               + G    K    VA  ++  L +Y+EL+
Sbjct: 379 ----VGGSAQIKAXKQVAGXLRIDLAQYRELE 406

>pdb|2W6E|D Chain D, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 528

Iteration: 1
 Score =  410 bits (1054), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 204/338 (60%), Positives = 247/338 (73%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 99  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 158
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 159 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 218
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 219 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 278
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 279 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 338
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 339 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 398
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 399 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 436

>pdb|1NBM|D Chain D, The Structure Of Bovine F1-Atpase Covalently Inhibited With 4-Chloro-7-Nitrobenzofurazan Length = 480

Iteration: 1
 Score =  410 bits (1054), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 204/338 (60%), Positives = 247/338 (73%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 53  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 112
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 113 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 172
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 173 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 232
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 233 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 292
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 293 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 352
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 353 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 390

>pdb|1COW|D Chain D, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 482

Iteration: 1
 Score =  410 bits (1054), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 204/338 (60%), Positives = 247/338 (73%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 53  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 112
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 113 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 172
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 173 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 232
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 233 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 292
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 293 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 352
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 353 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 390

>pdb|4ASU|D Chain D, F1-Atpase In Which All Three Catalytic Sites Contain Bound Nucleotide, With Magnesium Ion Released In The Empty Site Length = 480

Iteration: 1
 Score =  410 bits (1054), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 204/338 (60%), Positives = 247/338 (73%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 51  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 110
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 111 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 170
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 171 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 230
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 231 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 290
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 291 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 350
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 351 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 388

>pdb|2XND|D Chain D, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 467

Iteration: 1
 Score =  410 bits (1054), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 204/338 (60%), Positives = 247/338 (73%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 41  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 100
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 101 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 160
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 161 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 220
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 221 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 280
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 281 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 340
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 341 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 378

>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 =  409 bits (1052), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 198/333 (59%), Positives = 251/333 (75%), Gaps = 2/333 (0%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V   +G++ VRTIA  +T+G+ R   V+DTG PI  PVG  TLGR+ NVLG+PID +G+I
Sbjct: 50  VALHLGDDTVRTIAMASTDGLIRGMEVIDTGAPISVPVGQVTLGRVFNVLGEPIDLEGDI 109
Query: 642 NS-KKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMM 700
            +  ++ PIH   PKF        ILETGIKV+DLL P++               TV + 
Sbjct: 110 PADARRDPIHRPAPKFEELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQ 169
Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELI NIA EH G SVF GVGER+REGND YHEMK+S V+ K ++++GQMNEP G R+RVA
Sbjct: 170 ELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA 229
Query: 761 LTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ 819
           LTGL++AE FR+  G+D LLFIDNI+RFT AG+EVSA+LGR PSA+GYQPTLA EMG+LQ
Sbjct: 230 LTGLTMAEYFRDEQGQDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQ 289
Query: 820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
           ERI+ST  G+ITS+QAIYVPADD TDP+P+TTF+HLD+T  L R++AE+GIYPA+DPL S
Sbjct: 290 ERITSTAKGSITSIQAIYVPADDYTDPAPATTFSHLDATTNLERKLAEMGIYPAVDPLVS 349
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
            S+ L P IVGEEHY+VA +V+  L++YKEL+D
Sbjct: 350 TSRALAPEIVGEEHYQVARKVQQTLERYKELQD 382

>pdb|1NBM|E Chain E, The Structure Of Bovine F1-Atpase Covalently Inhibited With 4-Chloro-7-Nitrobenzofurazan Length = 480

Iteration: 1
 Score =  407 bits (1047), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 203/338 (60%), Positives = 246/338 (72%), Gaps = 7/338 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 53  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 112
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+                TV +ME
Sbjct: 113 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 172
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 173 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 232
Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 233 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 292
Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAI VPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 293 MGTMQERITTTKKGSITSVQAIXVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 352
Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 353 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 390

>pdb|2W6E|A Chain A, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 553

Iteration: 1
 Score =  400 bits (1029), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 117 VVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKA 176
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 177 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 236
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 237 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 296
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 297 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 356
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 357 DAF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 407
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 408 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 467
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 468 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 508

>pdb|2W6E|A Chain A, Low Resolution Structures Of Bovine Mitochondrial F1-Atpase During Controlled Dehydration: Hydration State 1. Length = 553

Iteration: 1
 Score = 96.3 bits (238), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 79/331 (23%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK +  + 
Sbjct: 114 VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVG 173
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 174 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 233
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 234 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 293
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 294 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 353
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 354 KMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 413
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 414 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 443

>pdb|2JIZ|A Chain A, The Structure Of F1-Atpase Inhibited By Resveratrol. Length = 510

Iteration: 1
 Score =  400 bits (1028), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 74  VVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKA 133
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 134 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 193
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 194 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 253
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 254 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 314 DAF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 364
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 365 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 424
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 425 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 465

>pdb|2JIZ|A Chain A, The Structure Of F1-Atpase Inhibited By Resveratrol. Length = 510

Iteration: 1
 Score = 96.7 bits (239), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 79/331 (23%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK +  + 
Sbjct: 71  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVG 130
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 131 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 190
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 191 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 250
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 251 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 310
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 311 KMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 370
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 371 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 400

>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 =  400 bits (1028), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 192/393 (48%), Positives = 263/393 (66%), Gaps = 9/393 (2%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V++     + +G +   T +I E+PVG  L+GR+VN  G+ +D            +E  A
Sbjct: 74  VILGPYTGIKEGDEVRRTGRIMEVPVGETLIGRVVNPLGQPVDGLGPVETTETRPIESRA 133
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PG+MDR SV+EPL TGIK+ID+++PIG+GQRELIIGDRQTGKT++AIDTIINQK++N+IC
Sbjct: 134 PGVMDRRSVHEPLQTGIKAIDALVPIGRGQRELIIGDRQTGKTSVAIDTIINQKDQNMIC 193
Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDLG 348
           IYV IGQK S++  V+  L  +   DY               +++PY G  +GEYF  +G
Sbjct: 194 IYVAIGQKESTVATVVETLAKHGAPDYTIVVTASASQPAPLLFLAPYAGVAMGEYFMIMG 253
Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           +  L++ DDL+K A AYRQ+SLLLRRPPGREA+PGD+FYLHSRLLER++K++        
Sbjct: 254 KHVLVVIDDLSKQAAAYRQLSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSD------- 306
Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
              K  G+LTA P +ET  GD++++IPTNVISITDGQIFL ++LF S  RPAIN GLSVS
Sbjct: 307 --AKGGGSLTALPFVETQAGDISAYIPTNVISITDGQIFLQSDLFFSGVRPAINAGLSVS 364
Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVGGAAQ K +KK++G +R+ LA YRELE+F++F SDLD  T+  +  G +   ++KQ  
Sbjct: 365 RVGGAAQIKAMKKVAGTLRLDLAAYRELEAFAQFGSDLDKATQANVARGARTVEVLKQDL 424
Query: 529 HENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           H+   + +           F   IP++ +  FE
Sbjct: 425 HQPIPVEKQVLIIYALTRGFLDDIPVEDVRRFE 457

>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 = 97.8 bits (242), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 79/328 (24%), Positives = 145/328 (44%), Gaps = 6/328 (1%)
Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
           EN V  +  G   GIK    V  TG+ +  PVG+  +GR++N LG P+D  G + + +  
Sbjct: 68  ENNVGIVILGPYTGIKEGDEVRRTGRIMEVPVGETLIGRVVNPLGQPVDGLGPVETTETR 127
Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIA 707
           PI +  P   ++   +  L+TGIK ID L P                 T   ++ I N  
Sbjct: 128 PIESRAPGVMDRRSVHEPLQTGIKAIDALVPIGRGQRELIIGDRQTGKTSVAIDTIINQK 187
Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
            ++  C +++ +G++          + +    D   ++    ++P+         G+++ 
Sbjct: 188 DQNMIC-IYVAIGQKESTVATVVETLAKHGAPDYTIVVTASASQPAPLLFLAPYAGVAMG 246
Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN 827
           E F   GK VL+ ID++ +   A  ++S +L R P    Y   +     +L ER +   +
Sbjct: 247 EYFMIMGKHVLVVIDDLSKQAAAYRQLSLLLRRPPGREAYPGDIFYLHSRLLERAAKLSD 306
Query: 828 ----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ 883
               G++T++  +   A D++   P+   +  D  I L   +   G+ PAI+   S S+ 
Sbjct: 307 AKGGGSLTALPFVETQAGDISAYIPTNVISITDGQIFLQSDLFFSGVRPAINAGLSVSRV 366
Query: 884 LDPYIVGEEHYKVANEVKFYLQKYKELK 911
                + +   KVA  ++  L  Y+EL+
Sbjct: 367 GGAAQI-KAMKKVAGTLRLDLAAYRELE 393

>pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 510

Iteration: 1
 Score =  400 bits (1027), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 74  VVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKA 133
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 134 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 193
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 194 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 253
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 254 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 314 DAF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 364
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 365 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 424
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 425 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 465

>pdb|1COW|A Chain A, Bovine Mitochondrial F1-Atpase Complexed With Aurovertin B Length = 510

Iteration: 1
 Score = 96.3 bits (238), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 79/331 (23%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK +  + 
Sbjct: 71  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVG 130
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 131 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 190
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 191 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 250
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 251 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 310
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 311 KMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 370
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 371 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 400

>pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score =  400 bits (1027), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 74  VVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKA 133
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 134 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 193
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 194 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 253
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 254 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 314 DAF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 364
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 365 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 424
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 425 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 465

>pdb|1BMF|A Chain A, Bovine Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 96.3 bits (238), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 79/331 (23%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK +  + 
Sbjct: 71  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVG 130
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 131 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 190
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 191 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 250
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 251 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 310
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 311 KMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 370
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 371 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 400

>pdb|2XND|A Chain A, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 492

Iteration: 1
 Score =  400 bits (1027), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 56  VVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKA 115
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 116 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 175
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 176 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 235
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 236 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 295
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 296 DAF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 346
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 347 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 406
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 407 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 447

>pdb|2XND|A Chain A, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp Synthase Length = 492

Iteration: 1
 Score = 96.7 bits (239), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 79/331 (23%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK +  + 
Sbjct: 53  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVG 112
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 113 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 172
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 173 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 232
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 233 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 292
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 293 KMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 352
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 353 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 382

>pdb|2F43|A Chain A, Rat Liver F1-atpase Length = 510

Iteration: 1
 Score =  399 bits (1024), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 74  VVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGPVGSKIRRRVGLKA 133
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 134 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 193
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 194 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 253
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 254 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 314 DSF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 364
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 365 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 424
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 425 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 465

>pdb|2F43|A Chain A, Rat Liver F1-atpase Length = 510

Iteration: 1
 Score = 97.1 bits (240), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 80/331 (24%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVGD  LGR+++ LG+ ID KG + SK +  + 
Sbjct: 71  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGPVGSKIRRRVG 130
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 131 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 190
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 191 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 250
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 251 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 310
Query: 824 ----STKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
               S   G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 311 KMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 370
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 371 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 400

>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 507

Iteration: 1
 Score =  399 bits (1024), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 192/401 (47%), Positives = 264/401 (65%), Gaps = 9/401 (2%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL+ D   + +G     T +I +IPV    LGR++N+  + ID + +        +E  A
Sbjct: 75  VLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEITASESRLIESPA 134
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVIC 288
           PGIM R SV EPL TG+ +ID+MIP+G+GQRELIIGDRQTGKT +A DTI+NQ+ +NVIC
Sbjct: 135 PGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQGQNVIC 194
Query: 289 IYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDLG 348
           +YV IGQK SS+  V+   +    M+Y              QY++PYTG  + EYF    
Sbjct: 195 VYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRE 254
Query: 349 QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKK 408
           +  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++    E   
Sbjct: 255 RHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGE--- 311
Query: 409 IFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
                 G++TA PI+ET  GDV+++IPTNVISITDGQIFL  +LFN+  RPAINVG+SVS
Sbjct: 312 ------GSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVS 365
Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKP 528
           RVG AAQ K +KK++G +++ LAQ+ ELE+F++F+SDLD  T+ QL  G+++  L+KQ  
Sbjct: 366 RVGSAAQIKAMKKVAGKLKLELAQFAELEAFAQFASDLDKATQNQLARGQRLRELLKQPQ 425
Query: 529 HENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
               ++ E         N +   + + Q+  + + +  Y +
Sbjct: 426 SAPLTVEEQVMTIYTGTNGYLDSLELDQVRKYLVELRTYVK 466

>pdb|1FX0|A Chain A, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 507

Iteration: 1
 Score = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 75/327 (22%), Positives = 142/327 (43%), Gaps = 6/327 (1%)
Query: 589 NIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSP 648
           N V  +  G+   I+  + V  TG+    PV +  LGR++N L  PID +GEI + +   
Sbjct: 70  NNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEITASESRL 129
Query: 649 IHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAI 708
           I +  P   ++      L+TG+  ID + P                 T    + I N   
Sbjct: 130 IESPAPGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQG 189
Query: 709 EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAE 768
           ++  C V++ +G+++          +E   ++   ++    + P+  +     TG ++AE
Sbjct: 190 QNVIC-VYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAE 248
Query: 769 EFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN- 827
            F    +  L+  D++ +   A  ++S +L R P    Y   +     +L ER +   + 
Sbjct: 249 YFMYRERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSL 308
Query: 828 ---GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQL 884
              G++T++  +   A D++   P+   +  D  I LS  +   GI PAI+   S S+  
Sbjct: 309 LGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVG 368
Query: 885 DPYIVGEEHYKVANEVKFYLQKYKELK 911
               + +   KVA ++K  L ++ EL+
Sbjct: 369 SAAQI-KAMKKVAGKLKLELAQFAELE 394

>pdb|1MAB|A Chain A, Rat Liver F1-Atpase Length = 510

Iteration: 1
 Score =  398 bits (1023), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 204/401 (50%), Positives = 268/401 (66%), Gaps = 17/401 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 74  VVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGPVGSKIRRRVGLKA 133
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 134 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 193
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 194 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 253
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 254 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 313
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 314 DSF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 364
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G ++
Sbjct: 365 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRL 424
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 425 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 465

>pdb|1MAB|A Chain A, Rat Liver F1-Atpase Length = 510

Iteration: 1
 Score = 97.1 bits (240), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 80/331 (24%), Positives = 146/331 (44%), Gaps = 12/331 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVGD  LGR+++ LG+ ID KG + SK +  + 
Sbjct: 71  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGDELLGRVVDALGNAIDGKGPVGSKIRRRVG 130
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 131 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 190
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 191 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 250
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 251 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 310
Query: 824 ----STKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
               S   G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 311 KMNDSFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 370
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
            S+ +          +VA  +K  L +Y+E+
Sbjct: 371 VSR-VGSAAQTRAMKQVAGTMKLELAQYREV 400

>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 545

Iteration: 1
 Score =  393 bits (1010), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/409 (46%), Positives = 271/409 (66%), Gaps = 17/409 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL    + + +G+    T  I ++PVG  LLGR+V++ G  ID K       R   +  A
Sbjct: 111 VLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQVKA 170
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK------ 282
           PGI+ R SV+EP+ TG+K++D+++PIG+GQRELIIGDRQTGKT +A+DTI+NQK      
Sbjct: 171 PGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWNNGS 230
Query: 283 --NKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
             +K + C+YV +GQK S++  ++  L+ ++ M Y              QY++P+T  +I
Sbjct: 231 DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASI 290
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GE+FRD G+  LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++
Sbjct: 291 GEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 350
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
           +          + +G+LTA P+IET  GDV+++IPTNVISITDGQIFL+  LF    RPA
Sbjct: 351 E---------KEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPA 401
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ K +K+++G +++ LAQYRE+ +F++F SDLD  TK  L  GE++
Sbjct: 402 INVGLSVSRVGSAAQVKALKQVAGSLKLFLAQYREVAAFAQFGSDLDASTKQTLVRGERL 461
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
           + L+KQ  +   +  E         N     I + +I  FE + + Y +
Sbjct: 462 TQLLKQNQYSPLATEEQVPLIYAGVNGHLDGIELSRIGEFESSFLSYLK 510

>pdb|2XOK|A Chain A, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A Resolution Length = 545

Iteration: 1
 Score = 99.4 bits (246), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 81/334 (24%), Positives = 146/334 (43%), Gaps = 18/334 (5%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FG+   +K   +V  TG  +  PVG   LGR+++ LG+PID KG I++  +S   
Sbjct: 108 VGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQ 167
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +   +  ++TG+K +D L P                 T   ++ I N    +
Sbjct: 168 VKAPGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWN 227
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         V++ VG++          +++ + +    ++    +E +  +     T 
Sbjct: 228 NGSDESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTA 287
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            SI E FR++GK  L+  D++ +  +A  ++S +L R P    Y          L E   
Sbjct: 288 ASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAA 347
Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL E+  S   G++T++  I     D++   P+   +  D  I L  ++   GI PAI+ 
Sbjct: 348 KLSEKEGS---GSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPAINV 404
Query: 877 LESYSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
             S S+      V +   +VA  +K +L +Y+E+
Sbjct: 405 GLSVSRVGSAAQV-KALKQVAGSLKLFLAQYREV 437

>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67i Length = 510

Iteration: 1
 Score =  393 bits (1009), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/409 (46%), Positives = 271/409 (66%), Gaps = 17/409 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL    + + +G+    T  I ++PVG  LLGR+V++ G  ID K       R   +  A
Sbjct: 76  VLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQVKA 135
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK------ 282
           PGI+ R SV+EP+ TG+K++D+++PIG+GQRELIIGDRQTGKT +A+DTI+NQK      
Sbjct: 136 PGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWNNGS 195
Query: 283 --NKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
             +K + C+YV +GQK S++  ++  L+ ++ M Y              QY++P+T  +I
Sbjct: 196 DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASI 255
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GE+FRD G+  LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++
Sbjct: 256 GEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 315
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
           +          + +G+LTA P+IET  GDV+++IPTNVISITDGQIFL+  LF    RPA
Sbjct: 316 E---------KEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPA 366
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ K +K+++G +++ LAQYRE+ +F++F SDLD  TK  L  GE++
Sbjct: 367 INVGLSVSRVGSAAQVKALKQVAGSLKLFLAQYREVAAFAQFGSDLDASTKQTLVRGERL 426
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
           + L+KQ  +   +  E         N     I + +I  FE + + Y +
Sbjct: 427 TQLLKQNQYSPLATEEQVPLIYAGVNGHLDGIELSRIGEFESSFLSYLK 475

>pdb|3OFN|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-N67i Length = 510

Iteration: 1
 Score = 99.8 bits (247), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 81/334 (24%), Positives = 146/334 (43%), Gaps = 18/334 (5%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FG+   +K   +V  TG  +  PVG   LGR+++ LG+PID KG I++  +S   
Sbjct: 73  VGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQ 132
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +   +  ++TG+K +D L P                 T   ++ I N    +
Sbjct: 133 VKAPGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWN 192
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         V++ VG++          +++ + +    ++    +E +  +     T 
Sbjct: 193 NGSDESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTA 252
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            SI E FR++GK  L+  D++ +  +A  ++S +L R P    Y          L E   
Sbjct: 253 ASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAA 312
Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL E+  S   G++T++  I     D++   P+   +  D  I L  ++   GI PAI+ 
Sbjct: 313 KLSEKEGS---GSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPAINV 369
Query: 877 LESYSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
             S S+      V +   +VA  +K +L +Y+E+
Sbjct: 370 GLSVSRVGSAAQV-KALKQVAGSLKLFLAQYREV 402

>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score =  392 bits (1008), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/409 (46%), Positives = 271/409 (66%), Gaps = 17/409 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL    + + +G+    T  I ++PVG  LLGR+V++ G  ID K       R   +  A
Sbjct: 76  VLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQVKA 135
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK------ 282
           PGI+ R SV+EP+ TG+K++D+++PIG+GQRELIIGDRQTGKT +A+DTI+NQK      
Sbjct: 136 PGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWNNGS 195
Query: 283 --NKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
             +K + C+YV +GQK S++  ++  L+ ++ M Y              QY++P+T  +I
Sbjct: 196 DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASI 255
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GE+FRD G+  LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++
Sbjct: 256 GEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 315
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
           +          + +G+LTA P+IET  GDV+++IPTNVISITDGQIFL+  LF    RPA
Sbjct: 316 E---------KEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPA 366
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ K +K+++G +++ LAQYRE+ +F++F SDLD  TK  L  GE++
Sbjct: 367 INVGLSVSRVGSAAQVKALKQVAGSLKLFLAQYREVAAFAQFGSDLDASTKQTLVRGERL 426
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
           + L+KQ  +   +  E         N     I + +I  FE + + Y +
Sbjct: 427 TQLLKQNQYSPLATEEQVPLIYAGVNGHLDGIELSRIGEFESSFLSYLK 475

>pdb|2HLD|A Chain A, Crystal Structure Of Yeast Mitochondrial F1-Atpase Length = 510

Iteration: 1
 Score = 99.8 bits (247), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 81/334 (24%), Positives = 146/334 (43%), Gaps = 18/334 (5%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FG+   +K   +V  TG  +  PVG   LGR+++ LG+PID KG I++  +S   
Sbjct: 73  VGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQ 132
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +   +  ++TG+K +D L P                 T   ++ I N    +
Sbjct: 133 VKAPGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWN 192
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         V++ VG++          +++ + +    ++    +E +  +     T 
Sbjct: 193 NGSDESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTA 252
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            SI E FR++GK  L+  D++ +  +A  ++S +L R P    Y          L E   
Sbjct: 253 ASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAA 312
Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL E+  S   G++T++  I     D++   P+   +  D  I L  ++   GI PAI+ 
Sbjct: 313 KLSEKEGS---GSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPAINV 369
Query: 877 LESYSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
             S S+      V +   +VA  +K +L +Y+E+
Sbjct: 370 GLSVSRVGSAAQV-KALKQVAGSLKLFLAQYREV 402

>pdb|4B2Q|B Chain B, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 486

Iteration: 1
 Score =  392 bits (1007), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/409 (46%), Positives = 271/409 (66%), Gaps = 17/409 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL    + + +G+    T  I ++PVG  LLGR+V++ G  ID K       R   +  A
Sbjct: 52  VLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQVKA 111
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK------ 282
           PGI+ R SV+EP+ TG+K++D+++PIG+GQRELIIGDRQTGKT +A+DTI+NQK      
Sbjct: 112 PGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWNNGS 171
Query: 283 --NKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
             +K + C+YV +GQK S++  ++  L+ ++ M Y              QY++P+T  +I
Sbjct: 172 DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASI 231
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GE+FRD G+  LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++
Sbjct: 232 GEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 291
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
           +          + +G+LTA P+IET  GDV+++IPTNVISITDGQIFL+  LF    RPA
Sbjct: 292 E---------KEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPA 342
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ K +K+++G +++ LAQYRE+ +F++F SDLD  TK  L  GE++
Sbjct: 343 INVGLSVSRVGSAAQVKALKQVAGSLKLFLAQYREVAAFAQFGSDLDASTKQTLVRGERL 402
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
           + L+KQ  +   +  E         N     I + +I  FE + + Y +
Sbjct: 403 TQLLKQNQYSPLATEEQVPLIYAGVNGHLDGIELSRIGEFESSFLSYLK 451

>pdb|4B2Q|B Chain B, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 486

Iteration: 1
 Score =  100 bits (248), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 81/334 (24%), Positives = 146/334 (43%), Gaps = 18/334 (5%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FG+   +K   +V  TG  +  PVG   LGR+++ LG+PID KG I++  +S   
Sbjct: 49  VGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQ 108
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +   +  ++TG+K +D L P                 T   ++ I N    +
Sbjct: 109 VKAPGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWN 168
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         V++ VG++          +++ + +    ++    +E +  +     T 
Sbjct: 169 NGSDESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTA 228
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            SI E FR++GK  L+  D++ +  +A  ++S +L R P    Y          L E   
Sbjct: 229 ASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAA 288
Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL E+  S   G++T++  I     D++   P+   +  D  I L  ++   GI PAI+ 
Sbjct: 289 KLSEKEGS---GSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPAINV 345
Query: 877 LESYSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
             S S+      V +   +VA  +K +L +Y+E+
Sbjct: 346 GLSVSRVGSAAQV-KALKQVAGSLKLFLAQYREV 378

>pdb|4B2Q|A Chain A, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 485

Iteration: 1
 Score =  392 bits (1007), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 192/409 (46%), Positives = 271/409 (66%), Gaps = 17/409 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL    + + +G+    T  I ++PVG  LLGR+V++ G  ID K       R   +  A
Sbjct: 51  VLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQVKA 110
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK------ 282
           PGI+ R SV+EP+ TG+K++D+++PIG+GQRELIIGDRQTGKT +A+DTI+NQK      
Sbjct: 111 PGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWNNGS 170
Query: 283 --NKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
             +K + C+YV +GQK S++  ++  L+ ++ M Y              QY++P+T  +I
Sbjct: 171 DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASI 230
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GE+FRD G+  LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++
Sbjct: 231 GEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 290
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
           +          + +G+LTA P+IET  GDV+++IPTNVISITDGQIFL+  LF    RPA
Sbjct: 291 E---------KEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPA 341
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ K +K+++G +++ LAQYRE+ +F++F SDLD  TK  L  GE++
Sbjct: 342 INVGLSVSRVGSAAQVKALKQVAGSLKLFLAQYREVAAFAQFGSDLDASTKQTLVRGERL 401
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
           + L+KQ  +   +  E         N     I + +I  FE + + Y +
Sbjct: 402 TQLLKQNQYSPLATEEQVPLIYAGVNGHLDGIELSRIGEFESSFLSYLK 450

>pdb|4B2Q|A Chain A, Model Of The Yeast F1fo-Atp Synthase Dimer Based On Subtomogram Average Length = 485

Iteration: 1
 Score =  100 bits (248), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 81/334 (24%), Positives = 146/334 (43%), Gaps = 18/334 (5%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FG+   +K   +V  TG  +  PVG   LGR+++ LG+PID KG I++  +S   
Sbjct: 48  VGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQ 107
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +   +  ++TG+K +D L P                 T   ++ I N    +
Sbjct: 108 VKAPGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWN 167
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         V++ VG++          +++ + +    ++    +E +  +     T 
Sbjct: 168 NGSDESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTA 227
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            SI E FR++GK  L+  D++ +  +A  ++S +L R P    Y          L E   
Sbjct: 228 ASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAA 287
Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL E+  S   G++T++  I     D++   P+   +  D  I L  ++   GI PAI+ 
Sbjct: 288 KLSEKEGS---GSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPAINV 344
Query: 877 LESYSKQLDPYIVGEEHYKVANEVKFYLQKYKEL 910
             S S+      V +   +VA  +K +L +Y+E+
Sbjct: 345 GLSVSRVGSAAQV-KALKQVAGSLKLFLAQYREV 377

>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-F405s Length = 510

Iteration: 1
 Score =  390 bits (1001), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 191/409 (46%), Positives = 270/409 (66%), Gaps = 17/409 (4%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           VL    + + +G+    T  I ++PVG  LLGR+V++ G  ID K       R   +  A
Sbjct: 76  VLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQVKA 135
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK------ 282
           PGI+ R SV+EP+ TG+K++D+++PIG+GQRELIIGDRQTGKT +A+DTI+NQK      
Sbjct: 136 PGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWNNGS 195
Query: 283 --NKNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
             +K + C+YV +GQK S++  ++  L+ ++ M Y              QY++P+T  +I
Sbjct: 196 DESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTAASI 255
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GE+FRD G+  LI+YDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++
Sbjct: 256 GEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAAKLS 315
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
           +          + +G+LTA P+IET  GDV+++IPTNVISITDGQIFL+  LF    RPA
Sbjct: 316 E---------KEGSGSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPA 366
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ K +K+++G +++ LAQYRE+ + ++F SDLD  TK  L  GE++
Sbjct: 367 INVGLSVSRVGSAAQVKALKQVAGSLKLFLAQYREVAASAQFGSDLDASTKQTLVRGERL 426
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFEINIIKYFR 569
           + L+KQ  +   +  E         N     I + +I  FE + + Y +
Sbjct: 427 TQLLKQNQYSPLATEEQVPLIYAGVNGHLDGIELSRIGEFESSFLSYLK 475

>pdb|3OEE|A Chain A, Structure Of Four Mutant Forms Of Yeast F1 Atpase: Alpha-F405s Length = 510

Iteration: 1
 Score = 99.8 bits (247), Expect = 6e-21,   Method: Compositional matrix adjust.
 Identities = 81/338 (23%), Positives = 148/338 (43%), Gaps = 18/338 (5%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FG+   +K   +V  TG  +  PVG   LGR+++ LG+PID KG I++  +S   
Sbjct: 73  VGIVLFGSDRLVKEGELVKRTGNIVDVPVGPGLLGRVVDALGNPIDGKGPIDAAGRSRAQ 132
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +   +  ++TG+K +D L P                 T   ++ I N    +
Sbjct: 133 VKAPGILPRRSVHEPVQTGLKAVDALVPIGRGQRELIIGDRQTGKTAVALDTILNQKRWN 192
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         V++ VG++          +++ + +    ++    +E +  +     T 
Sbjct: 193 NGSDESKKLYCVYVAVGQKRSTVAQLVQTLEQHDAMKYSIIVAATASEAAPLQYLAPFTA 252
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY-------QPTLAEEMG 816
            SI E FR++GK  L+  D++ +  +A  ++S +L R P    Y          L E   
Sbjct: 253 ASIGEWFRDNGKHALIVYDDLSKQAVAYRQLSLLLRRPPGREAYPGDVFYLHSRLLERAA 312
Query: 817 KLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP 876
           KL E+  S   G++T++  I     D++   P+   +  D  I L  ++   GI PAI+ 
Sbjct: 313 KLSEKEGS---GSLTALPVIETQGGDVSAYIPTNVISITDGQIFLEAELFYKGIRPAINV 369
Query: 877 LESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTS 914
             S S+      V +   +VA  +K +L +Y+E+  ++
Sbjct: 370 GLSVSRVGSAAQV-KALKQVAGSLKLFLAQYREVAASA 406

>pdb|1OHH|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Inhibitor Protein If1 Length = 487

Iteration: 1
 Score =  381 bits (979), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 200/401 (49%), Positives = 261/401 (65%), Gaps = 25/401 (6%)
Query: 169 VLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIA 228
           V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   A
Sbjct: 51  VVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKA 110
Query: 229 PGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN----- 283
           PGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK      
Sbjct: 111 PGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGT 170
Query: 284 ---KNVICIYVCIGQKISSLINVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTI 340
              K + CIYV IGQK S++  ++ +L   + M Y              QY++PY+GC++
Sbjct: 171 DEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSM 230
Query: 341 GEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKIN 400
           GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N
Sbjct: 231 GEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMN 290
Query: 401 KYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPA 460
             F           G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RPA
Sbjct: 291 DAF---------GGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPA 341
Query: 461 INVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKI 520
           INVGLSVSRVG AAQ + +K+++G +++ LAQYRE+         LD  T+  L  G ++
Sbjct: 342 INVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVA--------LDAATQQLLSRGVRL 393
Query: 521 SLLMKQKPHENYSIVEXXXXXXXXKNRFFFKIPIKQIELFE 561
           + L+KQ  +   +I E           +  K+   +I  FE
Sbjct: 394 TELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFE 434

>pdb|1OHH|B Chain B, Bovine Mitochondrial F1-Atpase Complexed With The Inhibitor Protein If1 Length = 487

Iteration: 1
 Score = 97.4 bits (241), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 81/337 (24%), Positives = 149/337 (44%), Gaps = 13/337 (3%)
Query: 591 VRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIH 650
           V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK +  + 
Sbjct: 48  VGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVG 107
Query: 651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEH 710
              P    +I     ++TGIK +D L P                 T   ++ I N    +
Sbjct: 108 LKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFN 167
Query: 711 KGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG 763
            G         +++ +G++          + +++ +    ++    ++ +  +     +G
Sbjct: 168 DGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG 227
Query: 764 LSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERIS 823
            S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y   +     +L ER +
Sbjct: 228 CSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAA 287
Query: 824 STKN----GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
              +    G++T++  I   A D++   P+   +  D  I L  ++   GI PAI+   S
Sbjct: 288 KMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLS 347
Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKELK-DTST 915
            S+ +          +VA  +K  L +Y+E+  D +T
Sbjct: 348 VSR-VGSAAQTRAMKQVAGTMKLELAQYREVALDAAT 383

>pdb|1FX0|B Chain B, Crystal Structure Of The Chloroplast F1-Atpase From Spinach Length = 498

Iteration: 1
 Score =  380 bits (976), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 198/339 (58%), Positives = 245/339 (72%), Gaps = 8/339 (2%)
Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           VQQ +G N VR +A   T+G+ R   V+DTG P+  PVG  TLGRI NVLG+P+DN   +
Sbjct: 65  VQQLLGNNRVRAVAMSATDGLTRGMEVIDTGAPLSVPVGGPTLGRIFNVLGEPVDNLRPV 124
Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMME 701
           +++  SPIH   P F+      +I ETGIKV++LL P+                TV +ME
Sbjct: 125 DTRTTSPIHRSAPAFTQLDTKLSIFETGIKVVNLLAPYRRGGKIGLFGGAGVGKTVLIME 184
Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-------KVSLIYGQMNEPSG 754
           LI NIA  H G SVF GVGER+REGND Y EMKES V++       KV+L+YGQMNEP G
Sbjct: 185 LINNIAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPG 244
Query: 755 NRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE 813
            R+RV LT L++AE FR+ + +DVLLFIDNI+RF  AG+EVSA+LGR PSAVGYQPTL+ 
Sbjct: 245 ARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLST 304
Query: 814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPA 873
           EMG LQERI+STK G+ITS+QA+YVPADDLTDP+P+TTF HLD+T VLSR +A  GIYPA
Sbjct: 305 EMGSLQERITSTKEGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPA 364
Query: 874 IDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +DPL+S S  L P IVGEEHY++A  VK  LQ+YKEL+D
Sbjct: 365 VDPLDSTSTMLQPRIVGEEHYEIAQRVKETLQRYKELQD 403

>pdb|3CES|A Chain A, Crystal Structure Of E.Coli Mnmg (Gida), A Highly-Conserved Trna Modifying Enzyme Length = 651

Iteration: 1
 Score =  146 bits (368), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 66/117 (56%), Positives = 83/117 (70%)
Query: 54  GPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLN 113
           GPRYCPSIEDK+ +F +   HQIFLEPEG  S E+Y NG+STSL  + Q ++++ + G+ 
Sbjct: 295 GPRYCPSIEDKVMRFADRNQHQIFLEPEGLTSNEIYPNGISTSLPFDVQMQIVRSMQGME 354
Query: 114 YSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVL 170
            + I+R  Y IEYD+FDPR L  TL  KF      +GQINGTTGYEEAAAQG +A L
Sbjct: 355 NAKIVRPGYAIEYDFFDPRDLKPTLESKFIQGLFFAGQINGTTGYEEAAAQGLLAGL 411

>pdb|3CP2|A Chain A, Crystal Structure Of Gida From E. Coli Length = 649

Iteration: 1
 Score =  146 bits (368), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 66/117 (56%), Positives = 83/117 (70%)
Query: 54  GPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLN 113
           GPRYCPSIEDK+ +F +   HQIFLEPEG  S E+Y NG+STSL  + Q ++++ + G+ 
Sbjct: 293 GPRYCPSIEDKVMRFADRNQHQIFLEPEGLTSNEIYPNGISTSLPFDVQMQIVRSMQGME 352
Query: 114 YSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVL 170
            + I+R  Y IEYD+FDPR L  TL  KF      +GQINGTTGYEEAAAQG +A L
Sbjct: 353 NAKIVRPGYAIEYDFFDPRDLKPTLESKFIQGLFFAGQINGTTGYEEAAAQGLLAGL 409

>pdb|3G05|A Chain A, Crystal Structure Of N-Terminal Domain (2-550) Of E.Coli Mnmg Length = 576

Iteration: 1
 Score =  145 bits (367), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 66/117 (56%), Positives = 83/117 (70%)
Query: 54  GPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLN 113
           GPRYCPSIEDK+ +F +   HQIFLEPEG  S E+Y NG+STSL  + Q ++++ + G+ 
Sbjct: 299 GPRYCPSIEDKVMRFADRNQHQIFLEPEGLTSNEIYPNGISTSLPFDVQMQIVRSMQGME 358
Query: 114 YSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVL 170
            + I+R  Y IEYD+FDPR L  TL  KF      +GQINGTTGYEEAAAQG +A L
Sbjct: 359 NAKIVRPGYAIEYDFFDPRDLKPTLESKFIQGLFFAGQINGTTGYEEAAAQGLLAGL 415

>pdb|3CP8|A Chain A, Crystal Structure Of Gida From Chlorobium Tepidum Length = 641

Iteration: 1
 Score =  133 bits (334), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 61/115 (53%), Positives = 79/115 (68%)
Query: 54  GPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLN 113
           GPRYCPSIEDKI +FP+  +H IFLEPEG  + E+Y+NG STSL  + Q   ++ I GL 
Sbjct: 289 GPRYCPSIEDKISRFPDKSSHHIFLEPEGTDTVEMYVNGFSTSLPEDIQIAGLRSIPGLE 348
Query: 114 YSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA 168
            + +IR  Y IEYD+F P  +  T+  +   N   +GQINGT+GYEEAAAQG +A
Sbjct: 349 EAKMIRPGYAIEYDFFHPWQIRSTMETRPVENLFFAGQINGTSGYEEAAAQGLMA 403

>pdb|2ZXH|A Chain A, Structure Of Aquifex Aeolicus Gida In The Form I Crystal Length = 637

Iteration: 1
 Score =  127 bits (318), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 66/115 (57%), Positives = 75/115 (65%)
Query: 54  GPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLN 113
           GPRYCPSIEDKI KFP+ + HQIFLEPEG  + E+Y NGLSTSL  E Q ++ + I GL 
Sbjct: 300 GPRYCPSIEDKIVKFPDKERHQIFLEPEGLDTIEIYPNGLSTSLPEEVQWEMYRSIPGLE 359
Query: 114 YSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA 168
              +IR AY IEYD   P  L  TL  K       +G  NGTTGYEEAA QG VA
Sbjct: 360 NVVLIRPAYAIEYDVVPPTELYPTLETKKIRGLFHAGNFNGTTGYEEAAGQGIVA 414

>pdb|2DPY|A Chain A, Crystal Structure Of The Flagellar Type Iii Atpase Flii Length = 438

Iteration: 1
 Score =  110 bits (276), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 82/298 (27%), Positives = 140/298 (46%), Gaps = 8/298 (2%)
Query: 618 PVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLC 677
           P+G   LGR+L+  G P+D     ++ +   + T P     +    ++L+TG++ I+ L 
Sbjct: 93  PLGPALLGRVLDGGGKPLDGLPAPDTLETGALITPPFNPLQRTPIEHVLDTGVRAINALL 152
Query: 678 PFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIG-VGERSREGNDFYHEMKES 736
                             +V    L+  +A   +   + +G +GER RE  DF   +   
Sbjct: 153 TVGRGQRMGLFAGSGVGKSV----LLGMMARYTRADVIVVGLIGERGREVKDFIENILGP 208
Query: 737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA 796
           +   +  +I    +     R++ A     IAE+FR+ G+ VLL +D++ R+ +A  E++ 
Sbjct: 209 DGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIAL 268
Query: 797 MLGRTPSAVGYQPTLAEEMGKLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTH 854
            +G  P+  GY P++  ++  L ER  +     G+IT+   +    DD  DP   +    
Sbjct: 269 AIGEPPATKGYPPSVFAKLPALVERAGNGIHGGGSITAFYTVLTEGDDQQDPIADSARAI 328
Query: 855 LDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           LD  IVLSR++AE G YPAID   S S+ +   I  E+HY      K  L  ++  +D
Sbjct: 329 LDGHIVLSRRLAEAGHYPAIDIEASISRAMTALIT-EQHYARVRLFKQLLSSFQRNRD 385

>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 =  110 bits (276), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 85/293 (29%), Positives = 142/293 (48%), Gaps = 10/293 (3%)
Query: 619 VGDCTLGRILNVLGDPIDNK--GEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVID-L 675
           VGD  LGR+++ +G P+++         ++S     P     Q+ +   +  G++ ID L
Sbjct: 7   VGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVIDQPFI-LGVRAIDGL 65
Query: 676 LCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE 735
           L   +               T  ++ +I N A       V   +GER RE N+F   + +
Sbjct: 66  LTCGIGQRIGIFAGSGVGKST--LLGMICNGA--SADIIVLALIGERGREVNEFLALLPQ 121
Query: 736 SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVS 795
           S  L K  L+    + P+  R++ A T  +IAE FR+ GK+VLL +D++ R+  A  +V 
Sbjct: 122 ST-LSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQGKNVLLMMDSVTRYARAARDVG 180
Query: 796 AMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHL 855
              G      G+ P++   + KL ER      G+IT++  + + +D++ DP      + L
Sbjct: 181 LASGEPDVRGGFPPSVFSSLPKLLERAGPAPKGSITAIYTVLLESDNVNDPIGDEVRSIL 240
Query: 856 DSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYK 908
           D  IVL+R++AE   +PAID   S S+ +   +V  EH + A E K  +  YK
Sbjct: 241 DGHIVLTRELAEENHFPAIDIGLSASRVMH-NVVTSEHLRAAAECKKLIATYK 292

>pdb|3SSA|A Chain A, Crystal Structure Of Subunit B Mutant N157t Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score = 91.7 bits (226), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 80/341 (23%), Positives = 148/341 (43%), Gaps = 26/341 (7%)
Query: 589 NIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG--------E 640
           +IV    F  T G+ ++  V+ TG+ +  P     LGRIL+  G+P D           +
Sbjct: 50  DIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLD 109
Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMM 700
           IN    +P   LPPK        + ++TGI  ID     +               T   +
Sbjct: 110 INGAAMNPYARLPPK--------DFIQTGISTIDGTNTLVRGQKLPIFSASGLPHTEIAL 161
Query: 701 ELIRNIAI---EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL 757
           ++ R  ++   E     VF  +G  + E   F  + +++  L++  +     ++P+  R+
Sbjct: 162 QIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERI 221
Query: 758 RVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG 816
                 L+ AE      G  VL+ + +I  +  A  ++ A     P   GY   +  ++ 
Sbjct: 222 VTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLA 281
Query: 817 KLQERISSTKN--GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
            L ER    K   G++T +  + +P DD+T P P  +    +  IV++R++   GIYP I
Sbjct: 282 TLYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPI 341
Query: 875 DPLESYSKQLDPYIVG----EEHYKVANEVKFYLQKYKELK 911
           + L S S+ ++  I      E+H  V++++     + ++L+
Sbjct: 342 NVLPSLSRLMNSGIGAGKTREDHKAVSDQMYAGYAEGRDLR 382

>pdb|3VR6|A Chain A, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 600

Iteration: 1
 Score = 90.1 bits (222), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 74/305 (24%), Positives = 136/305 (44%), Gaps = 24/305 (7%)
Query: 240 PLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISS 299
           P++TG + ID+  P+ KG    + G    GKT +     I + +   + +YV  G++ + 
Sbjct: 215 PMITGQRVIDTFFPVTKGGAAAVPGPFGAGKTVVQHQ--IAKWSDVDLVVYVGCGERGNE 272
Query: 300 LINVINKLKYY-------NCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDLGQDCL 352
           + +V+N+           + M+               +  S YTG TI EYFRD+G D  
Sbjct: 273 MTDVVNEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVA 332
Query: 353 IIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIF-- 410
           I+ D  ++ A A R++S  L   PG E +P    YL SRL E       Y+    ++   
Sbjct: 333 IMADSTSRWAEALREMSGRLEEMPGDEGYPA---YLGSRLAE-------YYERSGRVIAL 382
Query: 411 --NKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
             ++  G++TA   +    GD++  +  N + +      LD++L    + P+IN   S S
Sbjct: 383 GSDQREGSITAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFPSINWIQSYS 442
Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQ-YRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
                    + + L  D   M+ +  R L+   + +  + +V    L + ++++L + + 
Sbjct: 443 LYSTEVGRYMDQILQQDWSDMVTEGMRILQEEEQLNEIVRLVGIDSLSDNDRLTLEVAKS 502
Query: 528 PHENY 532
             E+Y
Sbjct: 503 IREDY 507

>pdb|3VR6|A Chain A, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 600

Iteration: 1
 Score = 77.4 bits (189), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 68/263 (25%), Positives = 112/263 (42%), Gaps = 32/263 (12%)
Query: 640 EINSKKKSPIHTLPPKFSNQIFNNNI-LETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVN 698
           E+   +K P+    P    Q  N ++ + TG +VID   P                 TV 
Sbjct: 191 ELTMMQKWPVRRGRP--IKQKLNPDVPMITGQRVIDTFFPVTKGGAAAVPGPFGAGKTVV 248
Query: 699 MMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE-------SNVLDKVSLIYGQMNE 751
             ++ +   ++     V++G GER  E  D  +E  E        +++++  LI    N 
Sbjct: 249 QHQIAKWSDVD---LVVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTVLIANTSNM 305
Query: 752 PSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTL 811
           P   R     TG++IAE FR+ G DV +  D+  R+  A  E+S  L   P   GY   L
Sbjct: 306 PVAAREASIYTGITIAEYFRDMGYDVAIMADSTSRWAEALREMSGRLEEMPGDEGYPAYL 365
Query: 812 AEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTDPSPSTT------FTHLDST 858
              + +  ER        S  + G+IT++ A+     D+++P    T      F  LDS+
Sbjct: 366 GSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSS 425
Query: 859 IVLSRQIAELGIYPAIDPLESYS 881
           +   R       +P+I+ ++SYS
Sbjct: 426 LAQKRH------FPSINWIQSYS 442

>pdb|3TIV|A Chain A, Crystal Structure Of Subunit B Mutant N157a Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score = 90.1 bits (222), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 79/341 (23%), Positives = 147/341 (43%), Gaps = 26/341 (7%)
Query: 589 NIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG--------E 640
           +IV    F  T G+ ++  V+ TG+ +  P     LGRIL+  G+P D           +
Sbjct: 50  DIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLD 109
Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMM 700
           IN    +P   LPPK        + ++TGI  ID     +                   +
Sbjct: 110 INGAAMNPYARLPPK--------DFIQTGISTIDGTNTLVRGQKLPIFSASGLPHAEIAL 161
Query: 701 ELIRNIAI---EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL 757
           ++ R  ++   E     VF  +G  + E   F  + +++  L++  +     ++P+  R+
Sbjct: 162 QIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERI 221
Query: 758 RVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG 816
                 L+ AE      G  VL+ + +I  +  A  ++ A     P   GY   +  ++ 
Sbjct: 222 VTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLA 281
Query: 817 KLQERISSTKN--GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
            L ER    K   G++T +  + +P DD+T P P  +    +  IV++R++   GIYP I
Sbjct: 282 TLYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPI 341
Query: 875 DPLESYSKQLDPYIVG----EEHYKVANEVKFYLQKYKELK 911
           + L S S+ ++  I      E+H  V++++     + ++L+
Sbjct: 342 NVLPSLSRLMNSGIGAGKTREDHKAVSDQMYAGYAEGRDLR 382

>pdb|3TGW|A Chain A, Crystal Structure Of Subunit B Mutant H156a Of The A1ao Atp Synthase Length = 460

Iteration: 1
 Score = 90.1 bits (222), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 79/341 (23%), Positives = 147/341 (43%), Gaps = 26/341 (7%)
Query: 589 NIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG--------E 640
           +IV    F  T G+ ++  V+ TG+ +  P     LGRIL+  G+P D           +
Sbjct: 50  DIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLD 109
Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMM 700
           IN    +P   LPPK        + ++TGI  ID     +                   +
Sbjct: 110 INGAAMNPYARLPPK--------DFIQTGISTIDGTNTLVRGQKLPIFSASGLPANEIAL 161
Query: 701 ELIRNIAI---EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL 757
           ++ R  ++   E     VF  +G  + E   F  + +++  L++  +     ++P+  R+
Sbjct: 162 QIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERI 221
Query: 758 RVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG 816
                 L+ AE      G  VL+ + +I  +  A  ++ A     P   GY   +  ++ 
Sbjct: 222 VTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLA 281
Query: 817 KLQERISSTKN--GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
            L ER    K   G++T +  + +P DD+T P P  +    +  IV++R++   GIYP I
Sbjct: 282 TLYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPI 341
Query: 875 DPLESYSKQLDPYIVG----EEHYKVANEVKFYLQKYKELK 911
           + L S S+ ++  I      E+H  V++++     + ++L+
Sbjct: 342 NVLPSLSRLMNSGIGAGKTREDHKAVSDQMYAGYAEGRDLR 382

>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 = 89.7 bits (221), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 79/341 (23%), Positives = 147/341 (43%), Gaps = 26/341 (7%)
Query: 589 NIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG--------E 640
           +IV    F  T G+ ++  V+ TG+ +  P     LGRIL+  G+P D           +
Sbjct: 59  DIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLD 118
Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMM 700
           IN    +P   LPPK        + ++TGI  ID     +                   +
Sbjct: 119 INGAAMNPYARLPPK--------DFIQTGISTIDGTNTLVRGQKLPIFSASGLPHNEIAL 170
Query: 701 ELIRNIAI---EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL 757
           ++ R  ++   E     VF  +G  + E   F  + +++  L++  +     ++P+  R+
Sbjct: 171 QIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERI 230
Query: 758 RVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG 816
                 L+ AE      G  VL+ + +I  +  A  ++ A     P   GY   +  ++ 
Sbjct: 231 VTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLA 290
Query: 817 KLQERISSTKN--GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
            L ER    K   G++T +  + +P DD+T P P  +    +  IV++R++   GIYP I
Sbjct: 291 TLYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPI 350
Query: 875 DPLESYSKQLDPYIVG----EEHYKVANEVKFYLQKYKELK 911
           + L S S+ ++  I      E+H  V++++     + ++L+
Sbjct: 351 NVLPSLSRLMNSGIGAGKTREDHKAVSDQMYAGYAEGRDLR 391

>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 = 89.4 bits (220), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 79/341 (23%), Positives = 147/341 (43%), Gaps = 26/341 (7%)
Query: 589 NIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKG--------E 640
           +IV    F  T G+ ++  V+ TG+ +  P     LGRIL+  G+P D           +
Sbjct: 59  DIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLD 118
Query: 641 INSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMM 700
           IN    +P   LPPK        + ++TGI  ID     +                   +
Sbjct: 119 INGAAMNPYARLPPK--------DFIQTGISTIDGTNTLVRGQKLPIFSASGLPHNEIAL 170
Query: 701 ELIRNIAI---EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL 757
           ++ R  ++   E     VF  +G  + E   F  + +++  L++  +     ++P+  R+
Sbjct: 171 QIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERI 230
Query: 758 RVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG 816
                 L+ AE      G  VL+ + +I  +  A  ++ A     P   GY   +  ++ 
Sbjct: 231 VTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLA 290
Query: 817 KLQERISSTKN--GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
            L ER    K   G++T +  + +P DD+T P P  +    +  IV++R++   GIYP I
Sbjct: 291 TLYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPI 350
Query: 875 DPLESYSKQLDPYIVG----EEHYKVANEVKFYLQKYKELK 911
           + L S S+ ++  I      E+H  V++++     + ++L+
Sbjct: 351 NVLPSLSRLMNSGIGAGKTREDHKAVSDQMYAGYAEGRDLR 391

>pdb|3VR6|D Chain D, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 465

Iteration: 1
 Score = 89.4 bits (220), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 74/291 (25%), Positives = 124/291 (42%), Gaps = 26/291 (8%)
Query: 190 FEIPVGFELLGRIVNSKGEFIDN-----KKKFLIKNRETVEKIAPGIMDRESVNEPLLTG 244
            ++ V  +++GR+ +  G   DN      +K+L  N E +  IA     R+  +E + TG
Sbjct: 84  LQLGVSEDMIGRVFDGLGRPKDNGPEILPEKYLDINGEVINPIA-----RDYPDEFIQTG 138
Query: 245 IKSIDSMIPIGKGQRELIIGD----RQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSL 300
           I +ID +  + +GQ+  +        +     IA    +   + +   ++  IG      
Sbjct: 139 ISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEA 198
Query: 301 INVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLT 359
              +   +    +D              E+  +P    T  EY   + G   L+I  D+T
Sbjct: 199 EFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMT 258
Query: 360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
            +A A R+IS   R  PGR  +PG ++   + L ER+ +I               G++T 
Sbjct: 259 NYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGL-----------KGSVTQ 307
Query: 420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
            PI+   E D T  IP     IT+GQI L   L+ S  +P I+V  S+SR+
Sbjct: 308 IPILTMPEDDKTHPIPDLTGYITEGQIILTRELYKSGIQPPIDVLPSLSRL 358

>pdb|3VR6|D Chain D, Crystal Structure Of Amp-pnp Bound Enterococcus Hirae V1-atpase [bv1] Length = 465

Iteration: 1
 Score = 83.2 bits (204), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 74/297 (24%), Positives = 125/297 (42%), Gaps = 7/297 (2%)
Query: 596 FGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPP 654
           F  T+GI  +N+ V   G P+   V +  +GR+ + LG P DN  EI  +K   I+    
Sbjct: 64  FEGTSGINLKNSSVRFLGHPLQLGVSEDMIGRVFDGLGRPKDNGPEILPEKYLDINGEVI 123
Query: 655 KFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKG-- 712
               + + +  ++TGI  ID L   +                    ++ R   +      
Sbjct: 124 NPIARDYPDEFIQTGISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDD 183
Query: 713 -CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR 771
              VF  +G    E   F  + +++  +D+  +     N+P+  R+      L+ AE   
Sbjct: 184 FAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTAAEYLA 243
Query: 772 -NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN--G 828
              G  VL+ + ++  +  A  E+SA     P   GY   L   +  L ER    +   G
Sbjct: 244 YEKGMHVLVIMTDMTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGLKG 303
Query: 829 TITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLD 885
           ++T +  + +P DD T P P  T    +  I+L+R++ + GI P ID L S S+  D
Sbjct: 304 SVTQIPILTMPEDDKTHPIPDLTGYITEGQIILTRELYKSGIQPPIDVLPSLSRLKD 360

>pdb|3GQB|B Chain B, Crystal Structure Of The A3b3 Complex From V-atpase Length = 464

Iteration: 1
 Score = 88.6 bits (218), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 72/294 (24%), Positives = 126/294 (42%), Gaps = 17/294 (5%)
Query: 624 LGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXX 683
           LGR  N +G PID    I  +K+ PI  LP     +      ++TGI  ID++   +   
Sbjct: 89  LGRRFNGIGKPIDGLPPITPEKRLPITGLPLNPVARRKPEQFIQTGISTIDVMNTLVRGQ 148
Query: 684 XXXXXXXXXXXXTVNMMELIRNIAI----------EHKGCSVFIGVGERSREGNDFYHEM 733
                            ++ R   +          E     VF  +G   RE + F  E 
Sbjct: 149 KLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEF 208
Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGT 792
           + +  L +  L   + ++P+  R+      L++AE         VL+ + ++  ++ A  
Sbjct: 209 ERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSEALR 268
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQER--ISSTKNGTITSVQAIYVPADDLTDPSPST 850
           E+ A     P   GY   +  ++  + ER  +   K G++T +  + +P DD T P P  
Sbjct: 269 EIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEGKKGSVTQIPILSMPDDDRTHPIPDL 328
Query: 851 TFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI----VGEEHYKVANEV 900
           T    +  I LSR++   GIYP IDPL S S+ ++  +      E+H +V++++
Sbjct: 329 TGYITEGQIQLSRELHRKGIYPPIDPLPSLSRLMNNGVGKGKTREDHKQVSDQL 382

>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 = 88.2 bits (217), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 72/294 (24%), Positives = 125/294 (42%), Gaps = 17/294 (5%)
Query: 624 LGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXX 683
           LGR  N +G PID    I  +K+ PI  LP     +      ++TGI  ID++   +   
Sbjct: 89  LGRRFNGIGKPIDGLPPITPEKRLPITGLPLNPVARRKPEQFIQTGISTIDVMNTLVRGQ 148
Query: 684 XXXXXXXXXXXXTVNMMELIRNIAI----------EHKGCSVFIGVGERSREGNDFYHEM 733
                            ++ R   +          E     VF  +G   RE + F  E 
Sbjct: 149 KLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEF 208
Query: 734 KESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGT 792
           + +  L +  L   + ++P+  R+      L++AE         VL+ + ++  +  A  
Sbjct: 209 ERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYCEALR 268
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQER--ISSTKNGTITSVQAIYVPADDLTDPSPST 850
           E+ A     P   GY   +  ++  + ER  +   K G++T +  + +P DD T P P  
Sbjct: 269 EIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEGKKGSVTQIPILSMPDDDRTHPIPDL 328
Query: 851 TFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI----VGEEHYKVANEV 900
           T    +  I LSR++   GIYP IDPL S S+ ++  +      E+H +V++++
Sbjct: 329 TGYITEGQIQLSRELHRKGIYPPIDPLPSLSRLMNNGVGKGKTREDHKQVSDQL 382

>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 = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 80/321 (24%), Positives = 133/321 (41%), Gaps = 38/321 (11%)
Query: 616 LTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDL 675
           + P G+ T+   + VL    ++  E+      P+    P    ++  N    TG++++D+
Sbjct: 160 VKPAGEYTVEEPVVVL----EDGTELKMYHTWPVRRARP-VQRKLDPNTPFLTGMRILDV 214
Query: 676 LCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE 735
           L P                 TV    L +     +    V++G GER  E  D   E  E
Sbjct: 215 LFPVAMGGTAAIPGPFGSGKTVTQQSLAK---WSNADVVVYVGCGERGNEMTDVLVEFPE 271
Query: 736 -------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT 788
                    ++ +  LI    N P   R      G++IAE FR+ G  V L  D+  R+ 
Sbjct: 272 LTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTSRWA 331
Query: 789 LAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-----KNGTITSVQAIYVPADDL 843
            A  E+S+ L   P+  GY P LA  +    ER         + G +T V A+  P  D+
Sbjct: 332 EALREISSRLEEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDM 391
Query: 844 TDPSPSTT------FTHLDSTIVLSRQIAELGIYPAIDPLESYS---KQLDPYI---VGE 891
           ++P   +T      F  LD+++   R       +PAI+   SYS     LDP+    V E
Sbjct: 392 SEPVTQSTLRIVGAFWRLDASLAFRRH------FPAINWNGSYSLFTSALDPWYRENVAE 445
Query: 892 EHYKVANEVKFYLQKYKELKD 912
           ++ ++ + +   LQ+   L++
Sbjct: 446 DYPELRDAISELLQREAGLQE 466

>pdb|3GQB|A Chain A, Crystal Structure Of The A3b3 Complex From V-atpase Length = 578

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 79/321 (24%), Positives = 133/321 (41%), Gaps = 38/321 (11%)
Query: 616 LTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDL 675
           + P G+ T+   + VL    ++  E+      P+    P    ++  N    TG++++D+
Sbjct: 160 VKPAGEYTVEEPVVVL----EDGTELKMYHTWPVRRARP-VQRKLDPNTPFLTGMRILDV 214
Query: 676 LCPFLXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE 735
           L P                 +V    L +     +    V++G GER  E  D   E  E
Sbjct: 215 LFPVAMGGTAAIPGPFGSGKSVTQQSLAK---WSNADVVVYVGSGERGNEMTDVLVEFPE 271
Query: 736 -------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT 788
                    ++ +  LI    N P   R      G++IAE FR+ G  V L  D+  R+ 
Sbjct: 272 LTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTSRWA 331
Query: 789 LAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST-----KNGTITSVQAIYVPADDL 843
            A  E+S+ L   P+  GY P LA  +    ER         + G +T V A+  P  D+
Sbjct: 332 EALREISSRLEEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDM 391
Query: 844 TDPSPSTT------FTHLDSTIVLSRQIAELGIYPAIDPLESYS---KQLDPYI---VGE 891
           ++P   +T      F  LD+++   R       +PAI+   SYS     LDP+    V E
Sbjct: 392 SEPVTQSTLRIVGAFWRLDASLAFRRH------FPAINWNGSYSLFTSALDPWYRENVAE 445
Query: 892 EHYKVANEVKFYLQKYKELKD 912
           ++ ++ + +   LQ+   L++
Sbjct: 446 DYPELRDAISELLQREAGLQE 466

>pdb|3VR2|D Chain D, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 465

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 76/291 (26%), Positives = 123/291 (42%), Gaps = 26/291 (8%)
Query: 190 FEIPVGFELLGRIVNSKGEFIDN-----KKKFLIKNRETVEKIAPGIMDRESVNEPLLTG 244
            ++ V  + +GR+ +  G   DN      +K+L  N E +  IA     R+  +E + TG
Sbjct: 84  LQLGVSEDXIGRVFDGLGRPKDNGPEILPEKYLDINGEVINPIA-----RDYPDEFIQTG 138
Query: 245 IKSIDSMIPIGKGQRELIIGD----RQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSL 300
           I +ID +  + +GQ+  +        +     IA    +   + +   ++  IG      
Sbjct: 139 ISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEA 198
Query: 301 INVINKLKYYNCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLT 359
                  +    +D              E+  +P    T  EY   + G   L+I  D T
Sbjct: 199 EFFXEDFRQTGAIDRSVXFXNLANDPAIERIATPRXALTAAEYLAYEKGXHVLVIXTDXT 258
Query: 360 KHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
            +A A R+IS   R  PGR  +PG ++   + L ER+ +I               G++T 
Sbjct: 259 NYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRGL-----------KGSVTQ 307
Query: 420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
            PI+   E D T  IP     IT+GQI L   L+ S  +P I+V  S+SR+
Sbjct: 308 IPILTXPEDDKTHPIPDLTGYITEGQIILTRELYKSGIQPPIDVLPSLSRL 358

>pdb|3VR2|D Chain D, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 465

Iteration: 1
 Score = 72.8 bits (177), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 75/308 (24%), Positives = 125/308 (40%), Gaps = 7/308 (2%)
Query: 585 QIGENIVRTIAFGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINS 643
           ++ E+      F  T+GI  +N+ V   G P+   V +  +GR+ + LG P DN  EI  
Sbjct: 53  EVQEDKAXVQIFEGTSGINLKNSSVRFLGHPLQLGVSEDXIGRVFDGLGRPKDNGPEILP 112
Query: 644 KKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLXXXXXXXXXXXXXXXTVNMMELI 703
           +K   I+        + + +  ++TGI  ID L   +                    ++ 
Sbjct: 113 EKYLDINGEVINPIARDYPDEFIQTGISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIA 172
Query: 704 RNIAIEHKG---CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           R   +         VF  +G    E   F  + +++  +D+        N+P+  R+   
Sbjct: 173 RQATVLDSSDDFAVVFAAIGITFEEAEFFXEDFRQTGAIDRSVXFXNLANDPAIERIATP 232
Query: 761 LTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ 819
              L+ AE      G  VL+   +   +  A  E+SA     P   GY   L   +  L 
Sbjct: 233 RXALTAAEYLAYEKGXHVLVIXTDXTNYAEALREISAARREVPGRRGYPGYLYTNLATLF 292
Query: 820 ERISSTKN--GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPL 877
           ER    +   G++T +  +  P DD T P P  T    +  I+L+R++ + GI P ID L
Sbjct: 293 ERAGRIRGLKGSVTQIPILTXPEDDKTHPIPDLTGYITEGQIILTRELYKSGIQPPIDVL 352
Query: 878 ESYSKQLD 885
            S S+  D
Sbjct: 353 PSLSRLKD 360

>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 = 84.7 bits (208), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSAKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPAGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHWPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>pdb|3M4Y|A Chain A, Structural Characterization Of The Subunit A Mutant P235a Of The A-Atp Synthase Length = 588

Iteration: 1
 Score = 84.3 bits (207), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGAFGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.3 bits (207), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPAPFGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.3 bits (207), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFASGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>pdb|1VDZ|A Chain A, Crystal Structure Of A-Type Atpase Catalytic Subunit A From Pyrococcus Horikoshii Ot3 Length = 588

Iteration: 1
 Score = 84.3 bits (207), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSGATVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGAGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 84.0 bits (206), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 79/318 (24%), Positives = 127/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                           TV   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSGKTVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>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 = 82.4 bits (202), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 78/318 (24%), Positives = 126/318 (39%), Gaps = 34/318 (10%)
Query: 620 GDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPF 679
           GD T+  ++  +  P     E+   ++ P+    P +  ++     L TG +VID   P 
Sbjct: 166 GDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQ 224
Query: 680 LXXXXXXXXXXXXXXXTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE---- 735
                            V   +L +          ++IG GER  E  D   E  +    
Sbjct: 225 AKGGTAAIPGPFGSGKAVTQHQLAK---WSDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Query: 736 ---SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGT 792
                ++++  LI    N P   R     TG++IAE FR+ G DV L  D+  R+  A  
Sbjct: 282 KTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALR 341
Query: 793 EVSAMLGRTPSAVGYQPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTD 845
           E+S  L   P   GY   LA ++ +  ER        S  + G+++ + A+  P  D ++
Sbjct: 342 EISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSE 401
Query: 846 PSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS-----------KQLDPYIVGEEHY 894
           P    T   +     L   +A    +PAI+ L SYS           K +DP     E  
Sbjct: 402 PVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDP-----EWK 456
Query: 895 KVANEVKFYLQKYKELKD 912
            + ++    LQK  EL++
Sbjct: 457 AMRDKAMALLQKESELQE 474

>pdb|3VR2|A Chain A, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 600

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 62/234 (26%), Positives = 102/234 (43%), Gaps = 23/234 (9%)
Query: 240 PLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISS 299
           P +TG + ID+  P+ KG    + G    GKT +     I + +   + +YV  G++ + 
Sbjct: 215 PXITGQRVIDTFFPVTKGGAAAVPGPFGAGKTVVQHQ--IAKWSDVDLVVYVGCGERGNE 272
Query: 300 LINVINKLKYY-------NCMDYXXXXXXXXXXXXXEQYISPYTGCTIGEYFRDLGQDCL 352
             +V+N+           +  +               +  S YTG TI EYFRD G D  
Sbjct: 273 XTDVVNEFPELIDPNTGESLXERTVLIANTSNXPVAAREASIYTGITIAEYFRDXGYDVA 332
Query: 353 IIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIF-- 410
           I  D  ++ A A R+ S  L   PG E +P    YL SRL E       Y+    ++   
Sbjct: 333 IXADSTSRWAEALREXSGRLEEXPGDEGYPA---YLGSRLAE-------YYERSGRVIAL 382
Query: 411 --NKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAIN 462
             ++  G++TA   +    GD++  +  N + +      LD++L    + P+IN
Sbjct: 383 GSDQREGSITAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFPSIN 436

>pdb|3VR2|A Chain A, Crystal Structure Of Nucleotide-free A3b3 Complex From Enterococcus Hirae V-atpase [ea3b3] Length = 600

Iteration: 1
 Score = 77.4 bits (189), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 68/263 (25%), Positives = 109/263 (41%), Gaps = 32/263 (12%)
Query: 640 EINSKKKSPIHTLPPKFSNQIFNNNILE-TGIKVIDLLCPFLXXXXXXXXXXXXXXXTVN 698
           E+   +K P+    P    Q  N ++   TG +VID   P                 TV 
Sbjct: 191 ELTXXQKWPVRRGRP--IKQKLNPDVPXITGQRVIDTFFPVTKGGAAAVPGPFGAGKTVV 248
Query: 699 MMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE-------SNVLDKVSLIYGQMNE 751
             ++ +   ++     V++G GER  E  D  +E  E        ++ ++  LI    N 
Sbjct: 249 QHQIAKWSDVD---LVVYVGCGERGNEXTDVVNEFPELIDPNTGESLXERTVLIANTSNX 305
Query: 752 PSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTL 811
           P   R     TG++IAE FR+ G DV +  D+  R+  A  E S  L   P   GY   L
Sbjct: 306 PVAAREASIYTGITIAEYFRDXGYDVAIXADSTSRWAEALREXSGRLEEXPGDEGYPAYL 365
Query: 812 AEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTDPSPSTT------FTHLDST 858
              + +  ER        S  + G+IT++ A+     D+++P    T      F  LDS+
Sbjct: 366 GSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSS 425
Query: 859 IVLSRQIAELGIYPAIDPLESYS 881
           +   R       +P+I+ ++SYS
Sbjct: 426 LAQKRH------FPSINWIQSYS 442

>pdb|3G5S|A Chain A, Crystal Structure Of Thermus Thermophilus Trmfo In Complex With Glutathione Length = 443

Iteration: 1
 Score = 57.8 bits (138), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 34/94 (36%), Positives = 46/94 (48%), Gaps = 1/94 (1%)
Query: 85  SRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFD-PRCLNQTLNIKFA 143
            R   L G  T L    QK+LI+ I GL  + I+R+       Y + PR L +TL  + A
Sbjct: 269 GRXWSLVGFQTGLKWPEQKRLIQXIPGLENAEIVRYGVXHRNTYLNAPRLLGETLEFREA 328
Query: 144 NNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNL 177
                +G + G  GY E+AA GF+A L    K L
Sbjct: 329 EGLYAAGVLAGVEGYLESAATGFLAGLNAARKAL 362

>pdb|3G5Q|A Chain A, Crystal Structure Of Thermus Thermophilus Trmfo Length = 443

Iteration: 1
 Score = 56.6 bits (135), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 34/94 (36%), Positives = 46/94 (48%), Gaps = 1/94 (1%)
Query: 85  SRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNIEYDYFD-PRCLNQTLNIKFA 143
            R   L G  T L    QK+LI+ I GL  + I+R+       Y + PR L +TL  + A
Sbjct: 269 GRMWSLVGFQTGLKWPEQKRLIQMIPGLENAEIVRYGVMHRNTYLNAPRLLGETLEFREA 328
Query: 144 NNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNL 177
                +G + G  GY E+AA GF+A L    K L
Sbjct: 329 EGLYAAGVLAGVEGYLESAATGFLAGLNAARKAL 362

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	915
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	0.0
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	6e-12
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	0.0
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	2e-19
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	0.0
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	1e-10
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	0.0
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	2e-12
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	0.0
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	3e-21
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	0.0
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	1e-21
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	0.0
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	2e-21
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	0.0
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	3e-20
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	1e-125
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	1e-31
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	1e-115
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	1e-34
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	3e-94
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	2e-59
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	8e-70
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	3e-49
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	2e-68
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	8e-50
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	3e-68
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	1e-62
2zxi_A	637	TRNA uridine 5-carboxymethylaminomethyl modificat	2e-54
3ces_A	651	MNMG, tRNA uridine 5-carboxymethylaminomethyl modi	3e-54
3cp8_A	641	TRNA uridine 5-carboxymethylaminomethyl modificati	3e-54
3g5s_A	443	Methylenetetrahydrofolate--tRNA-(uracil-5-)- methy	1e-33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1wu0_A	72	ATP synthase C chain; ATPase, membrane protein, hy	3e-13
1a91_A	79	F1FO ATPase subunit C; membrane protein, hydrogen	3e-13
2x2v_A	69	ATP synthase subunit C; membrane protein, ION tran	8e-12
2xqu_A	82	C15_RING, ATP synthase C chain; membrane protein,	8e-11
2wgm_A	89	ATP synthase subunit C, sodium ION specific; F1FO-	7e-07
2xnd_J	72	ATP synthase lipid-binding protein, mitochondrial;	6e-04
4f4s_A	76	ATP synthase subunit 9, mitochondrial; C10 ring, F	8e-04

>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 ... Length = 482

 Score =  648 bits (1675), Expect = 0.0
 Identities = 219/338 (64%), Positives = 262/338 (77%), Gaps = 7/338 (2%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V Q +GE+ VRTIA   T G+ R   V+D+G PI  PVG  TLGRI+NV+G+PID +G I
Sbjct: 53  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPI 112

Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME 701
            +K+ + IH   P+F        IL TGIKV+DLL P+ KGGKIGLFGGAGVGKTV +ME
Sbjct: 113 KTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 172

Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD------KVSLIYGQMNEPSGN 755
           LI N+A  H G SVF GVGER+REGND YHEM ES V++      KV+L+YGQMNEP G 
Sbjct: 173 LINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGA 232

Query: 756 RLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE 814
           R RVALTGL++AE FR+  G+DVLLFIDNI+RFT AG+EVSA+LGR PSAVGYQPTLA +
Sbjct: 233 RARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATD 292

Query: 815 MGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAI 874
           MG +QERI++TK G+ITSVQAIYVPADDLTDP+P+TTF HLD+T VLSR IAELGIYPA+
Sbjct: 293 MGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAV 352

Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           DPL+S S+ +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 353 DPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQD 390

>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 ... Length = 482

 Score = 68.0 bits (167), Expect = 6e-12
 Identities = 67/233 (28%), Positives = 91/233 (39%), Gaps = 58/233 (24%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRES 236
           L +GQK   +     IPVG E LGRI+N  GE ID +     K    +   AP  ++   
Sbjct: 73  LVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEFVEMSV 132

Query: 237 VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQK 296
             E L+TGIK +D + P  KG +  + G    GKT +                       
Sbjct: 133 EQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVL----------------------- 169

Query: 297 ISSLINVI--------------------NKLKYYNCMDYTVVVAATAADSAAE----QYI 332
           I  LIN +                    N L  Y+ M  + V+    A S       Q  
Sbjct: 170 IMELINNVAKAHGGYSVFAGVGERTREGNDL--YHEMIESGVINLKDATSKVALVYGQMN 227

Query: 333 SP--------YTGCTIGEYFRDL-GQDCLIIYDDLTKHAWAYRQISLLLRRPP 376
            P         TG T+ EYFRD  GQD L+  D++ +   A  ++S LL R P
Sbjct: 228 EPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIP 280

>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 =  636 bits (1643), Expect = 0.0
 Identities = 228/404 (56%), Positives = 299/404 (74%), Gaps = 2/404 (0%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
           AV++    +L +G K  CT +I E+PVG  LLGR+VN+ G  ID K          VE I
Sbjct: 73  AVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFSAVEAI 132

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG+++R+SV++P+ TG K++DSMIPIG+GQRELIIGDRQTGKT +AID IINQ++  + 
Sbjct: 133 APGVIERQSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQRDSGIK 192

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++ NV+ KL+ +  +  T+VV ATA++SAA QY++PY GC +GEYFRD 
Sbjct: 193 CIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDR 252

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+D LIIYDDL+K A AYRQISLLLRRPPGREAFPGDVFYLHSRLLER++++N  ++E  
Sbjct: 253 GEDALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEYVEAF 312

Query: 408 KIFNKNNGT--LTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL 465
                   T  LTA PIIET  GDV++F+PTNVISITDGQIFL+TNLFN+  RPA+N G+
Sbjct: 313 TKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPGI 372

Query: 466 SVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMK 525
           SVSRVGGAAQ KI+KKLSG IR  LAQYREL +FS+F+SDLD  T+ QL +G+K++ L+K
Sbjct: 373 SVSRVGGAAQTKIMKKLSGGIRTALAQYRELAAFSQFASDLDDATRKQLDHGQKVTELLK 432

Query: 526 QKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
           QK +   S+ +  ++L   +  +   + + +I  FE  ++ Y  
Sbjct: 433 QKQYAPMSVAQQSLVLFAAERGYLADVELSKIGSFEAALLAYVD 476

>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 = 91.6 bits (228), Expect = 2e-19
 Identities = 77/344 (22%), Positives = 150/344 (43%), Gaps = 29/344 (8%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
            + V  +  G    +     V  TG+ +  PVG   LGR++N LG PID KG ++    S
Sbjct: 68  RDSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFS 127

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
            +  + P    +   +  ++TG K +D + P  +G +  + G    GKT   ++ I N  
Sbjct: 128 AVEAIAPGVIERQSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR 187

Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
                C +++ +G+++   ++   +++E   L    ++    +E +  +      G ++ 
Sbjct: 188 DSGIKC-IYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMG 246

Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP--------TLAEEMGKLQ 819
           E FR+ G+D L+  D++ +  +A  ++S +L R P    + P         L E   ++ 
Sbjct: 247 EYFRDRGEDALIIYDDLSKQAVAYRQISLLLRRPPGREAF-PGDVFYLHSRLLERAARVN 305

Query: 820 ERISSTKN--------GTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIY 871
                           G++T++  I   A D++   P+   +  D  I L   +   GI 
Sbjct: 306 AEYVEAFTKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIR 365

Query: 872 PAIDPLESYSKQLDPYIVG-----EEHYKVANEVKFYLQKYKEL 910
           PA++P  S S+      VG     +   K++  ++  L +Y+EL
Sbjct: 366 PAVNPGISVSR------VGGAAQTKIMKKLSGGIRTALAQYREL 403

>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* Length = 498

 Score =  632 bits (1633), Expect = 0.0
 Identities = 212/339 (62%), Positives = 260/339 (76%), Gaps = 8/339 (2%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           VQQ +G N VR +A   T+G+ R   V+DTG P+  PVG  TLGRI NVLG+P+DN   +
Sbjct: 65  VQQLLGNNRVRAVAMSATDGLTRGMEVIDTGAPLSVPVGGPTLGRIFNVLGEPVDNLRPV 124

Query: 642 NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMME 701
           +++  SPIH   P F+      +I ETGIKV++LL P+ +GGKIGLFGGAGVGKTV +ME
Sbjct: 125 DTRTTSPIHRSAPAFTQLDTKLSIFETGIKVVNLLAPYRRGGKIGLFGGAGVGKTVLIME 184

Query: 702 LIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD-------KVSLIYGQMNEPSG 754
           LI NIA  H G SVF GVGER+REGND Y EMKES V++       KV+L+YGQMNEP G
Sbjct: 185 LINNIAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPG 244

Query: 755 NRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAE 813
            R+RV LT L++AE FR+ + +DVLLFIDNI+RF  AG+EVSA+LGR PSAVGYQPTL+ 
Sbjct: 245 ARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLST 304

Query: 814 EMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPA 873
           EMG LQERI+STK G+ITS+QA+YVPADDLTDP+P+TTF HLD+T VLSR +A  GIYPA
Sbjct: 305 EMGSLQERITSTKEGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPA 364

Query: 874 IDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +DPL+S S  L P IVGEEHY++A  VK  LQ+YKEL+D
Sbjct: 365 VDPLDSTSTMLQPRIVGEEHYEIAQRVKETLQRYKELQD 403

>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* Length = 498

 Score = 64.3 bits (157), Expect = 1e-10
 Identities = 56/223 (25%), Positives = 92/223 (41%), Gaps = 37/223 (16%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRES 236
           LT+G +   T     +PVG   LGRI N  GE +DN +    +    + + AP     ++
Sbjct: 85  LTRGMEVIDTGAPLSVPVGGPTLGRIFNVLGEPVDNLRPVDTRTTSPIHRSAPAFTQLDT 144

Query: 237 VNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNVICIYVCIGQ 295
                 TGIK ++ + P  +G +  + G    GKT + ++ I N  K    + ++  +G+
Sbjct: 145 KLSIFETGIKVVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGE 204

Query: 296 ------------KISSLINVINKLKYYNCMDY---------TVVVAATAADSAAEQYISP 334
                       K S +IN  N  +    + Y          + V  T            
Sbjct: 205 RTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLT------------ 252

Query: 335 YTGCTIGEYFRDL-GQDCLIIYDDLTKHAWAYRQISLLLRRPP 376
               T+ EYFRD+  QD L+  D++ +   A  ++S LL R P
Sbjct: 253 --ALTMAEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMP 293

>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 Length = 473

 Score =  628 bits (1621), Expect = 0.0
 Identities = 213/333 (63%), Positives = 266/333 (79%), Gaps = 2/333 (0%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI 641
           V   +G++ VRTIA  +T+G+ R   V+DTG PI  PVG  TLGR+ NVLG+PID +G+I
Sbjct: 50  VALHLGDDTVRTIAMASTDGLIRGMEVIDTGAPISVPVGQVTLGRVFNVLGEPIDLEGDI 109

Query: 642 NSK-KKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMM 700
            +  ++ PIH   PKF        ILETGIKV+DLL P++KGGKIGLFGGAGVGKTV + 
Sbjct: 110 PADARRDPIHRPAPKFEELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQ 169

Query: 701 ELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
           ELI NIA EH G SVF GVGER+REGND YHEMK+S V+ K ++++GQMNEP G R+RVA
Sbjct: 170 ELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVA 229

Query: 761 LTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ 819
           LTGL++AE FR+  G+D LLFIDNI+RFT AG+EVSA+LGR PSA+GYQPTLA EMG+LQ
Sbjct: 230 LTGLTMAEYFRDEQGQDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQ 289

Query: 820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
           ERI+ST  G+ITS+QAIYVPADD TDP+P+TTF+HLD+T  L R++AE+GIYPA+DPL S
Sbjct: 290 ERITSTAKGSITSIQAIYVPADDYTDPAPATTFSHLDATTNLERKLAEMGIYPAVDPLVS 349

Query: 880 YSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
            S+ L P IVGEEHY+VA +V+  L++YKEL+D
Sbjct: 350 TSRALAPEIVGEEHYQVARKVQQTLERYKELQD 382

>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 Length = 473

 Score = 69.3 bits (170), Expect = 2e-12
 Identities = 57/203 (28%), Positives = 95/203 (46%), Gaps = 3/203 (1%)

Query: 177 LTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKN-RETVEKIAPGIMDRE 235
           L +G +   T     +PVG   LGR+ N  GE ID +        R+ + + AP   +  
Sbjct: 70  LIRGMEVIDTGAPISVPVGQVTLGRVFNVLGEPIDLEGDIPADARRDPIHRPAPKFEELA 129

Query: 236 SVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNVICIYVCIG 294
           +  E L TGIK +D + P  KG +  + G    GKT +  + I N  +    I ++  +G
Sbjct: 130 TEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVG 189

Query: 295 QKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL-GQDCLI 353
           ++     ++ +++K    +  T +V     +    +     TG T+ EYFRD  GQD L+
Sbjct: 190 ERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDGLL 249

Query: 354 IYDDLTKHAWAYRQISLLLRRPP 376
             D++ +   A  ++S LL R P
Sbjct: 250 FIDNIFRFTQAGSEVSALLGRMP 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 =  620 bits (1601), Expect = 0.0
 Identities = 214/402 (53%), Positives = 292/402 (72%), Gaps = 9/402 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
            V++     + +G +   T +I E+PVG  LLGR+VN  G+ +D +          +E  
Sbjct: 73  VVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLGQPLDGRGPIETAEYRPIESP 132

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG+MDR+SV+EPL TGIK+IDSMIPIG+GQRELIIGDRQTGKTTIAIDTIINQK ++VI
Sbjct: 133 APGVMDRKSVHEPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQKGQDVI 192

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++  V+  L+ ++ +DYT+VV A+A++ A   Y++PY GC +GEYF   
Sbjct: 193 CIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYK 252

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+  L++YDDL+K A AYR++SLLLRRPPGREA+PGDVFYLHSRLLER++K++       
Sbjct: 253 GKHALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSD------ 306

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
               K  G+LTA P IET  GDV+++IPTNVISITDGQIFL+++LF S  RPA+NVG+SV
Sbjct: 307 ---EKGGGSLTALPFIETQAGDVSAYIPTNVISITDGQIFLESDLFYSGVRPAVNVGISV 363

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVGGAAQ K +KK++G +R+ LAQYREL++F++F SDLD  T+ +L  GE+   ++KQ 
Sbjct: 364 SRVGGAAQIKAMKKVAGTLRLDLAQYRELQAFAQFGSDLDKATQAKLNRGERTVEILKQD 423

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            H+   + E +I +  + N F   IP++ +  FE  ++ + R
Sbjct: 424 EHKPMPVEEQVISIYAVTNGFMDDIPVEDVRRFEEELLSFMR 465

>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 = 97.4 bits (243), Expect = 3e-21
 Identities = 87/336 (25%), Positives = 152/336 (45%), Gaps = 24/336 (7%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
           E+ V  +  G    I+  T V  TG+ +  PVG+  LGR++N LG P+D +G I + +  
Sbjct: 68  EDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLGQPLDGRGPIETAEYR 127

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
           PI +  P   ++   +  L+TGIK ID + P  +G +  + G    GKT   ++ I N  
Sbjct: 128 PIESPAPGVMDRKSVHEPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK 187

Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
            +   C +++ +G++          +++ + LD   ++    +EP+         G ++ 
Sbjct: 188 GQDVIC-IYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMG 246

Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP--------TLAEEMGKLQ 819
           E F   GK  L+  D++ +   A  E+S +L R P    Y P         L E   KL 
Sbjct: 247 EYFMYKGKHALVVYDDLSKQAAAYRELSLLLRRPPGREAY-PGDVFYLHSRLLERAAKLS 305

Query: 820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
           +       G++T++  I   A D++   P+   +  D  I L   +   G+ PA++   S
Sbjct: 306 DEKGG---GSLTALPFIETQAGDVSAYIPTNVISITDGQIFLESDLFYSGVRPAVNVGIS 362

Query: 880 YSKQLDPYIVG-----EEHYKVANEVKFYLQKYKEL 910
            S+      VG     +   KVA  ++  L +Y+EL
Sbjct: 363 VSR------VGGAAQIKAMKKVAGTLRLDLAQYREL 392

>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 =  620 bits (1601), Expect = 0.0
 Identities = 208/402 (51%), Positives = 292/402 (72%), Gaps = 9/402 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
            +++ + K++ +G      ++I E+PVG ELLGR+VN  GE +D K     KN   +E  
Sbjct: 86  IIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFRPIEIK 145

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APG++ R+ V+ PL TGIK+IDSMIPIG+GQRELIIGDRQTGKT IAIDTIINQK + V 
Sbjct: 146 APGVIYRKPVDTPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGQGVY 205

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           CIYV IGQK S++  +I+KL+ Y  M+YT VV A+A+D A+ QYI+PY GC +GEYF   
Sbjct: 206 CIYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYS 265

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
           G+D L++YDDL+KHA AYRQ+SLL+RRPPGREA+PGD+FYLHSRLLER+ ++N       
Sbjct: 266 GRDALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRLLERAVRLND------ 319

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
                  G+LTA PI+ET   D++++IPTNVISITDGQI+L+  LF +  RPAINVGLSV
Sbjct: 320 ---KLGGGSLTALPIVETQANDISAYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLSV 376

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVGG+AQ K +K+++G +RI LAQYRELE+F++F+++LD  T+ Q+  G+++  L+KQ+
Sbjct: 377 SRVGGSAQIKAMKQVAGMLRIDLAQYRELETFAQFATELDPATRAQIIRGQRLMELLKQE 436

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            +    + E +++L      +   +P++++  FE   +++  
Sbjct: 437 QYSPMPVEEQVVVLFAGVRGYLDDLPVEEVRRFEKEFLRFMH 478

>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 = 98.5 bits (246), Expect = 1e-21
 Identities = 84/336 (25%), Positives = 156/336 (46%), Gaps = 24/336 (7%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
           E+ V  I  G    IK    V    + I  PVG+  LGR++N LG+P+D KG IN+K   
Sbjct: 81  EDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFR 140

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
           PI    P    +   +  L+TGIK ID + P  +G +  + G    GKT   ++ I N  
Sbjct: 141 PIEIKAPGVIYRKPVDTPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK 200

Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
            +   C +++ +G++         ++++   ++  +++    ++P+  +      G ++ 
Sbjct: 201 GQGVYC-IYVAIGQKKSAIARIIDKLRQYGAMEYTTVVVASASDPASLQYIAPYAGCAMG 259

Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP--------TLAEEMGKLQ 819
           E F  SG+D L+  D++ +  +A  ++S ++ R P    Y P         L E   +L 
Sbjct: 260 EYFAYSGRDALVVYDDLSKHAVAYRQLSLLMRRPPGREAY-PGDIFYLHSRLLERAVRLN 318

Query: 820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
           +++     G++T++  +   A+D++   P+   +  D  I L   +   G  PAI+   S
Sbjct: 319 DKL---GGGSLTALPIVETQANDISAYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLS 375

Query: 880 YSKQLDPYIVG-----EEHYKVANEVKFYLQKYKEL 910
            S+      VG     +   +VA  ++  L +Y+EL
Sbjct: 376 VSR------VGGSAQIKAMKQVAGMLRIDLAQYREL 405

>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 =  618 bits (1596), Expect = 0.0
 Identities = 198/402 (49%), Positives = 274/402 (68%), Gaps = 9/402 (2%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
            VL+ D   + +G     T +I +IPV    LGR++N+  + ID + +        +E  
Sbjct: 74  VVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEITASESRLIESP 133

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI 287
           APGIM R SV EPL TG+ +ID+MIP+G+GQRELIIGDRQTGKT +A DTI+NQ+ +NVI
Sbjct: 134 APGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQGQNVI 193

Query: 288 CIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL 347
           C+YV IGQK SS+  V+   +    M+YT+VVA TA   A  QY++PYTG  + EYF   
Sbjct: 194 CVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYR 253

Query: 348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK 407
            +  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K++       
Sbjct: 254 ERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSS------ 307

Query: 408 KIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSV 467
                  G++TA PI+ET  GDV+++IPTNVISITDGQIFL  +LFN+  RPAINVG+SV
Sbjct: 308 ---LLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISV 364

Query: 468 SRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQK 527
           SRVG AAQ K +KK++G +++ LAQ+ ELE+F++F+SDLD  T+ QL  G+++  L+KQ 
Sbjct: 365 SRVGSAAQIKAMKKVAGKLKLELAQFAELEAFAQFASDLDKATQNQLARGQRLRELLKQP 424

Query: 528 PHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
                ++ E ++ +    N +   + + Q+  + + +  Y +
Sbjct: 425 QSAPLTVEEQVMTIYTGTNGYLDSLELDQVRKYLVELRTYVK 466

>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 = 97.8 bits (244), Expect = 2e-21
 Identities = 83/336 (24%), Positives = 148/336 (44%), Gaps = 24/336 (7%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
            N V  +  G+   I+  + V  TG+    PV +  LGR++N L  PID +GEI + +  
Sbjct: 69  SNNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEITASESR 128

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
            I +  P   ++      L+TG+  ID + P  +G +  + G    GKT    + I N  
Sbjct: 129 LIESPAPGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQ 188

Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
            ++  C V++ +G+++          +E   ++   ++    + P+  +     TG ++A
Sbjct: 189 GQNVIC-VYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALA 247

Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP--------TLAEEMGKLQ 819
           E F    +  L+  D++ +   A  ++S +L R P    Y P         L E   KL 
Sbjct: 248 EYFMYRERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAY-PGDVFYLHSRLLERAAKLS 306

Query: 820 ERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLES 879
             +     G++T++  +   A D++   P+   +  D  I LS  +   GI PAI+   S
Sbjct: 307 SLLGE---GSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGIS 363

Query: 880 YSKQLDPYIVG-----EEHYKVANEVKFYLQKYKEL 910
            S+      VG     +   KVA ++K  L ++ EL
Sbjct: 364 VSR------VGSAAQIKAMKKVAGKLKLELAQFAEL 393

>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 =  612 bits (1581), Expect = 0.0
 Identities = 211/410 (51%), Positives = 284/410 (69%), Gaps = 17/410 (4%)

Query: 168 AVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKI 227
            V+  + K + +G     T  I ++PVG ELLGR+V++ G  ID K     K R  V   
Sbjct: 73  VVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLK 132

Query: 228 APGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK----- 282
           APGI+ R SV EP+ TGIK++DS++PIG+GQRELIIGDRQTGKT+IAIDTIINQK     
Sbjct: 133 APGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDG 192

Query: 283 ---NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCT 339
               K + CIYV IGQK S++  ++ +L   + M YT+VV+ATA+D+A  QY++PY+GC+
Sbjct: 193 TDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCS 252

Query: 340 IGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKI 399
           +GEYFRD G+  LIIYDDL+K A AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+
Sbjct: 253 MGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKM 312

Query: 400 NKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRP 459
           N              G+LTA P+IET  GDV+++IPTNVISITDGQIFL+T LF    RP
Sbjct: 313 ND---------AFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRP 363

Query: 460 AINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEK 519
           AINVGLSVSRVG AAQ + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G +
Sbjct: 364 AINVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVR 423

Query: 520 ISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
           ++ L+KQ  +   +I E + ++      +  K+   +I  FE   + +  
Sbjct: 424 LTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFENAFLSHVI 473

>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 = 94.3 bits (235), Expect = 3e-20
 Identities = 86/343 (25%), Positives = 155/343 (45%), Gaps = 30/343 (8%)

Query: 588 ENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
            + V  + FGN   IK   IV  TG  +  PVG+  LGR+++ LG+ ID KG I SK + 
Sbjct: 68  PDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARR 127

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
            +    P    +I     ++TGIK +D L P  +G +  + G    GKT   ++ I N  
Sbjct: 128 RVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQK 187

Query: 708 IEHKGCS-------VFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA 760
             + G         +++ +G++          + +++ +    ++    ++ +  +    
Sbjct: 188 RFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAP 247

Query: 761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP--------TLA 812
            +G S+ E FR++GK  L+  D++ +  +A  ++S +L R P    Y P         L 
Sbjct: 248 YSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAY-PGDVFYLHSRLL 306

Query: 813 EEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYP 872
           E   K+ +   +   G++T++  I   A D++   P+   +  D  I L  ++   GI P
Sbjct: 307 ERAAKMND---AFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRP 363

Query: 873 AIDPLESYSKQLDPYIVG-----EEHYKVANEVKFYLQKYKEL 910
           AI+   S S+      VG         +VA  +K  L +Y+E+
Sbjct: 364 AINVGLSVSR------VGSAAQTRAMKQVAGTMKLELAQYREV 400

>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 =  391 bits (1005), Expect = e-125
 Identities = 92/358 (25%), Positives = 149/358 (41%), Gaps = 30/358 (8%)

Query: 581 KVQQQIGENIVRTIAFG--NTNGIKRNTIVVDTGKPI----LTPVGDCTLGRILNVLGDP 634
             + ++G+ +V     G      I  + I+V  G       +   GD T+  ++  +  P
Sbjct: 121 IPKAKVGDKVVGGDIIGEVPETSIIVHKIMVPPGIEGEIVEIAEEGDYTIEEVIAKVKTP 180

Query: 635 IDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVG 694
                E+   ++ P+    P +  ++     L TG +VID   P  KGG   + G AG G
Sbjct: 181 SGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQAKGGTAAIPGPAGSG 239

Query: 695 KTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM-------KESNVLDKVSLIYG 747
           KTV   +L +          ++IG GER  E  D   E            ++++  LI  
Sbjct: 240 KTVTQHQLAKW---SDAQVVIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIAN 296

Query: 748 QMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY 807
             N P   R     TG++IAE FR+ G DV L  D+  R+  A  E+S  L   P   GY
Sbjct: 297 TSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGEEGY 356

Query: 808 QPTLAEEMGKLQERI-------SSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIV 860
              LA ++ +  ER        S  + G+++ + A+  P  D ++P    T   +     
Sbjct: 357 PAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVKVFWA 416

Query: 861 LSRQIAELGIYPAIDPLESYSKQLDPY------IVGEEHYKVANEVKFYLQKYKELKD 912
           L   +A    +PAI+ L SYS  +D         +  E   + ++    LQK  EL++
Sbjct: 417 LDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDPEWKAMRDKAMALLQKESELQE 474

>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 =  130 bits (329), Expect = 1e-31
 Identities = 78/326 (23%), Positives = 135/326 (41%), Gaps = 29/326 (8%)

Query: 189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSI 248
           +     G   +  ++          K+  +  R  V    P   ++     PL+TG + I
Sbjct: 160 VEIAEEGDYTIEEVIAKVKTPSGEIKELKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVI 218

Query: 249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLK 308
           D+  P  KG    I G   +GKT      +    +  V+ IY+  G++ + + +V+ +  
Sbjct: 219 DTFFPQAKGGTAAIPGPAGSGKTVT-QHQLAKWSDAQVV-IYIGCGERGNEMTDVLEEFP 276

Query: 309 YYNC-------MDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH 361
                      M+ TV++A T+    A +  S YTG TI EYFRD+G D  ++ D  ++ 
Sbjct: 277 KLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRW 336

Query: 362 AWAYRQISLLLRRPPGREAFPGDVFYLHSRL---LERSSKINKYFLEKKKIFNKNNGTLT 418
           A A R+IS  L   PG E +P    YL S+L    ER+ ++     + +       G+++
Sbjct: 337 AEALREISGRLEEMPGEEGYPA---YLASKLAEFYERAGRVVTLGSDYRV------GSVS 387

Query: 419 AFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKI 478
               +    GD +  +  N + +      LD +L    + PAIN   S S    A +   
Sbjct: 388 VIGAVSPPGGDFSEPVVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWW 447

Query: 479 VKKLSGD-------IRIMLAQYRELE 497
            K +  +          +L +  EL+
Sbjct: 448 HKNIDPEWKAMRDKAMALLQKESELQ 473

>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 =  364 bits (936), Expect = e-115
 Identities = 86/365 (23%), Positives = 147/365 (40%), Gaps = 38/365 (10%)

Query: 582 VQQQIGENIVR---TIAFGNTNGIKRNTI---VVDTGKPILTPVGDCTLGRILNV--LGD 633
           V     +   +   T      + ++   +   V + G      V     GR+  V   G+
Sbjct: 106 VVVHALDREKKWAWTPMVKPGDEVRGGMVLGTVPEFGFTHKILVPPDVRGRVKEVKPAGE 165

Query: 634 P--------IDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKI 685
                    +++  E+      P+    P    ++  N    TG++++D+L P   GG  
Sbjct: 166 YTVEEPVVVLEDGTELKMYHTWPVRRARPVQ-RKLDPNTPFLTGMRILDVLFPVAMGGTA 224

Query: 686 GLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK-------ESNV 738
            + G  G GK+V    L +     +    V++G GER  E  D   E            +
Sbjct: 225 AIPGPFGSGKSVTQQSLAKW---SNADVVVYVGSGERGNEMTDVLVEFPELTDPKTGGPL 281

Query: 739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAML 798
           + +  LI    N P   R      G++IAE FR+ G  V L  D+  R+  A  E+S+ L
Sbjct: 282 MHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTSRWAEALREISSRL 341

Query: 799 GRTPSAVGYQPTLAEEMGKLQERISST-----KNGTITSVQAIYVPADDLTDPSPSTTFT 853
              P+  GY P LA  +    ER         + G +T V A+  P  D+++P   +T  
Sbjct: 342 EEMPAEEGYPPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDMSEPVTQSTLR 401

Query: 854 HLDSTIVLSRQIAELGIYPAIDPLESYSK---QLDPY---IVGEEHYKVANEVKFYLQKY 907
            + +   L   +A    +PAI+   SYS     LDP+    V E++ ++ + +   LQ+ 
Sbjct: 402 IVGAFWRLDASLAFRRHFPAINWNGSYSLFTSALDPWYRENVAEDYPELRDAISELLQRE 461

Query: 908 KELKD 912
             L++
Sbjct: 462 AGLQE 466

>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 =  139 bits (352), Expect = 1e-34
 Identities = 78/332 (23%), Positives = 139/332 (41%), Gaps = 39/332 (11%)

Query: 192 IPVGFELLGRIVN--SKGEFIDNKKKFLIKNRETVE-------KIAPGIMDRESVNEPLL 242
           I V  ++ GR+      GE+   +   ++++   ++       + A  +  +   N P L
Sbjct: 147 ILVPPDVRGRVKEVKPAGEYTVEEPVVVLEDGTELKMYHTWPVRRARPVQRKLDPNTPFL 206

Query: 243 TGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLIN 302
           TG++ +D + P+  G    I G   +GK+     ++    N +V+ +YV  G++ + + +
Sbjct: 207 TGMRILDVLFPVAMGGTAAIPGPFGSGKSVT-QQSLAKWSNADVV-VYVGSGERGNEMTD 264

Query: 303 VINKLKYYNC-------MDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIY 355
           V+ +             M  TV++A T+    A +  S Y G TI EYFRD G    ++ 
Sbjct: 265 VLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMA 324

Query: 356 DDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRL---LERSSKINKYFLEKKKIFNK 412
           D  ++ A A R+IS  L   P  E +P    YL +RL    ER+ K+             
Sbjct: 325 DSTSRWAEALREISSRLEEMPAEEGYPP---YLAARLAAFYERAGKV--------ITLGG 373

Query: 413 NNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGG 472
             G +T    +    GD++  +  + + I      LD +L    + PAIN   S S    
Sbjct: 374 EEGAVTIVGAVSPPGGDMSEPVTQSTLRIVGAFWRLDASLAFRRHFPAINWNGSYSLFTS 433

Query: 473 AAQYKIVKKLSGD-------IRIMLAQYRELE 497
           A      + ++ D       I  +L +   L+
Sbjct: 434 ALDPWYRENVAEDYPELRDAISELLQREAGLQ 465

>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 =  304 bits (780), Expect = 3e-94
 Identities = 84/346 (24%), Positives = 149/346 (43%), Gaps = 18/346 (5%)

Query: 585 QIGENIVRTIAFGNTNGIKR-NTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINS 643
           ++ E       F  T G+    T V          V    LGR  N +G PID    I  
Sbjct: 49  EVSEEYAVIQVFEETTGLDLATTSVSLVEDVARLGVSKEMLGRRFNGIGKPIDGLPPITP 108

Query: 644 KKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELI 703
           +K+ PI  LP     +      ++TGI  ID++   ++G K+ +F G+G+       ++ 
Sbjct: 109 EKRLPITGLPLNPVARRKPEQFIQTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQIA 168

Query: 704 RNIAI----------EHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPS 753
           R   +          E     VF  +G   RE + F  E + +  L +  L   + ++P+
Sbjct: 169 RQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPT 228

Query: 754 GNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLA 812
             R+      L++AE         VL+ + ++  ++ A  E+ A     P   GY   + 
Sbjct: 229 IERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMY 288

Query: 813 EEMGKLQER--ISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGI 870
            ++  + ER  +   K G++T +  + +P DD T P P  T    +  I LSR++   GI
Sbjct: 289 TDLATIYERAGVVEGKKGSVTQIPILSMPDDDRTHPIPDLTGYITEGQIQLSRELHRKGI 348

Query: 871 YPAIDPLESYSKQLDPYI----VGEEHYKVANEVKFYLQKYKELKD 912
           YP IDPL S S+ ++  +      E+H +V++++        +++ 
Sbjct: 349 YPPIDPLPSLSRLMNNGVGKGKTREDHKQVSDQLYSAYANGVDIRK 394

>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 =  209 bits (535), Expect = 2e-59
 Identities = 90/421 (21%), Positives = 155/421 (36%), Gaps = 43/421 (10%)

Query: 139 NIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNL-TQGQKCFCTEKIFEIPVGFE 197
           +IK     V  GQ+   +  E A  Q F     ++   L          E +  + V  E
Sbjct: 34  DIKDGTGRVRGGQVIEVSE-EYAVIQVF-----EETTGLDLATTSVSLVEDVARLGVSKE 87

Query: 198 LLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKG 257
           +LGR  N  G+ ID       + R  +  +    + R    + + TGI +ID M  + +G
Sbjct: 88  MLGRRFNGIGKPIDGLPPITPEKRLPITGLPLNPVARRKPEQFIQTGISTIDVMNTLVRG 147

Query: 258 QRELIIGDRQTGKTTIA-----------IDTIINQKNKNVICIYVCIGQKISSLINVINK 306
           Q+  I          IA             +   +K +    ++  +G     L   I +
Sbjct: 148 QKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQE 207

Query: 307 LKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLTKHAWAY 365
            +    +  +V+    A D   E+ ++P    T+ EY   +     L+I  D+T ++ A 
Sbjct: 208 FERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSEAL 267

Query: 366 RQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIET 425
           R+I       PGR  +PG ++   + + ER+  +               G++T  PI+  
Sbjct: 268 REIGAAREEIPGRRGYPGYMYTDLATIYERAGVV-----------EGKKGSVTQIPILSM 316

Query: 426 LEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR-----VGGAAQYKIVK 480
            + D T  IP     IT+GQI L   L      P I+   S+SR     VG     +  K
Sbjct: 317 PDDDRTHPIPDLTGYITEGQIQLSRELHRKGIYPPIDPLPSLSRLMNNGVGKGKTREDHK 376

Query: 481 KLSGDIRIMLAQYRELES-----FSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIV 535
           ++S  +    A   ++            ++ D      L   +        +  +N SI 
Sbjct: 377 QVSDQLYSAYANGVDIRKLVAIIGEDALTENDRRY---LQFADAFERFFINQGQQNRSIE 433

Query: 536 E 536
           E
Sbjct: 434 E 434

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score =  237 bits (607), Expect = 8e-70
 Identities = 92/327 (28%), Positives = 153/327 (46%), Gaps = 13/327 (3%)

Query: 595 AFGNTNGIKRNTIVVDTG-------KPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKS 647
                 GI     V                P+G   LGR+L+  G P+D     ++ +  
Sbjct: 63  PLEEVEGILPGARVYARNGHGDGLQSGKQLPLGPALLGRVLDGGGKPLDGLPAPDTLETG 122

Query: 648 PIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA 707
            + T P     +    ++L+TG++ I+ L    +G ++GLF G+GVGK+V +  + R   
Sbjct: 123 ALITPPFNPLQRTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYTR 182

Query: 708 IEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA 767
            +     V   +GER RE  DF   +   +   +  +I    +     R++ A     IA
Sbjct: 183 AD---VIVVGLIGERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIA 239

Query: 768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER--ISST 825
           E+FR+ G+ VLL +D++ R+ +A  E++  +G  P+  GY P++  ++  L ER      
Sbjct: 240 EDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGIH 299

Query: 826 KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLD 885
             G+IT+   +    DD  DP   +    LD  IVLSR++AE G YPAID   S S+ + 
Sbjct: 300 GGGSITAFYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAM- 358

Query: 886 PYIVGEEHYKVANEVKFYLQKYKELKD 912
             ++ E+HY      K  L  ++  +D
Sbjct: 359 TALITEQHYARVRLFKQLLSSFQRNRD 385

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium} Length = 438

 Score =  179 bits (457), Expect = 3e-49
 Identities = 77/323 (23%), Positives = 141/323 (43%), Gaps = 21/323 (6%)

Query: 179 QGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVN 238
           +       +   ++P+G  LLGR+++  G+ +D            +       + R  + 
Sbjct: 79  RNGHGDGLQSGKQLPLGPALLGRVLDGGGKPLDGLPAPDTLETGALITPPFNPLQRTPIE 138

Query: 239 EPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTT----IAIDTIINQKNKNVICIYVCIG 294
             L TG+++I++++ +G+GQR  +      GK+     +A  T   + +  V+ +   IG
Sbjct: 139 HVLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYT---RADVIVVGL---IG 192

Query: 295 QKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLII 354
           ++   + + I  +   +    +VV+AA A  S   +         I E FRD GQ  L+I
Sbjct: 193 ERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLI 252

Query: 355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNN 414
            D LT++A A R+I+L +  PP  + +P  VF     L+ER+                  
Sbjct: 253 MDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGN-----------GIHGG 301

Query: 415 GTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA 474
           G++TAF  + T   D    I  +  +I DG I L   L  + + PAI++  S+SR   A 
Sbjct: 302 GSITAFYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMTAL 361

Query: 475 QYKIVKKLSGDIRIMLAQYRELE 497
             +         + +L+ ++   
Sbjct: 362 ITEQHYARVRLFKQLLSSFQRNR 384

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* Length = 347

 Score =  230 bits (589), Expect = 2e-68
 Identities = 88/296 (29%), Positives = 150/296 (50%), Gaps = 6/296 (2%)

Query: 618 PVGDCTLGRILNVLGDPIDNKGEI-NSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLL 676
            VGD  LGR+++ +G P+++         +  ++  PP    +   +     G++ ID L
Sbjct: 6   RVGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVIDQPFILGVRAIDGL 65

Query: 677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES 736
                G +IG+F G+GVGK+  +  +    + +     V   +GER RE N+F   + +S
Sbjct: 66  LTCGIGQRIGIFAGSGVGKSTLLGMICNGASAD---IIVLALIGERGREVNEFLALLPQS 122

Query: 737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSA 796
             L K  L+    + P+  R++ A T  +IAE FR+ GK+VLL +D++ R+  A  +V  
Sbjct: 123 T-LSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQGKNVLLMMDSVTRYARAARDVGL 181

Query: 797 MLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLD 856
             G      G+ P++   + KL ER      G+IT++  + + +D++ DP      + LD
Sbjct: 182 ASGEPDVRGGFPPSVFSSLPKLLERAGPAPKGSITAIYTVLLESDNVNDPIGDEVRSILD 241

Query: 857 STIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKD 912
             IVL+R++AE   +PAID   S S+ +   +V  EH + A E K  +  YK  + 
Sbjct: 242 GHIVLTRELAEENHFPAIDIGLSASR-VMHNVVTSEHLRAAAECKKLIATYKNPEL 296

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A* Length = 347

 Score =  178 bits (454), Expect = 8e-50
 Identities = 85/309 (27%), Positives = 149/309 (48%), Gaps = 17/309 (5%)

Query: 190 FEIPVGFELLGRIVNSKGEFIDNKKKF-LIKNRETVEKIAPGIMDRESVNEPLLTGIKSI 248
            +I VG  LLGR+++  G  +++      +    ++    P  + R+ +++P + G+++I
Sbjct: 3   HKIRVGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVIDQPFILGVRAI 62

Query: 249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLK 308
           D ++  G GQR  I      GK+T+ +  I N  + ++I + + IG++   +   +  L 
Sbjct: 63  DGLLTCGIGQRIGIFAGSGVGKSTL-LGMICNGASADIIVLAL-IGERGREVNEFLALLP 120

Query: 309 YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQI 368
             + +   V+V  T+   A E+  + +T  TI EYFRD G++ L++ D +T++A A R +
Sbjct: 121 Q-STLSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQGKNVLLMMDSVTRYARAARDV 179

Query: 369 SLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEG 428
            L    P  R  FP  VF    +LLER+                  G++TA   +     
Sbjct: 180 GLASGEPDVRGGFPPSVFSSLPKLLERAG-------------PAPKGSITAIYTVLLESD 226

Query: 429 DVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRI 488
           +V   I   V SI DG I L   L   N+ PAI++GLS SRV          + + + + 
Sbjct: 227 NVNDPIGDEVRSILDGHIVLTRELAEENHFPAIDIGLSASRVMHNVVTSEHLRAAAECKK 286

Query: 489 MLAQYRELE 497
           ++A Y+  E
Sbjct: 287 LIATYKNPE 295

>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 =  234 bits (598), Expect = 3e-68
 Identities = 75/328 (22%), Positives = 148/328 (45%), Gaps = 12/328 (3%)

Query: 596 FGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPK 655
           F  T G+ ++  V+ TG+ +  P     LGRIL+  G+P D    I   +   I+     
Sbjct: 66  FEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLDINGAAMN 125

Query: 656 FSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG--- 712
              ++   + ++TGI  ID     ++G K+ +F  +G+      +++ R  ++       
Sbjct: 126 PYARLPPKDFIQTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAF 185

Query: 713 CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR- 771
             VF  +G  + E   F  + +++  L++  +     ++P+  R+      L+ AE    
Sbjct: 186 AVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAY 245

Query: 772 NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQER--ISSTKNGT 829
             G  VL+ + +I  +  A  ++ A     P   GY   +  ++  L ER  I     G+
Sbjct: 246 EHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKGAKGS 305

Query: 830 ITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIV 889
           +T +  + +P DD+T P P  +    +  IV++R++   GIYP I+ L S S+ L    +
Sbjct: 306 VTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPINVLPSLSR-LMNSGI 364

Query: 890 GE-----EHYKVANEVKFYLQKYKELKD 912
           G      +H  V++++     + ++L+ 
Sbjct: 365 GAGKTREDHKAVSDQMYAGYAEGRDLRG 392

>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 =  218 bits (557), Expect = 1e-62
 Identities = 99/441 (22%), Positives = 169/441 (38%), Gaps = 38/441 (8%)

Query: 139 NIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFEL 198
           NIK  + TV  GQ+  ++  +    Q F     +    L +      T +  ++P   +L
Sbjct: 40  NIKMGDGTVRRGQVLDSSA-DIVVVQVF-----EGTGGLDKDCGVIFTGETLKLPASVDL 93

Query: 199 LGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQ 258
           LGRI++  GE  D   + +      +   A     R    + + TGI +ID    + +GQ
Sbjct: 94  LGRILSGSGEPRDGGPRIVPDQLLDINGAAMNPYARLPPKDFIQTGISTIDGTNTLVRGQ 153

Query: 259 RELIIGDRQTGKTT----IAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMD 314
           +  I              IA    +         ++  +G         ++  +    ++
Sbjct: 154 KLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALE 213

Query: 315 YTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIYDDLTKHAWAYRQISLLLR 373
             VV    A D A E+ ++P    T  EY   + G   L+I  D+T +A A RQ+     
Sbjct: 214 RAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARN 273

Query: 374 RPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF 433
             PGR  +PG ++   + L ER+  +               G++T  PI+     D+T  
Sbjct: 274 EVPGRRGYPGYMYTDLATLYERAGIV-----------KGAKGSVTQIPILSMPGDDITHP 322

Query: 434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR-----VGGAAQYKIVKKLSGDIRI 488
           IP     IT+GQI +   L      P INV  S+SR     +G     +  K +S  +  
Sbjct: 323 IPDLSGYITEGQIVVARELHRKGIYPPINVLPSLSRLMNSGIGAGKTREDHKAVSDQMYA 382

Query: 489 MLAQYRELES-----FSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVE----LII 539
             A+ R+L         +  S+ D   K   +        ++Q  +EN +I +       
Sbjct: 383 GYAEGRDLRGLVAIVGKEALSERDT--KFLEFADLFEDKFVRQGRNENRTIEDTLEIGWQ 440

Query: 540 ILLIIKNRFFFKIPIKQIELF 560
           IL  +      +I  K I+ +
Sbjct: 441 ILTHLPENQLGRIDNKYIQKY 461

>2zxi_A TRNA uridine 5-carboxymethylaminomethyl modificat MNMG; modification, 5-carboxymethylaminomethyl uridine, WOBB uridine, FAD; HET: FAD; 2.30A {Aquifex aeolicus} PDB: 2zxh_A* 2e57_A* Length = 637

 Score =  199 bits (508), Expect = 2e-54
 Identities = 71/146 (48%), Positives = 81/146 (55%), Gaps = 24/146 (16%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDKI KFP+ + HQIFLEPEG  + E+Y NGLSTSL  E Q ++ + I GL
Sbjct: 299 IGPRYCPSIEDKIVKFPDKERHQIFLEPEGLDTIEIYPNGLSTSLPEEVQWEMYRSIPGL 358

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA---- 168
               +IR AY IEYD   P  L  TL  K       +G  NGTTGYEEAA QG VA    
Sbjct: 359 ENVVLIRPAYAIEYDVVPPTELYPTLETKKIRGLFHAGNFNGTTGYEEAAGQGIVAGINA 418

Query: 169 --------------------VLIDDL 174
                               V+IDDL
Sbjct: 419 ALRAFGKEPIYLRRDESYIGVMIDDL 444

>3ces_A MNMG, tRNA uridine 5-carboxymethylaminomethyl modificat GIDA, GIDA; tRNA modification, FAD binding domain, structural genomics; 2.41A {Escherichia coli} PDB: 3cp2_A 3g05_A Length = 651

 Score =  199 bits (509), Expect = 3e-54
 Identities = 70/146 (47%), Positives = 88/146 (60%), Gaps = 24/146 (16%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDK+ +F +   HQIFLEPEG  S E+Y NG+STSL  + Q ++++ + G+
Sbjct: 294 VGPRYCPSIEDKVMRFADRNQHQIFLEPEGLTSNEIYPNGISTSLPFDVQMQIVRSMQGM 353

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA---- 168
             + I+R  Y IEYD+FDPR L  TL  KF      +GQINGTTGYEEAAAQG +A    
Sbjct: 354 ENAKIVRPGYAIEYDFFDPRDLKPTLESKFIQGLFFAGQINGTTGYEEAAAQGLLAGLNA 413

Query: 169 --------------------VLIDDL 174
                               VL+DDL
Sbjct: 414 ARLSADKEGWAPARSQAYLGVLVDDL 439

>3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA; rossmann fold, FAD-binding domain, dinucleotide-binding motif; HET: FAD; 3.20A {Chlorobium tepidum} Length = 641

 Score =  198 bits (507), Expect = 3e-54
 Identities = 67/146 (45%), Positives = 85/146 (58%), Gaps = 24/146 (16%)

Query: 53  TGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGL 112
            GPRYCPSIEDKI +FP+  +H IFLEPEG  + E+Y+NG STSL  + Q   ++ I GL
Sbjct: 288 VGPRYCPSIEDKISRFPDKSSHHIFLEPEGTDTVEMYVNGFSTSLPEDIQIAGLRSIPGL 347

Query: 113 NYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVA---- 168
             + +IR  Y IEYD+F P  +  T+  +   N   +GQINGT+GYEEAAAQG +A    
Sbjct: 348 EEAKMIRPGYAIEYDFFHPWQIRSTMETRPVENLFFAGQINGTSGYEEAAAQGLMAGINA 407

Query: 169 --------------------VLIDDL 174
                               VLIDDL
Sbjct: 408 VRKILGKELIVLGRDQAYIGVLIDDL 433

>3g5s_A Methylenetetrahydrofolate--tRNA-(uracil-5-)- methyltransferase TRMFO; tRNA methyltransferase FAD folate, FAD, flavoprotein; HET: MSE FAD GSH; 1.05A {Thermus thermophilus} PDB: 3g5q_A* 3g5r_A* Length = 443

 Score =  134 bits (338), Expect = 1e-33
 Identities = 36/128 (28%), Positives = 53/128 (41%), Gaps = 3/128 (2%)

Query: 42  ENSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLEN 101
           E +      L+ GP     +     +        + L  E    R   L G  T L    
Sbjct: 228 ELARRGYQTLLFGP--MKPVGLVDPRTGKEPFAVVQLRQEDKAGRMWSLVGFQTGLKWPE 285

Query: 102 QKKLIKKITGLNYSSIIRFAYNIEYDYFDP-RCLNQTLNIKFANNTVLSGQINGTTGYEE 160
           QK+LI+ I GL  + I+R+       Y +  R L +TL  + A     +G + G  GY E
Sbjct: 286 QKRLIQMIPGLENAEIVRYGVMHRNTYLNAPRLLGETLEFREAEGLYAAGVLAGVEGYLE 345

Query: 161 AAAQGFVA 168
           +AA GF+A
Sbjct: 346 SAATGFLA 353

>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 = 77.2 bits (189), Expect = 2e-14
 Identities = 60/400 (15%), Positives = 121/400 (30%), Gaps = 88/400 (22%)

Query: 540 ILLIIKNRFFFKIPIKQIELFEINIIK---YFRIINLKNNIS-----INKVQQQIGENIV 591
           IL + ++ F      K ++    +I+       II  K+ +S        +  +  E +V
Sbjct: 21  ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSK-QEEMV 79

Query: 592 RTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHT 651
           +   F            V+    +L       +  I      P         ++   ++ 
Sbjct: 80  Q--KF------------VEE---VLRINYKFLMSPIKTEQRQPSMMTRMYIEQR-DRLYN 121

Query: 652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHK 711
               F+   +N + L+  +K+   L        + + G  G GKT   +++  +  ++ K
Sbjct: 122 DNQVFAK--YNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCK 179

Query: 712 -GCSVF-IGVGERSREG------NDFYHEMKESNVLDKVSLIYGQMNEPSG-NRLRVALT 762
               +F + +   +             +++      +  S      N     + ++  L 
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP----NWTSRSDHSSNIKLRIHSIQAELR 235

Query: 763 GLSIAEEFRNSGKDVLLFIDNIYR------F-----TLAGTEVSAMLGRTPSAVGYQPTL 811
            L  ++ + N     LL + N+        F      L  T    +     +A     +L
Sbjct: 236 RLLKSKPYENC----LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 812 AEEMGKLQERISSTKNGTITSVQAIYV--PADDLTDPSPSTTFTHLDSTIVLSRQIAEL- 868
                 L             S+   Y+     DL    P    T   +   LS  IAE  
Sbjct: 292 DHHSMTLTPDEV-------KSLLLKYLDCRPQDL----PREVLTT--NPRRLS-IIAESI 337

Query: 869 --GI-------YPAIDPL----ESYSKQLDPYIVGEEHYK 895
             G+       +   D L    ES    L+P     + + 
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEY-RKMFD 376

>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 = 66.4 bits (161), Expect = 3e-11
 Identities = 89/631 (14%), Positives = 205/631 (32%), Gaps = 183/631 (29%)

Query: 30  KLLESISRQPE------LENSL-LNKTFLITGPRY-C--PSIEDKIYKFPNTKNH---QI 76
           +L  ++  + E      +E  L +N  FL++  +     PS+  ++Y     + +   Q+
Sbjct: 66  RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125

Query: 77  FLEPEGYYSRELYLNGLSTSL-SLENQKKLIKKITGL--------------NYSSIIRFA 121
           F   +   SR      L  +L  L   K ++  I G+              +Y    +  
Sbjct: 126 F--AKYNVSRLQPYLKLRQALLELRPAKNVL--IDGVLGSGKTWVALDVCLSYKVQCKMD 181

Query: 122 YNIEY----DYFDPRCL---NQTLNIKFANN--TVLSGQINGTTGYEEA--------AAQ 164
           + I +    +   P  +    Q L  +   N  +      N                 ++
Sbjct: 182 FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241

Query: 165 GFVAVLI--DDLKNLTQGQKCFCTEKIFEIPVGFELLGRI-VNSKGEFIDNKKKFLIKNR 221
            +   L+   +++N           K +     F L  +I + ++ + + +         
Sbjct: 242 PYENCLLVLLNVQN----------AKAWN---AFNLSCKILLTTRFKQVTDFLSAATTTH 288

Query: 222 ETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ 281
            +++  +  +   E     LL  +      +P            R+   T          
Sbjct: 289 ISLDHHSMTLTPDEVK-SLLLKYLDCRPQDLP------------REVLTT---------- 325

Query: 282 KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIG 341
            N   + I   I + I   +   +  K+ NC   T ++ ++       +Y   +   ++ 
Sbjct: 326 -NPRRLSI---IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV- 380

Query: 342 EYFRD--------LG--------QDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDV 385
             F          L          D +++ + L K+       SL+ ++P          
Sbjct: 381 --FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY-------SLVEKQPKES------T 425

Query: 386 FYLHSRLLERSSKI-NKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDG 444
             + S  LE   K+ N+Y L +  +          + I +T + D    IP  +    D 
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIV--------DHYNIPKTFDSD--DLIPPYL----DQ 471

Query: 445 QIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYR-ELESFSKFS 503
             +        ++     +G  +  +    +  + + +  D R +  + R +  +++   
Sbjct: 472 YFY--------SH-----IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518

Query: 504 SDLDIVTKTQLYNGEKISLLMKQKPH--ENYSIVELIIILLIIKNRFFFKIPIKQIELFE 561
           S L+ + + + Y           KP+  +N    E ++  ++    F  KI        E
Sbjct: 519 SILNTLQQLKFY-----------KPYICDNDPKYERLVNAIL---DFLPKI--------E 556

Query: 562 INII--KYFRIINL----KNNISINKVQQQI 586
            N+I  KY  ++ +    ++     +  +Q+
Sbjct: 557 ENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587

>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 = 48.3 bits (114), Expect = 1e-05
 Identities = 89/615 (14%), Positives = 173/615 (28%), Gaps = 207/615 (33%)

Query: 361 HAWAYRQISLLLRRPPGREAFPGDVF-YLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA 419
           + +    I    R+P         ++     RL   +    KY + + + + K       
Sbjct: 91  YKFLMSPIKTEQRQPSMMT----RMYIEQRDRLYNDNQVFAKYNVSRLQPYLK------- 139

Query: 420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGL--------SVSRVG 471
             + + L                         L     RPA NV +        +   + 
Sbjct: 140 --LRQALL-----------------------EL-----RPAKNVLIDGVLGSGKTWVALD 169

Query: 472 GAAQYKIVKKLSGDIR-IMLAQYRE----LESFSKFSSDLDIVTKTQLYNGEKISL---- 522
               YK+  K+   I  + L         LE   K    +D    ++  +   I L    
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229

Query: 523 -------LMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYF----RII 571
                  L+K KP+EN         LL++ N            +        F    +I+
Sbjct: 230 IQAELRRLLKSKPYEN--------CLLVLLN------------VQNAKAWNAFNLSCKIL 269

Query: 572 NLKNNISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVL 631
                  +         + +        +      I +D     LTP  D     +L  L
Sbjct: 270 LTTRFKQVT--------DFL--------SAATTTHISLDHHSMTLTP--DEVKSLLLKYL 311

Query: 632 GDPIDN-KGEINSKKKSP---------IHTLPPKFSN-QIFNNNILETGIKV-IDLLCP- 678
                +   E+     +P         I      + N +  N + L T I+  +++L P 
Sbjct: 312 DCRPQDLPREV--LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPA 369

Query: 679 -----------FLKGGKI-----GLFGGAGVGKTVNMM--ELIRNIAIEHKGCSVFIGVG 720
                      F     I      L     +   V ++  +L +   +E +     I + 
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISI- 428

Query: 721 ERSREGNDFYHEMKESN---------VLDKVSLIYG-QMNEPSGNRLR------VA--LT 762
                    Y E+K            ++D  ++      ++     L       +   L 
Sbjct: 429 ------PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482

Query: 763 GLSIAEE---FRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL- 818
            +   E    FR       +F+D  +RF      +   +    +A     ++   + +L 
Sbjct: 483 NIEHPERMTLFRM------VFLD--FRF------LEQKIRHDSTAWNASGSILNTLQQLK 528

Query: 819 --QERISSTKNGTITSVQAIYVPADDLTD--PSPSTTFTHLDSTIVLSRQIA----ELGI 870
             +  I    N      + +    + + D  P           T +L  +IA    +  I
Sbjct: 529 FYKPYI--CDNDPKYE-RLV----NAILDFLPKIEENLICSKYTDLL--RIALMAEDEAI 579

Query: 871 YPAIDPLESYSKQLD 885
           +      E++ KQ+ 
Sbjct: 580 F-----EEAH-KQVQ 588

>1wu0_A ATP synthase C chain; ATPase, membrane protein, hydrogen ION transport, hydrolase; NMR {Bacillus SP} Length = 72

 Score = 64.3 bits (157), Expect = 3e-13
 Identities = 19/49 (38%), Positives = 30/49 (61%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
          + AA+I +GL ++G GIG G++  + +E I+RQPEL   L    F+   
Sbjct: 5  VLAAAIAVGLGALGAGIGNGLIVSRTIEGIARQPELRPVLQTTMFIGVA 53

>1a91_A F1FO ATPase subunit C; membrane protein, hydrogen ION transport; NMR {Escherichia coli} SCOP: f.17.1.1 PDB: 1c0v_A 1c17_A 1c99_A 1qo1_K 1aty_A 1l6t_A 1ijp_A Length = 79

 Score = 64.9 bits (158), Expect = 3e-13
 Identities = 26/49 (53%), Positives = 34/49 (69%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
            AA++MMGLA+IG  IG GILGGK LE  +RQP+L   L  + F++ G
Sbjct: 10 YMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLLRTQFFIVMG 58

>2x2v_A ATP synthase subunit C; membrane protein, ION transport, ATP synthesis, transmembran CF(0), membrane, transport, C-ring rotor; HET: FME DPV; 2.50A {Bacillus pseudofirmus OF4} Length = 69

 Score = 60.6 bits (147), Expect = 8e-12
 Identities = 15/49 (30%), Positives = 23/49 (46%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
             A+I  GLA++   I   I+    +E  +RQPEL  +L    F+   
Sbjct: 3  FLGAAIAAGLAAVAGAIAVAIIVKATIEGTTRQPELRGTLQTLMFIGVP 51

>2xqu_A C15_RING, ATP synthase C chain; membrane protein, F1FO-ATP synthase rotor, ION (PROT translocation; HET: FME CVM; 1.84A {Arthrospira platensis} PDB: 2xqs_A* 2xqt_A* 2wie_A* 2w5j_A Length = 82

 Score = 58.1 bits (141), Expect = 8e-11
 Identities = 18/46 (39%), Positives = 28/46 (60%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
          + AA++ +G+ SIG G+G G   G+ +E I+RQPE E  +     L
Sbjct: 11 VIAAALAVGIGSIGPGLGQGQAAGQAVEGIARQPEAEGKIRGTLLL 56

>2wgm_A ATP synthase subunit C, sodium ION specific; F1FO-ATP synthase rotor, sodium-motive force, cell inner membrane, CF(0), membrane, transport; HET: F09; 2.35A {Ilyobacter tartaricus} PDB: 1yce_A* Length = 89

 Score = 47.0 bits (112), Expect = 7e-07
 Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 6  LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
             A   M +A IG G+G G   GK +ES++RQPE +  +++   L
Sbjct: 15 AVGAGTAM-IAGIGPGVGQGYAAGKAVESVARQPEAKGDIISTMVL 59

>2xnd_J ATP synthase lipid-binding protein, mitochondrial; ATP phosphorylase (H+ transporting), ATP synthesis, F1FO ATP synthase, hydrolase, ION transport; HET: ANP; 3.50A {Bos taurus} Length = 72

 Score = 38.2 bits (89), Expect = 6e-04
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 3/51 (5%)

Query: 4  IPLFAASIMMGLASI---GTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
          I   A  I  G A++   G+G G G + G L+   +R P L+  L +   L
Sbjct: 1  IDTAAKFIGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAIL 51

>4f4s_A ATP synthase subunit 9, mitochondrial; C10 ring, F1FO ATP synthase, oligomycin, membr protein-antibiotic complex; HET: FME EFO; 1.90A {Saccharomyces cerevisiae} PDB: 2wpd_J* 2xok_K* 3u2y_K* 3u32_K* 3ud0_K* 3zry_J* 3u2f_K* Length = 76

 Score = 38.2 bits (89), Expect = 8e-04
 Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 3/52 (5%)

Query: 3  NIPLFAASIMMGLASI---GTGIGFGILGGKLLESISRQPELENSLLNKTFL 51
           + L A  I  G+++I   G GIG  I+   L+  +SR P +++++     L
Sbjct: 2  QLVLAAKYIGAGISTIGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAIL 53

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	915
3oaa_A	513	ATP synthase subunit alpha; rossmann fold, hydrola	100.0
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	100.0
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	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
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	100.0
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	100.0
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	100.0
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	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
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	100.0
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
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	100.0
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	100.0
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	100.0
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	100.0
2r9v_A	515	ATP synthase subunit alpha; TM1612, structural gen	100.0
1fx0_A	507	ATP synthase alpha chain; latent ATPase, thermal s	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
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	100.0
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	100.0
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	100.0
3gqb_A	578	V-type ATP synthase alpha chain; A3B3, V-ATPase, A	100.0
3vr4_A	600	V-type sodium ATPase catalytic subunit A; V-ATPase	100.0
3mfy_A	588	V-type ATP synthase alpha chain; A-type ATP syntha	100.0
3l0o_A	427	Transcription termination factor RHO; helicase, RH	100.0
3ice_A	422	Transcription termination factor RHO; transcriptio	100.0
3l0o_A	427	Transcription termination factor RHO; helicase, RH	100.0
3ice_A	422	Transcription termination factor RHO; transcriptio	100.0
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	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
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	100.0
2zxi_A	637	TRNA uridine 5-carboxymethylaminomethyl modificat	100.0
3ces_A	651	MNMG, tRNA uridine 5-carboxymethylaminomethyl modi	100.0
3g5s_A	443	Methylenetetrahydrofolate--tRNA-(uracil-5-)- methy	100.0
3cp8_A	641	TRNA uridine 5-carboxymethylaminomethyl modificati	100.0
1wu0_A	72	ATP synthase C chain; ATPase, membrane protein, hy	98.86
2x2v_A	69	ATP synthase subunit C; membrane protein, ION tran	98.83
4f4s_A	76	ATP synthase subunit 9, mitochondrial; C10 ring, F	98.83
1a91_A	79	F1FO ATPase subunit C; membrane protein, hydrogen	98.8
2xqu_A	82	C15_RING, ATP synthase C chain; membrane protein,	98.75
2xnd_J	72	ATP synthase lipid-binding protein, mitochondrial;	98.66
2wgm_A	89	ATP synthase subunit C, sodium ION specific; F1FO-	98.62
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.2
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	98.03
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	98.01
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	97.79
2bl2_A	156	V-type sodium ATP synthase subunit K; V-type ATPas	97.78
3io5_A	333	Recombination and repair protein; storage dimer, i	97.34
3io5_A	333	Recombination and repair protein; storage dimer, i	97.26
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.17
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.95
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.94
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.92
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.92
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.9
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.83
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.83
2z43_A	324	DNA repair and recombination protein RADA; archaea	96.77
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	96.75
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.71
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.7
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.67
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.62
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.62
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.59
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.58
1u94_A	356	RECA protein, recombinase A; homologous recombinat	96.57
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	96.54
3v76_A	417	Flavoprotein; structural genomics, PSI-biology, NE	96.53
1xp8_A	366	RECA protein, recombinase A; recombination, radior	96.43
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.37
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.3
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	96.26
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.23
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.21
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	96.13
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	96.12
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.08
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.03
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.93
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	95.91
2r6a_A	454	DNAB helicase, replicative helicase; replication,	95.88
2bl2_A	156	V-type sodium ATP synthase subunit K; V-type ATPas	95.78
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	95.63
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	95.52
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	95.5
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.42
3bs4_A	260	Uncharacterized protein PH0321; structural genomic	95.28
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	95.26
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	95.16
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.1
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.07
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.97
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.7
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.6
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	94.6
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	94.59
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.54
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	94.45
2r6a_A	454	DNAB helicase, replicative helicase; replication,	94.39
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	94.34
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	94.2
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.16
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	93.93
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	93.89
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	93.77
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	93.42
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	93.41
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	93.07
2chg_A	226	Replication factor C small subunit; DNA-binding pr	93.01
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	92.89
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	92.76
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	92.72
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	92.72
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	92.69
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	92.68
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	92.63
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	92.61
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.6
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	92.57
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	92.48
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	92.4
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	92.33
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	92.33
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	92.31
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	92.29
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	92.12
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	92.07
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	92.06
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	91.89
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	91.85
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	91.84
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	91.84
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	91.81
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	91.78
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	91.67
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	91.67
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	91.64
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	91.64
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.58
3pvs_A	447	Replication-associated recombination protein A; ma	91.51
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	91.5
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	91.39
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	91.38
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	91.37
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	91.36
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	91.34
1sgw_A	214	Putative ABC transporter; structural genomics, P p	91.32
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	91.3
1g6h_A	257	High-affinity branched-chain amino acid transport	91.29
1b0u_A	262	Histidine permease; ABC transporter, transport pro	91.28
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	91.27
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	91.22
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	91.21
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	91.16
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	91.1
1ji0_A	240	ABC transporter; ATP binding protein, structural g	91.05
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	91.04
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	91.03
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	91.03
2ghi_A	260	Transport protein; multidrug resistance protein, M	91.01
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	90.95
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	90.95
2eyu_A	261	Twitching motility protein PILT; pilus retraction	90.94
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	90.9
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	90.86
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	90.83
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	90.78
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	90.73
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	90.72
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	90.69
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	90.65
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	90.64
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	90.64
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	90.63
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	90.63
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	90.53
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	90.45
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	90.4
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	90.39
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	90.38
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	90.34
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	90.3
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	90.29
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	90.19
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	90.14
3bos_A	242	Putative DNA replication factor; P-loop containing	90.08
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	90.02
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	90.0
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	89.94
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	89.86
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	89.77
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	89.63
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	89.58
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	89.49
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	89.46
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	89.45
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	89.45
3bos_A	242	Putative DNA replication factor; P-loop containing	89.38
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	89.33
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	89.31
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	89.29
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	89.24
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	89.21
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	89.09
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	89.07
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	88.77
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	88.75
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	88.72
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	88.72
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	88.57
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	88.51
2og2_A	359	Putative signal recognition particle receptor; nuc	88.43
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	88.34
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	88.25
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	88.18
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	88.14
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	88.12
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	88.06
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	88.03
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	88.01
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	87.96
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	87.72
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	87.69
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	87.61
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	87.58
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	87.56
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	87.54
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	87.53
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	87.49
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	87.38
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	87.37
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	87.35
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	87.28
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	87.25
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	87.17
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	87.1
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	87.03
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	86.98
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	86.91
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	86.86
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	86.84
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	86.83
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	86.82
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	86.64
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	86.63
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	86.52
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	86.48
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	86.48
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	86.46
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	86.46
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	86.42
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	86.39
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	86.38
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	86.38
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	86.25
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	86.2
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	86.15
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	86.14
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	86.1
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	86.09
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	86.07
2ghi_A	260	Transport protein; multidrug resistance protein, M	86.06
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	86.03
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	86.02
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	86.01
1b0u_A	262	Histidine permease; ABC transporter, transport pro	85.98
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	85.79
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	85.77
1g6h_A	257	High-affinity branched-chain amino acid transport	85.76
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	85.73
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	85.71
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	85.65
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	85.64
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	85.59
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	85.57
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	85.53
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	85.49
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	85.45
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	85.43
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	85.41
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	85.4
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	85.39
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	85.35
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	85.34
1ji0_A	240	ABC transporter; ATP binding protein, structural g	85.3
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	85.29
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	85.27
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	85.26
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	85.26
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	85.21
2ewv_A	372	Twitching motility protein PILT; pilus retraction	85.13
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	85.06
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	85.04
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	84.98
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	84.92
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	84.8
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	84.74
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	84.73
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	84.69
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	84.67
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	84.65
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	84.56
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	84.53
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	84.48
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	84.39
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	84.36
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	84.32
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	84.31
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	84.23
1sgw_A	214	Putative ABC transporter; structural genomics, P p	84.21
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	84.2
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	84.19
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	84.17
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	83.98
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	83.94
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	83.87
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	83.86
2chq_A	319	Replication factor C small subunit; DNA-binding pr	83.8
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	83.77
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	83.75
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	83.72
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	83.71
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	83.69
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	83.66
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	83.55
2qgz_A	308	Helicase loader, putative primosome component; str	83.52
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	83.47
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	83.42
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	83.37
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	83.3
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	83.24
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	83.22
2xxa_A	433	Signal recognition particle protein; protein trans	83.14
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	83.08
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	83.04
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	83.02
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	83.01
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	83.01
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	82.88
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	82.83
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	82.76
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	82.74
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	82.71
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	82.62
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	82.6
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	82.59
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	82.59
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	82.57
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	82.56
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	82.39
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	82.19
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	82.06
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	82.04
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	82.0
2eyu_A	261	Twitching motility protein PILT; pilus retraction	81.99
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	81.89
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	81.83
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	81.67
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	81.67
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	81.65
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	81.58
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	81.58
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	81.56
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	81.35
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	81.34
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	81.32
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	81.31
1p9r_A	418	General secretion pathway protein E; bacterial typ	81.23
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	81.22
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	81.06
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	81.02
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	80.9
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	80.88
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	80.87
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	80.86
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	80.73
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	80.66
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	80.66
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	80.66
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	80.66
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	80.65
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	80.61
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	80.61
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	80.61
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	80.48
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	80.41
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	80.41
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	80.36
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	80.32
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	80.26
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	80.25
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	80.22
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	80.1
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	80.09
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	80.07
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	80.05
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	80.01
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	80.01

>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=3.3e-106  Score=919.07  Aligned_cols=448  Identities=52%  Similarity=0.811  Sum_probs=422.5

Q ss_pred             EEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeE
Q psy210          123 NIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      .++-.-++...+++.+++.  +|  ..|+|.++++      +.+.+++|+++.+++.|++|++||+++++|+|+++||||
T Consensus        38 i~~v~Gl~~~~~gElv~~~--~~--~~g~v~~l~~------d~v~~~~~~~~~gi~~G~~V~~tg~~~~VpvG~~lLGRV  107 (513)
T 3oaa_A           38 VIRIHGLADCMQGEMISLP--GN--RYAIALNLER------DSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRV  107 (513)
T ss_dssp             EEEEEECTTCBTTCEEEET--TT--EEEEEEEECS------SCEEEEESSCCSSCCTTCEEECCSCSSEEECSGGGTTCE
T ss_pred             EEEEECCccCCcCCEEEEC--CC--CEEEEEEeeC------CEEEEEEeCCccCCCCCCEEEEcCCCCeEeeCHHHhccc
Confidence            3344445456889999885  45  5799999998      345789999999999999999999999999999999999


Q ss_pred             eCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          203 VNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       203 iD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +|++|+|||+++++....++|++.+||++++|.++++||+||||+||+|+|||||||++|||++|+|||+|++++|+||+
T Consensus       108 ~d~lG~PiDg~g~i~~~~~~pi~~~ap~~~~R~~v~epl~TGikaID~l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~  187 (513)
T 3oaa_A          108 VNTLGAPIDGKGPLDHDGFSAVEAIAPGVIERQSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR  187 (513)
T ss_dssp             EETTSCBTTCSCSCCCSCEEESSCCCCCSSSCCCCCCBCCCSCHHHHHHSCCBTTCBCEEEESSSSSHHHHHHHHHHTTS
T ss_pred             hhhcCcCccCCCCCCccceeecccCCCCccccCCcCcccccceeeeccccccccCCEEEeecCCCCCcchHHHHHHHhhc
Confidence            99999999999999988899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          283 NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       283 ~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      ++|++|||++||||++|+++|+++|+++|+|+||++|++++|+||.+|+++||+|||+||||||+|+|||++||||||||
T Consensus       188 ~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A  267 (513)
T 3oaa_A          188 DSGIKCIYVAIGQKASTISNVVRKLEEHGALANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQA  267 (513)
T ss_dssp             SSSCEEEEEEESCCHHHHHHHHHHHHHHSCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHH
T ss_pred             cCCceEEEEEecCChHHHHHHHHHHhhcCcccceEEEEECCCCChHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhh-c----cCCCCccceeEEEEecCCCCCCccccc
Q psy210          363 WAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKI-F----NKNNGTLTAFPIIETLEGDVTSFIPTN  437 (915)
Q Consensus       363 ~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~-~----~~~~GSiT~~~~v~~~~~d~~~pi~~~  437 (915)
                      +|+||||+++||||+++|||||+||+||||+||||++++..   +++ +    ..++||||++|+|++|+||++|||||+
T Consensus       268 ~A~REisl~lgepP~r~gYP~~vf~~~srLlERAg~~~~~~---~~~~~~~~~~g~~GSITal~~V~~~~dD~s~pIp~~  344 (513)
T 3oaa_A          268 VAYRQISLLLRRPPGREAFPGDVFYLHSRLLERAARVNAEY---VEAFTKGEVKGKTGSLTALPIIETQAGDVSAFVPTN  344 (513)
T ss_dssp             HHHHHHHHHTTCCBCTTSCBTTHHHHHHHHHTTCSEECHHH---HHHHHTTSCCSCCEEEEECCEEECGGGCCSSHHHHH
T ss_pred             HHHHHHHHhcCCCCcccCCCchhhhhcchHHHHHhhccccc---chhccccccCCCCcceEEEEEEEcCCCCccCcchHh
Confidence            99999999999999999999999999999999999985320   111 1    123899999999999999999999999


Q ss_pred             cccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhH
Q psy210          438 VISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNG  517 (915)
Q Consensus       438 ~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~  517 (915)
                      ++|||||||||||+||++||||||||+.|+||+|+.+++++|+++++++|..|++|+|+++|+++|+++|++++++|+++
T Consensus       345 ~~si~DGqIvLsr~La~~giyPAIdvl~SvSRv~~~~~~~~~~~va~~lr~~la~y~el~~~~~~g~~ld~~~~~~l~~~  424 (513)
T 3oaa_A          345 VISITDGQIFLETNLFNAGIRPAVNPGISVSRVGGAAQTKIMKKLSGGIRTALAQYRELAAFSQFASDLDDATRKQLDHG  424 (513)
T ss_dssp             HHHHSSEEEEECHHHHTTSCCSCBCTTTCEESSGGGGSCHHHHHHHHHHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHH
T ss_pred             hhccCCeEEEEehhHHhCCCCCccCccccccccCcccccHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhh
Q psy210          518 EKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQ  583 (915)
Q Consensus       518 ~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~  583 (915)
                      ++|++||+|+.++++++++++..||++.+|+||++|++++..|+..+++|++..+++..+.|.+..
T Consensus       425 ~~i~~fL~Q~~~~~~~~~e~~~~l~a~~~g~ld~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  490 (513)
T 3oaa_A          425 QKVTELLKQKQYAPMSVAQQSLVLFAAERGYLADVELSKIGSFEAALLAYVDRDHAPLMQEINQTG  490 (513)
T ss_dssp             HHHHHHTCCCSSCCCCTTHHHHHHHHHHSCTTTTTCCHHHHHHHHHHHHHHTGGGCHHHHHHHHHC
T ss_pred             HHHHHHhCCCCCCCCCHHHHHHHHHHHhcCCCccCCHHHHHHHHHHHHHHHHhhhHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999999999998888776653

>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=6.8e-104  Score=903.58  Aligned_cols=481  Identities=45%  Similarity=0.755  Sum_probs=430.1

Q ss_pred             CcceeEEeecCCCC-ceEEecccccCCCHHHHHHHHHHhcCccceeeecce-eEEEEeecChhhcccccccccCCCceEe
Q psy210           72 KNHQIFLEPEGYYS-RELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFA-YNIEYDYFDPRCLNQTLNIKFANNTVLS  149 (915)
Q Consensus        72 ~~~~~~l~~e~~~~-~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g-~~~~~~~~~p~~L~~~le~~~~~g~~~a  149 (915)
                      .+|++-+.|+.... -.=.+.+|++.....            +.-++.+.+ -.++-.-+++..+++.+++. .+|+  .
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~G~V~~V~g~iv~v~gl~~~~~gEl~~i~-~~g~--~   73 (515)
T 2r9v_A            9 HHHHLRINPGEITKVLEEKIKSFEEKIDLE------------DTGKVIQVGDGIARAYGLNKVMVSELVEFV-ETGV--K   73 (515)
T ss_dssp             --------------------CTTCCCSCTT------------TEEEEEEEETTEEEEEECTTCCTTEEEEET-TTCC--E
T ss_pred             cccccccCHHHHHHHHHHHHHhcCCCCcce------------eeeEEEEEECcEEEEecCCCCCCCCEEEEe-cCCe--E
Confidence            45666777775443 222244455444322            233444433 34444556677889999985 3454  4


Q ss_pred             eEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeecCCCcccccccccccccCC
Q psy210          150 GQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAP  229 (915)
Q Consensus       150 GQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~  229 (915)
                      |+|.++++  +    .+.+++|+.+.+++.|++|++||+++.+|+|+.+||||+|++|+|||+++++....++|++.+||
T Consensus        74 g~v~~l~~--~----~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~P  147 (515)
T 2r9v_A           74 GVAFNLEE--D----NVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFRPIEIKAP  147 (515)
T ss_dssp             EEEEECCT--T----CEEEEEESCCTTCCTTCEEEEEEEECEEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESCCCCC
T ss_pred             EEEEEecC--C----eEEEEEecCcccccCCCEEEEeCCcceeecCccceeeEEcCCCCCcCCCCCCCccceeecccCCC
Confidence            99999998  3    34788999999999999999999999999999999999999999999999998888999999999


Q ss_pred             CCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhc
Q psy210          230 GIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY  309 (915)
Q Consensus       230 ~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~  309 (915)
                      +|++|.++++||+||||+||+|+|||||||++|||++|+|||+|++++|+||+++|++|||++||||++||++|++++++
T Consensus       148 ~~~~R~~v~epl~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~~~dv~~V~~~IGeR~~Ev~e~~~~~~~  227 (515)
T 2r9v_A          148 GVIYRKPVDTPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQKGQGVYCIYVAIGQKKSAIARIIDKLRQ  227 (515)
T ss_dssp             CGGGBCCCCSEECCSCHHHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTTTTTEEEEEEEESCCHHHHHHHHHHHHH
T ss_pred             CcccccCCCcchhcCccccccccccccCCEEEEEcCCCCCccHHHHHHHHHhhcCCcEEEEEEcCCCcHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhh
Q psy210          310 YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLH  389 (915)
Q Consensus       310 ~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~  389 (915)
                      .++|+||++|++|+|+||.+|+++||+|||+||||||+|+|||++||||||||+||||||+++||||+++||||++||+|
T Consensus       228 ~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr~A~A~REisl~lgepP~r~gYp~~vf~~~  307 (515)
T 2r9v_A          228 YGAMEYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLH  307 (515)
T ss_dssp             TTGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHHHHTSCCCTTCCCCCCCHHHHH
T ss_pred             CCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHHHHHHHHHHhhhcCCCCCcccCChhHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccc
Q psy210          390 SRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSR  469 (915)
Q Consensus       390 ~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR  469 (915)
                      +||+||||++++..|         +||||++|+|++|+||++|||||+++|||||||||||+||++||||||||+.|+||
T Consensus       308 ~rLlERAg~~~~~~~---------~GSITal~~v~~~~~D~s~pI~~~~~si~DGqI~Lsr~La~~g~yPAIdvl~SvSR  378 (515)
T 2r9v_A          308 SRLLERAVRLNDKLG---------GGSLTALPIVETQANDISAYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLSVSR  378 (515)
T ss_dssp             HHHHTTCEEBCTTTT---------SCEEEEEEEEEESTTCTTSHHHHHHHHTSSEEEEBCHHHHHHTCSSCBCTTTCEEG
T ss_pred             HHHHHHHhhccccCC---------CcceEEeeeeeccCCCccccchhhhccccceEEEEchHHHhCCCCCeecccccccc
Confidence            999999999865333         79999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccc
Q psy210          470 VGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFF  549 (915)
Q Consensus       470 ~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~L  549 (915)
                      +|+.++.++|+++++++|+.|++|+|+++|+++|+++|++++++|+++++|++||+|+.++++++++++..+|++.+|+|
T Consensus       379 v~~~~~~~~~~~~a~~lr~~la~y~el~~~~~~G~~l~~~~~~~l~~~~~i~~fL~Q~~~~~~~~~e~~~~l~~~~~g~l  458 (515)
T 2r9v_A          379 VGGSAQIKAMKQVAGMLRIDLAQYRELETFAQFATELDPATRAQIIRGQRLMELLKQEQYSPMPVEEQVVVLFAGVRGYL  458 (515)
T ss_dssp             GGTTTSCHHHHHHHHHHHHHHHHHHHHHTTGGGCSCCCHHHHHHHHHHHHHHHHTCCCTTCCCCHHHHHHHHHHHHTTTT
T ss_pred             CCcccCCHHHHHHHHHHHHHHhhhhHHHHHHHhccCCCHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHhhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccchhhHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          550 FKIPIKQIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       550 d~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      +.+|.+++..|+..+++|++..+++..+.|.+.
T Consensus       459 d~i~~~~i~~~~~~~~~~~~~~~~~~~~~i~~~  491 (515)
T 2r9v_A          459 DDLPVEEVRRFEKEFLRFMHEKHQDILDDIKTK  491 (515)
T ss_dssp             TTSCGGGHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHHHHhhhHHHHHHHHhc
Confidence            999999999999999999999999888777654

>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=2.7e-103  Score=899.17  Aligned_cols=447  Identities=48%  Similarity=0.794  Sum_probs=423.5

Q ss_pred             EEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeE
Q psy210          123 NIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      .++-.-+++..+++.+++..  |+  .|++.++++      +.+.+++|+.+.+++.|++|++||+++.+|+|+++||||
T Consensus        38 iv~v~gl~~~~~ge~~~i~~--g~--~g~v~~l~~------~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRV  107 (502)
T 2qe7_A           38 IARVHGLEKVMAGELLEFEN--GV--MGMAQNLEE------DNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRV  107 (502)
T ss_dssp             EEEEECCTTCBTTEEEEETT--SC--EEEEEEEET------TEEEEEECSCCSSCCTTCEEEEEEEESEEECSGGGTTCE
T ss_pred             EEEEEECCCCCCCCEEEECC--CC--EEEEEEecC------CeEEEEEecCccCCcCCCEEEEeCCcceEEcccccceEE
Confidence            34444455677889998853  53  499999997      345888999999999999999999999999999999999


Q ss_pred             eCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          203 VNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       203 iD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +|++|+|||+++++....++|++.+||+|++|.++++||+||||+||+|+|||||||++|||++|+|||+|++++|+||+
T Consensus       108 vd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R~~v~epl~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~  187 (502)
T 2qe7_A          108 VNPLGQPLDGRGPIETAEYRPIESPAPGVMDRKSVHEPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK  187 (502)
T ss_dssp             ECTTCCBSSCSCCCCCCCEEESSCCCCCTTSBCCCCSBCCCSCHHHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG
T ss_pred             EccCCCCCCCCCCCCCCceeeccCCCCCcccccCCCCccccceeecccccccccCCEEEEECCCCCCchHHHHHHHHHhh
Confidence            99999999999999888899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          283 NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       283 ~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      ++|++|||++||||++|+++|++++++.++|+||++|++++|+||.+|+++||+|||+||||||+|+|||++||||||||
T Consensus       188 ~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr~A  267 (502)
T 2qe7_A          188 GQDVICIYVAIGQKQSTVAGVVETLRQHDALDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQA  267 (502)
T ss_dssp             SCSEEEEEEEESCCHHHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHH
T ss_pred             cCCcEEEEEECCCcchHHHHHHHHHhhCCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcccccccccc
Q psy210          363 WAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISIT  442 (915)
Q Consensus       363 ~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~  442 (915)
                      +||||||+++||||+++||||++||+|+||+||||++++..|         +||||++|+|++|+||++||||++++|||
T Consensus       268 ~A~REisl~lgepP~~~gYpg~vf~~~~rL~ERAg~~~~~~~---------~GSITal~~v~~~~dD~s~pI~~~~~si~  338 (502)
T 2qe7_A          268 AAYRELSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSDEKG---------GGSLTALPFIETQAGDVSAYIPTNVISIT  338 (502)
T ss_dssp             HHHHHHHTTTTCCCCSTTSCTTHHHHHHHHHTSCCBBCTTTT---------CCEEEEEEEEECSTTCCSSHHHHHHHTTS
T ss_pred             HHHHHHHHhcCCCCccCCCCchHHHHHHHHHHhhhcccccCC---------CcceeEEEEEEccCCCcccchhHHHhhhc
Confidence            999999999999999999999999999999999999864323         79999999999999999999999999999


Q ss_pred             CcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHH
Q psy210          443 DGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISL  522 (915)
Q Consensus       443 dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~  522 (915)
                      ||||||||+||++||||||||+.|+||+|+.++.++|+++++++|+.|++|+|+++|+++|+++|++++++|+++++|++
T Consensus       339 DgqI~Lsr~La~~g~~PAIdvl~S~SRv~~~~~~~~~~~~a~~lr~~la~y~el~~~~~~G~~l~~~~~~~l~~~~~i~~  418 (502)
T 2qe7_A          339 DGQIFLESDLFYSGVRPAVNVGISVSRVGGAAQIKAMKKVAGTLRLDLAQYRELQAFAQFGSDLDKATQAKLNRGERTVE  418 (502)
T ss_dssp             SEEEEECHHHHTTTCSSCBCTTTCEESSGGGGSCHHHHHHHHHHHHHHHHHHHGGGSTTCCCCTTTTTTTTHHHHHHHHH
T ss_pred             CcEEEEehhHhhCCCCceeCcccccccCCCccCCHHHHHHHHHHHHHHhhhHHHHHHHHhccCCCHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhccccc
Q psy210          523 LMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGEN  589 (915)
Q Consensus       523 fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~  589 (915)
                      ||+|+.++++++++++..||++.+|+|+.+|.+++..|++.+++|++..+++..+.|.+.. .++++
T Consensus       419 fL~Q~~~~~~~~~~~~~~l~~~~~g~l~~i~~~~i~~~~~~~~~~~~~~~~~~~~~i~~~~-~~~~~  484 (502)
T 2qe7_A          419 ILKQDEHKPMPVEEQVISIYAVTNGFMDDIPVEDVRRFEEELLSFMRANKDSLLDHIRQTG-ELPDT  484 (502)
T ss_dssp             HHCCCTTCCCCHHHHHHHHHHHHTTTTTSSCSTTHHHHHHHHHHHHHHTTHHHHHHHHSSC-CCCCT
T ss_pred             HhCCCCCCCCCHHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHHHHHHhhhHHHHHHHHhcC-CCCHH
Confidence            9999999999999999999999999999999999999999999999999998887776653 34443

>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=6.8e-103  Score=897.33  Aligned_cols=442  Identities=48%  Similarity=0.737  Sum_probs=420.8

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.++..-+++..+++.+++..  |+  .|+|.++++      +.+.+++|+.+.+++.|++|++||+++.+|+|+++|||
T Consensus        37 ~iv~v~gl~~~~~ge~~~i~~--g~--~g~v~~l~~------~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvg~~lLGR  106 (510)
T 2ck3_A           37 GIARVHGLRNVQAEEMVEFSS--GL--KGMSLNLEP------DNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGR  106 (510)
T ss_dssp             TEEEEEECTTCBTTCEEEETT--SC--EEEEEEECS------SCEEEEESSCGGGCCTTCEEEECCCCCEEEESGGGTTC
T ss_pred             cEEEEeeCCCCCCCCEEEECC--CC--eEEEEeccC------CeEEEEEECCcccccCCCEEEEeCCcceeecCccceee
Confidence            344444565678899999853  53  499999997      34578899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+|++|+|||+++++....++|++.+||+|++|.++++||+||||+||+|+|||||||++|||++|+|||+||+++|+||
T Consensus       107 Vvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R~~v~epl~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q  186 (510)
T 2ck3_A          107 VVDALGNAIDGKGPIGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQ  186 (510)
T ss_dssp             EECTTSCBCSSSCCCCCSEEEESSCCCCCSTTBCCCCSBCCCSCHHHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEccCCcCcCCCCCCCccceeecccCCCCcccccccCccccccceeeccccccccCCEEEEecCCCCCchHHHHHHHHHH
Confidence            99999999999999988888999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cC--------CCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEE
Q psy210          282 KN--------KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLI  353 (915)
Q Consensus       282 ~~--------~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv  353 (915)
                      +.        +|++|||++||||++|+++|++++++.++|+||++|++++|+||.+|+++||+|||+||||||+|+|||+
T Consensus       187 ~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl  266 (510)
T 2ck3_A          187 KRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALI  266 (510)
T ss_dssp             HHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEE
T ss_pred             HhhccccccCCCeEEEEEECCCCcHHHHHHHHHHHhcCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEE
Confidence            65        8889999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCc
Q psy210          354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF  433 (915)
Q Consensus       354 ~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~p  433 (915)
                      +||||||||+||||||+++||||+++||||++||+|+||+||||++++..|         +||||++|+|++|+||++||
T Consensus       267 i~Dsltr~A~A~REisl~lgepP~r~gYpg~vf~~~~rLlERAg~~~~~~~---------~GSITal~~v~~~~dD~s~p  337 (510)
T 2ck3_A          267 IYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFG---------GGSLTALPVIETQAGDVSAY  337 (510)
T ss_dssp             EEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCEEBCGGGT---------SCEEEEEEEEECSTTCTTSH
T ss_pred             EEcCHHHHHHHHHHHHHhcCCCCccCCcCchHHHhhHHHHHhhhcccccCC---------CcceeEeeeeccCCCCcccc
Confidence            999999999999999999999999999999999999999999999865333         79999999999999999999


Q ss_pred             cccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHH
Q psy210          434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQ  513 (915)
Q Consensus       434 i~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~  513 (915)
                      ||++++|||||||||||+||++||||||||+.|+||+|+.++.++|+++++++|+.|++|+|+++|+++|+++|++++++
T Consensus       338 I~~~~~si~DgqI~Lsr~La~~gi~PAIdvl~SvSRv~~~~~~~~~~~~a~~lr~~la~y~el~~~~~~G~~l~~~~~~~  417 (510)
T 2ck3_A          338 IPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGSAAQTRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQL  417 (510)
T ss_dssp             HHHHHHHHSSEEEEBCHHHHHHTCSSCBCTTTCEESSGGGGSCHHHHHHHHHHHHHHHHHHHHGGGSSSCSSSCHHHHHH
T ss_pred             chHhhhcccceEEEEehhHhhCCCCCcccchhcccccccccCCHHHHHHHHHHHHHHHhhhHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          514 LYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       514 L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      |+++++|++||+|+.++++++++++..||++.+|+|+.++.+++..|+..+++|++..+++..+.|.+.
T Consensus       418 l~~~~~i~~fL~Q~~~~~~~~~~~~~~l~~~~~g~l~~i~~~~i~~~~~~~~~~~~~~~~~~~~~i~~~  486 (510)
T 2ck3_A          418 LSRGVRLTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPSKITKFENAFLSHVISQHQALLGKIRTD  486 (510)
T ss_dssp             HHHHHHHHHTTCCCSSCCCCHHHHHHHHHHHHTTSSTTSCGGGHHHHHHHHHHHHHHHCHHHHHHHHHS
T ss_pred             HHHhHHHHHHhcCCCCCCCCHHHHHHHHHHHHhhhhcCCCHHHHHHHHHHHHHHHHhhhHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999999999999999887777654

>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=5.3e-103  Score=897.68  Aligned_cols=450  Identities=45%  Similarity=0.723  Sum_probs=425.7

Q ss_pred             eeeecce-eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceec
Q psy210          115 SSIIRFA-YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIP  193 (915)
Q Consensus       115 a~~~r~g-~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vp  193 (915)
                      -++.+.+ ..++-.-+++..+++.+++..  |+  .|+|.++++      +.+.+++|+.+.+++.|++|.+||+++.+|
T Consensus        30 G~V~~v~g~iv~v~gl~~~~~ge~~~i~~--g~--~g~v~~l~~------~~v~~~~~~~~~gi~~G~~V~~tg~~~~vp   99 (507)
T 1fx0_A           30 GTVLQVGDGIARIHGLDEVMAGELVEFEE--GT--IGIALNLES------NNVGVVLMGDGLMIQEGSSVKATGRIAQIP   99 (507)
T ss_dssp             EEECCCCSSEEEEEECTTCCTTCCEEETT--CC--EEEEEEECS------SEEEEEECSCGGGCCTTCEEECCCCCCEEE
T ss_pred             EEEEEEeCCEEEEEECCCccCCCEEEECC--Cc--eEEEEeccC------CeEEEEEecCccCCcCCCEEEEeCCcceee
Confidence            3444432 445555566778899999853  53  499999997      345889999999999999999999999999


Q ss_pred             cccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHH
Q psy210          194 VGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI  273 (915)
Q Consensus       194 vg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l  273 (915)
                      +|+++||||+|++|+|||+++++....++|++.+||+|++|.++++||+||||+||+|+|||||||++|||++|+|||+|
T Consensus       100 vG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R~~v~epl~TGiraID~l~PigrGQR~~Ifg~~g~GKT~L  179 (507)
T 1fx0_A          100 VSEAYLGRVINALAKPIDGRGEITASESRLIESPAPGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAV  179 (507)
T ss_dssp             ESSSCSSCCCCSSSCCSSSSCCCCCSEEEESSCCCCCSSSBCCCCSBCCCSCTTTTTTSCCBTTCBCBEEESSSSSHHHH
T ss_pred             cCccceeEEEccCCcCCCCCCCCCCCceeeccCCCCCcccccccCCcccccceecccccccccCCEEEEecCCCCCccHH
Confidence            99999999999999999999999888889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEE
Q psy210          274 AIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLI  353 (915)
Q Consensus       274 ~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv  353 (915)
                      ++++|+||+++|++|||++||||++|+++|++++++.++|+||++|++++|+||.+|+++||+|||+||||||+|+|||+
T Consensus       180 al~~I~~~~~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl  259 (507)
T 1fx0_A          180 ATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLI  259 (507)
T ss_dssp             HHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEE
T ss_pred             HHHHHHHhhcCCcEEEEEEcCCCchHHHHHHHHHHhcCccccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCc
Q psy210          354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF  433 (915)
Q Consensus       354 ~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~p  433 (915)
                      +||||||||+||||||+++||||+++||||++||+|+||+||||++++..|         +||||++|+|++|+||++||
T Consensus       260 i~Dsltr~A~A~REisl~lge~P~~~gYp~~vf~~~srLlERAg~~~~~~~---------~GSITal~~v~~~~~D~s~p  330 (507)
T 1fx0_A          260 IYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLG---------EGSMTALPIVETQAGDVSAY  330 (507)
T ss_dssp             EEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTT---------SCEEEECCEEECSTTCTTSH
T ss_pred             EEecHHHHHHHHHHHHHhcCCCCccccCCchHhhhhHHHHHhhhhccccCC---------CcceeeeeeeeccCCCcccc
Confidence            999999999999999999999999999999999999999999999865323         79999999999999999999


Q ss_pred             cccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHH
Q psy210          434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQ  513 (915)
Q Consensus       434 i~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~  513 (915)
                      ||++++|||||||||||+||++||||||||+.|+||+++.++.++|+++++++|+.|++|+|+++|+++|+++|++++++
T Consensus       331 I~~~~~si~DgqIvLsr~La~~g~yPAIdvl~S~SR~~~~~~~~~~~~~a~~lr~~la~y~el~~~~~~G~~l~~~~~~~  410 (507)
T 1fx0_A          331 IPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVGSAAQIKAMKKVAGKLKLELAQFAELEAFAQFASDLDKATQNQ  410 (507)
T ss_dssp             HHHHHHTTSSCBCCCCSSSSSSSCSSCCCTTTCCCTTGGGGSCHHHHHHHHHHHHHHHHHHHHTTTGGGCSSCCHHHHHH
T ss_pred             hHHHHHhhcCcEEEEehhHhhCCCCCccchhhhhccccccCCCHHHHHHHHHHHHHHHhhhHHHHHHHhccCCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhh
Q psy210          514 LYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQ  583 (915)
Q Consensus       514 L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~  583 (915)
                      |+++++|++||+|+.++++++++++..+|++.+|+|+.++.+++..|+..+++|++.+++++.+.|.+..
T Consensus       411 l~~~~~i~~fL~Q~~~~~~~~~e~~~~l~~~~~g~l~~i~~~~i~~~~~~~~~~~~~~~~~~~~~i~~~~  480 (507)
T 1fx0_A          411 LARGQRLRELLKQPQSAPLTVEEQVMTIYTGTNGYLDSLELDQVRKYLVELRTYVKTNKPEFQEIISSTK  480 (507)
T ss_dssp             HHHHHHHHHHHCCCTTCCCCHHHHHHHHHHHHTTSSSSSCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHhhchhcCCCHHHHHHHHHHHHHHHHhhhHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999999999999998887776543

>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=1.2e-96  Score=836.09  Aligned_cols=423  Identities=21%  Similarity=0.295  Sum_probs=396.6

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhcccccccc-CCCcccccCccceeccccccce
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLT-QGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~-~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      -.++-.-+....+++.+++...+|..+.|+|.++++  +    .+.+++|+.+.+++ .|++|.+||+++++|+|+++||
T Consensus        21 ~~v~v~gl~~~~~ge~v~i~~~~g~~~~geVv~~~~--~----~~~~~~~~~~~gl~~~g~~V~~tg~~~~vpvg~~lLG   94 (465)
T 3vr4_D           21 PLMAVEKVSGVKYEELIEVRMQNGEIRRGQVLEVQE--D----KAMVQIFEGTSGINLKNSSVRFLGHPLQLGVSEDMIG   94 (465)
T ss_dssp             TEEEEESCCSCCTTCEEEEECTTSCEEEEEEEEEES--S----EEEEEETTCCTTCCTTTCEEEECSSCCEEEECGGGTT
T ss_pred             CEEEEecCCCCCcCCEEEEEcCCCCEEEEEEEEEeC--C----eEEEEEecCccccccCCCEEEECCCcceeecchhhcc
Confidence            344445455578999999987778788999999998  3    34788999999999 8999999999999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+++++....+++++..||+|++|.++++||+||||+||+|+|||||||++|||++|+|||+| +.+|++
T Consensus        95 RV~d~lG~PiD~~~~i~~~~~~~i~~~~p~p~~R~~~~e~l~TGiraID~l~pigrGQr~~Ifgg~G~GKt~L-~~~Ia~  173 (465)
T 3vr4_D           95 RVFDGLGRPKDNGPEILPEKYLDINGEVINPIARDYPDEFIQTGISAIDHLNTLVRGQKLPVFSGSGLPHKEL-AAQIAR  173 (465)
T ss_dssp             EEEETTSCBCSCCCCCCCSEEEESSCCCBCTTTEECCCCBCBCSCHHHHTTSCCBTTCBCCEEECTTSCHHHH-HHHHHH
T ss_pred             ceeccCCcccCCCCCCcccceeeccCcccCchhccCcccccccCceEEecccccccCCEEEEeCCCCcChHHH-HHHHHH
Confidence            9999999999999999888889999999999999999999999999999999999999999999999999999 578999


Q ss_pred             hc-----CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEE
Q psy210          281 QK-----NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLII  354 (915)
Q Consensus       281 ~~-----~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~  354 (915)
                      |+     +.+++|||++||||++|+++|+++++++|+|+||++|++++|+||.+|+++||+|+|+|||||| +|+|||++
T Consensus       174 ~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~  253 (465)
T 3vr4_D          174 QATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQTGAIDRSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVI  253 (465)
T ss_dssp             HCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHHTGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhcCCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEE
Confidence            85     3567899999999999999999999999999999999999999999999999999999999998 69999999


Q ss_pred             eccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCcc
Q psy210          355 YDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFI  434 (915)
Q Consensus       355 ~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi  434 (915)
                      |||+||||+|+||||+++||||+++||||++|+.||+||||||++++           ++||||++|+|++|+||++|||
T Consensus       254 ~DslTr~A~A~REisl~lge~P~~~GYp~~vf~~l~~l~ERAg~~~~-----------~~GSIT~i~tv~~~~dD~~~pI  322 (465)
T 3vr4_D          254 MTDMTNYAEALREISAARREVPGRRGYPGYLYTNLATLFERAGRIRG-----------LKGSVTQIPILTMPEDDKTHPI  322 (465)
T ss_dssp             EECHHHHHHHHHHHHHHTTCCCCGGGSCTTHHHHHHHHHTSCEEETT-----------CSCEEEEEEEEECGGGCTTSHH
T ss_pred             EcChHHHHHHHHHHHhhcCCCCccccCCchHHHHhHHHHHhhhccCC-----------CCCcEEEEEEEEecCCCcccch
Confidence            99999999999999999999999999999999999999999999853           2799999999999999999999


Q ss_pred             ccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc-----cHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCC
Q psy210          435 PTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ-----YKIVKKLSGDIRIMLAQYRELESFSKFS--SDLD  507 (915)
Q Consensus       435 ~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~-----~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld  507 (915)
                      ||++++|+||||+|||+||++||||||||+.|+||+|....     .++|++++.++++.|++|+|+++++++.  +.++
T Consensus       323 ~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~m~~~ig~~~~~~~h~~~a~~l~~~~~~~~el~~i~~~~G~d~L~  402 (465)
T 3vr4_D          323 PDLTGYITEGQIILTRELYKSGIQPPIDVLPSLSRLKDKGTGAGKTREDHAATMNQLFAAYAQGKQAKELAVVLGESALS  402 (465)
T ss_dssp             HHHHHHHSSEEEEBCHHHHHTTCSSCBCTTTCEETTGGGSCSTTTSCTTHHHHHHHHHHHHHHHHHHHHHHHHHCTTSCC
T ss_pred             hHHHhhhcCeEEEEcHHHHhCCCCCCCCccccchhcchhhcCcccCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Confidence            99999999999999999999999999999999999986654     4899999999999999999999999984  6899


Q ss_pred             HHHHHHHHhHHHH-HHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Q psy210          508 IVTKTQLYNGEKI-SLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIK  566 (915)
Q Consensus       508 ~~~~~~L~~~~~i-~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~  566 (915)
                      ++++..+.++++| ++||+|+.+++++++++++.+|    .+|+.+|.+++.+|++++++
T Consensus       403 ~~d~~~~~~~~~~~~~fL~Q~~~e~~~~~~~~~~l~----~~l~~~p~~~~~~~~~~~~~  458 (465)
T 3vr4_D          403 DIDKIYAKFAERFENEYVNQGFYTNRTITETLDLGW----ELLAMLPRTELKRIKDDLLD  458 (465)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCCTTCCCCHHHHHHHHH----HHHTTSCTTTCTTSCHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHhCCCCCCCCCHHHHHHHHH----HHHhhCCHHHHHHHHHHHHH
Confidence            9999999999998 6999999999999999999999    57899999999999999875

>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=2.6e-96  Score=833.22  Aligned_cols=422  Identities=21%  Similarity=0.277  Sum_probs=395.6

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhcccccccc-CCCcccccCccceeccccccce
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLT-QGQKCFCTEKIFEIPVGFELLG  200 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~-~G~~V~~tg~~~~vpvg~~lLG  200 (915)
                      -.++-.-+....+++.+++...+|..+.|+|.++++  +    .+.+++|+.+.+++ .|++|.+||+++++|+|+++||
T Consensus        17 ~~v~v~gl~~~~~ge~v~i~~~~g~~~~geVv~~~~--~----~~~~~~~~~~~gl~~~g~~V~~tg~~~~vpvg~~lLG   90 (464)
T 3gqb_B           17 PLLFVENAKDLAYGAIVDIKDGTGRVRGGQVIEVSE--E----YAVIQVFEETTGLDLATTSVSLVEDVARLGVSKEMLG   90 (464)
T ss_dssp             TEEEEESCTTSCTTCEEEEECTTSCEEEEEEEEEES--S----EEEEEESSCCTTCCSSSCEEEEEESSCEEEECSTTTT
T ss_pred             CEEEEecCCCCCcCCEEEEEcCCCCEEEEEEEEEeC--C----eEEEEEecCccccccCCCEEEECCCCcEEEeChHhcC
Confidence            445555565678999999987778888999999998  3    34789999999999 8999999999999999999999


Q ss_pred             eEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          201 RIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       201 rviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ||+|++|+|||+++++....+++++..||+|++|.++++||+||||+||+|+|||||||++|||++|+|||+| +.+|++
T Consensus        91 RV~d~lG~PiD~~~~i~~~~~~~i~~~~p~p~~R~~~~e~l~TGiraID~l~pigrGQr~~Ifgg~G~GKt~L-~~~Ia~  169 (464)
T 3gqb_B           91 RRFNGIGKPIDGLPPITPEKRLPITGLPLNPVARRKPEQFIQTGISTIDVMNTLVRGQKLPIFSGSGLPANEI-AAQIAR  169 (464)
T ss_dssp             EEEETTCCBCSSSCCCCCSEEEETTCCCBCGGGBCCCCCBCBCSCHHHHTTSCCBTTCBCCEEEETTSCHHHH-HHHHHH
T ss_pred             CEeccCCcccCCCccccCcceeeccCCCCChhhccCccccccCcceeeecccccccCCEEEEecCCCCCchHH-HHHHHH
Confidence            9999999999999999888889999999999999999999999999999999999999999999999999999 578999


Q ss_pred             hcC------------CCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-c
Q psy210          281 QKN------------KNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-L  347 (915)
Q Consensus       281 ~~~------------~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~  347 (915)
                      |+.            .+++|||++||||++|+++|+++++++|+|+||++|++++|+||.+|+++||+|||+|||||| +
T Consensus       170 ~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~l~~~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~  249 (464)
T 3gqb_B          170 QATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYFIQEFERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEH  249 (464)
T ss_dssp             HCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHHHHHHHHTSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhcccccccccCCCceEEEEEEecCchHHHHHHHHHhhhcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence            853            457899999999999999999999999999999999999999999999999999999999998 6


Q ss_pred             CCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecC
Q psy210          348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLE  427 (915)
Q Consensus       348 g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~  427 (915)
                      |+|||++|||+||||+|+||||+++||||+++||||++|+.||+||||||++++           ++||||++|+|++|+
T Consensus       250 G~~VLl~~DdlTr~A~A~REisl~lge~P~~~GYp~~~f~~l~~l~ERag~~~~-----------~~GSIT~l~~v~~~~  318 (464)
T 3gqb_B          250 DYHVLVILTDMTNYSEALREIGAAREEIPGRRGYPGYMYTDLATIYERAGVVEG-----------KKGSVTQIPILSMPD  318 (464)
T ss_dssp             CCEEEEEEETHHHHHHHHHHHHHTTTCCBCGGGSBTTHHHHHHHHHTSCBCBTT-----------CSCEEEEEEEEEETT
T ss_pred             CCeEEEEEcChHHHHHHHHHHHHhcCCCCccccCCchHHHHhHHHHHhhcccCC-----------CCCcEEEEEEEEccC
Confidence            999999999999999999999999999999999999999999999999999853           279999999999999


Q ss_pred             CCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc-----cHHHHHHHHHHHHHHHhhHHHHhhhhc
Q psy210          428 GDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ-----YKIVKKLSGDIRIMLAQYRELESFSKF  502 (915)
Q Consensus       428 ~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~-----~~~~~~~a~~lr~~la~~~e~e~l~~l  502 (915)
                      ||++||||+++++|+||||+|||+||++||||||||+.|+||+|....     .++|++++.++++.|++|+|+++++++
T Consensus       319 dD~~~pi~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~m~~~ig~~~~~~~h~~~a~~l~~~~~~~~el~~i~~~  398 (464)
T 3gqb_B          319 DDRTHPIPDLTGYITEGQIQLSRELHRKGIYPPIDPLPSLSRLMNNGVGKGKTREDHKQVSDQLYSAYANGVDIRKLVAI  398 (464)
T ss_dssp             SCTTSHHHHHHHHHSSEEEEBCHHHHHTTCSSCBCTTTCEETTGGGTSSTTTSCTTHHHHHHHHHHHHHHHHHHHHHTSS
T ss_pred             CCccCchhHHHhhhcCeEEEEcHHHHhCCCCCCcCcccchhhcchhhcCcccCcHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999987654     489999999999999999999999998


Q ss_pred             c--CCCCHHHHHHHHhHHHH-HHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHH
Q psy210          503 S--SDLDIVTKTQLYNGEKI-SLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIK  566 (915)
Q Consensus       503 G--~~ld~~~~~~L~~~~~i-~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~  566 (915)
                      .  +.++++++..+.++++| ++||+|+ +|+++++++++.+|    .+|..+|.+++.++.+++++
T Consensus       399 ~G~d~L~~~d~~~~~~~~~~~~~fL~Q~-~e~~~~~~s~~~l~----~ll~~~p~~~~~~~~~~~~~  460 (464)
T 3gqb_B          399 IGEDALTENDRRYLQFADAFERFFINQG-QQNRSIEESLQIAW----ALLSMLPQGELKRISKDHIG  460 (464)
T ss_dssp             SCSCCCCSHHHHTTHHHHHHHHTTTCCT-TCCCCHHHHHHHHH----HHHTTSCGGGCTTSCHHHHH
T ss_pred             cCCCCCCHHHHHHHHhhHHHHHHhcCCC-CCCCCHHHHHHHHH----HHHHhCCHHHHhcCCHHHHH
Confidence            5  68999999999999998 5899999 99999999999999    56889999999999988775

>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=5.9e-96  Score=836.25  Aligned_cols=427  Identities=23%  Similarity=0.309  Sum_probs=388.0

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.++-.......+++.+++...+|..+.|+|.++++      +.+.+++|+.+.+++.|++|.+||+++++|+|+++|||
T Consensus        23 ~vv~v~g~~~~~~ge~v~i~~~~g~~~~geV~~~~~------~~v~~~~~~~t~gl~~G~~V~~tg~~l~vpvg~~lLGR   96 (469)
T 2c61_A           23 PLIFVEKTEPVGYNEIVNIKMGDGTVRRGQVLDSSA------DIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGR   96 (469)
T ss_dssp             CEEEEECCSCCCTTCEEEEECTTSCEEEEEEEEECS------SEEEEEEC-------------CEEEBCEEEECGGGTTC
T ss_pred             cEEEEeeCCCCCcCCEEEEEeCCCCEEEEEEEEEeC------CEEEEEEeCCCcCCCCCCEEEEcCCCcEEEccccceee
Confidence            455556665668999999975556667899999998      34578899999999999999999999999999999999


Q ss_pred             EeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          202 IVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       202 viD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+|++|+|||+++++.+..+++++..||+|++|.++++||+||||+||+|+|||||||++|||++|+|||+| +.+|+++
T Consensus        97 V~d~lG~PiDg~~~i~~~~~~~i~~~~p~p~~R~~~~e~l~TGir~ID~l~pigrGQr~~Ifgg~G~GKt~L-l~~Ia~~  175 (469)
T 2c61_A           97 ILSGSGEPRDGGPRIVPDQLLDINGAAMNPYARLPPKDFIQTGISTIDGTNTLVRGQKLPIFSASGLPHNEI-ALQIARQ  175 (469)
T ss_dssp             EEETTSCBSSSCCCCCCSEEEESSSCSSCCBCSCCCCSBCBCSCHHHHTTSCCBTTCBCCEEECTTSCHHHH-HHHHHHH
T ss_pred             EEcccCCCCCCCCCCCccccccccCccCCcccccccccccceeeEeeeeeeccccCCEEEEECCCCCCHHHH-HHHHHHH
Confidence            999999999999998887789999999999999999999999999999999999999999999999999999 7899987


Q ss_pred             cCC-----CeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHH-hcCCcEEEEe
Q psy210          282 KNK-----NVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFR-DLGQDCLIIY  355 (915)
Q Consensus       282 ~~~-----~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r-~~g~~Vlv~~  355 (915)
                      ...     +++|||++||||++|+++|+++++++++|+||++|++|+|+||.+|+++||+|+|+||||| ++|+|||+++
T Consensus       176 ~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~  255 (469)
T 2c61_A          176 ASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGALERAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVIL  255 (469)
T ss_dssp             CBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEE
T ss_pred             HhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEE
Confidence            643     5789999999999999999999999999999999999999999999999999999999999 5999999999


Q ss_pred             ccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccc
Q psy210          356 DDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIP  435 (915)
Q Consensus       356 Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~  435 (915)
                      |||||||+|+||||+++||||+++||||++|+.|++||||||++++           ++||||++|+|++|+||++||||
T Consensus       256 DsltR~A~A~rEis~~lge~P~~~Gyp~~l~~~l~~l~ERAg~~~~-----------~~GSIT~i~~v~~~~dD~~dPI~  324 (469)
T 2c61_A          256 TDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLATLYERAGIVKG-----------AKGSVTQIPILSMPGDDITHPIP  324 (469)
T ss_dssp             ECHHHHHHHHTTSGGGTTCCTTSTTCCTHHHHHHHHHHTSCEEBTT-----------SSCEEEEEEEEECCSCTTTSCCC
T ss_pred             eCHHHHHHHHHHHHHhcCCCCcccCcCchhhhhhhhHHhhccccCC-----------CCCceeeeeeeecCCCCcCcchH
Confidence            9999999999999999999999999999999999999999999853           27999999999999999999999


Q ss_pred             cccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc-----ccHHHHHHHHHHHHHHHhhHHHHhhhhcc--CCCCH
Q psy210          436 TNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-----QYKIVKKLSGDIRIMLAQYRELESFSKFS--SDLDI  508 (915)
Q Consensus       436 ~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-----~~~~~~~~a~~lr~~la~~~e~e~l~~lG--~~ld~  508 (915)
                      |++++|+||||+|||+||++||||||||+.|+||+++.+     +.++|+++++++++.|++|+|++++.++.  +++++
T Consensus       325 ~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~~~~~ig~~~~~~~~~~~a~~l~~~l~~~~eL~~i~~~~G~~~l~d  404 (469)
T 2c61_A          325 DLSGYITEGQIVVARELHRKGIYPPINVLPSLSRLMNSGIGAGKTREDHKAVSDQMYAGYAEGRDLRGLVAIVGKEALSE  404 (469)
T ss_dssp             CCGGGGTTEEEEBCHHHHHTTCSSCBCTTTCEETTGGGSCSTTTSCTTHHHHHHHHHHHHHHHHHHHHHHHHHCGGGSCH
T ss_pred             HHHhhccCcEEEEcHHHHhCCCCCccCccccccccchhhcccccCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCH
Confidence            999999999999999999999999999999999999998     88999999999999999999999999974  68999


Q ss_pred             HHHHHHHhHHHHHH-HhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhh
Q psy210          509 VTKTQLYNGEKISL-LMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRI  570 (915)
Q Consensus       509 ~~~~~L~~~~~i~~-fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~  570 (915)
                      +++++++++++|++ ||+|+.+++.++++++..+|+    +|+.+|.+++..+...+++++..
T Consensus       405 ~~~~~l~~~~~i~~~fL~Q~~~~~~~~~et~~~l~~----~l~~~~~~~~~~~~~~~~~~~~~  463 (469)
T 2c61_A          405 RDTKFLEFADLFEDKFVRQGRNENRTIEDTLEIGWQ----ILTHLPENQLGRIDNKYIQKYHP  463 (469)
T ss_dssp             HHHHHHHHHHHHHHHTTCCCTTCCCCHHHHHHHHHH----HHTTSCGGGCTTSCHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHH----HHHhCCHHHHHHHHHHHHHHHhh
Confidence            99999999999996 999999999999999999995    68999999999999999987753

>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=5.5e-93  Score=813.36  Aligned_cols=338  Identities=63%  Similarity=0.998  Sum_probs=330.5

Q ss_pred             chhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCc
Q psy210          577 ISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKF  656 (915)
Q Consensus       577 ~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~  656 (915)
                      ..+.||+.+|+++.+++++|+++.||++|++|++||+++++|||+++||||+|++|+|+|+++++...++||++..+|++
T Consensus        60 ~~~~eV~~~~~~~~v~~~~~~~t~Gl~~G~~V~~tg~~~~vpvG~~lLGRV~d~lG~PiD~~~~i~~~~~~pi~~~~p~~  139 (498)
T 1fx0_B           60 NVTCEVQQLLGNNRVRAVAMSATDGLTRGMEVIDTGAPLSVPVGGPTLGRIFNVLGEPVDNLRPVDTRTTSPIHRSAPAF  139 (498)
T ss_dssp             CCEEEEEECCSSSCEEEEESSCCTTCCTTCEEEECSSSCEEEESSTTTTCEECTTSCBCSSSSCCCCSEEEESCCCCCCG
T ss_pred             ceEEEEEEEecCCeEEEEEecCccCCCCCCEEEecCCcceEecCccceeeEEcccccCCCCcCCcCCCceeccccCCCch
Confidence            35789998899999999999999999999999999999999999999999999999999999888877889999999999


Q ss_pred             cccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       657 ~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      ++|.+++++++||||+||+|+|||||||+||||++|+|||+|++++++|++++|++++||++||||+||++||+++++++
T Consensus       140 ~~r~~~~e~l~TGirvID~l~pigkGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~~iGER~rEv~e~~~~~~~~  219 (498)
T 1fx0_B          140 TQLDTKLSIFETGIKVVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFGGVGERTREGNDLYMEMKES  219 (498)
T ss_dssp             GGCCCCCCCCCCSCTTHHHHSCCCTTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEEEESCCSHHHHHHHHHHHHT
T ss_pred             hhhcccccccccceeEeeeecccccCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEEEcccCcHHHHHHHHhhhcc
Confidence            99999999999999999999999999999999999999999999999999877889999999999999999999999999


Q ss_pred             Cccc-------cEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCc
Q psy210          737 NVLD-------KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQ  808 (915)
Q Consensus       737 ~~~~-------~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp  808 (915)
                      ++++       ||++|++|+|+||.+|++++++|+|+|||||| +|+|||+++||+||||+|+||||+++||+|+++|||
T Consensus       220 ~~l~~~~l~~~rtvvV~~t~d~p~~~R~~~~~~altiAEyfrd~~G~dVLl~~DsitR~A~A~rEvs~~lge~Ps~~GYp  299 (498)
T 1fx0_B          220 GVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTMAEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQ  299 (498)
T ss_dssp             TSSCSSTTCCCCEEEEEECTTSCHHHHTTHHHHHHHTHHHHTTTSCCEEEEEEECSHHHHHHHHHHHHHHTCCCCGGGCC
T ss_pred             cccccccccccceEEEEeCCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHHHHhhcCCCCccccCC
Confidence            9998       99999999999999999999999999999999 899999999999999999999999999999999999


Q ss_pred             chhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCC
Q psy210          809 PTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI  888 (915)
Q Consensus       809 ~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~  888 (915)
                      |++|++|++||||+|+.++||||+|+||++|+||++|||||++++||||||+|||+||++||||||||+.|+||+|++.+
T Consensus       300 p~l~~~l~~L~ERag~~~~GSIT~i~tV~v~~dD~tdPi~d~~~~ilDG~ivLsR~La~~giyPAID~l~S~SR~~~~~i  379 (498)
T 1fx0_B          300 PTLSTEMGSLQERITSTKEGSITSIQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTMLQPRI  379 (498)
T ss_dssp             TTHHHHHHHTSSSSSCCTTCEECCEEEEECGGGCSSSHHHHHHHTTCSEEEEBCSTTTTTTCSSCBCSSSCCBTTCSTTT
T ss_pred             chhhhHHHHHHHhccCCCCCceeeeEEEEccCCCcCCcchHHHHHhhCceEEehhhHHhCCCCceeccccccccCCCccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998889


Q ss_pred             CCHHHHHHHHHHHHHHHccHhhhhcc
Q psy210          889 VGEEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       889 ~~~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      ++++|+++++++|++|++|+|+++|.
T Consensus       380 ~~~~h~~~a~~lr~~la~y~el~~li  405 (498)
T 1fx0_B          380 VGEEHYEIAQRVKETLQRYKELQDII  405 (498)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            99999999999999999999999974

>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=1.7e-92  Score=806.60  Aligned_cols=338  Identities=65%  Similarity=1.031  Sum_probs=329.9

Q ss_pred             chhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCc
Q psy210          577 ISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKF  656 (915)
Q Consensus       577 ~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~  656 (915)
                      ..+.||+.+++++.+++++|+++.||++|++|++||+++++|||+++||||+|++|+|+|+++++...++||++..+|++
T Consensus        48 ~~~~eV~~~~~~~~v~~~~~~~t~Gl~~G~~V~~tg~~~~vpvG~~lLGRV~d~lG~PiDg~~~~~~~~~~pi~~~~P~~  127 (482)
T 2ck3_D           48 RLVLEVAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEF  127 (482)
T ss_dssp             CCEEEEEEEEETTEEEEEESSCCTTCBTTCEEEECSSSCEEECSGGGBTCEECTTSCBCSSSCSCCCCCEEESCCCCCCG
T ss_pred             cEEEEEeEEecCCeEEEEeccCccCCCCCCEEEEcCCcceeeccccccCCEEcccCcCcCCcCCCCccccccccccCCch
Confidence            35789988899999999999999999999999999999999999999999999999999999988878889999999999


Q ss_pred             cccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       657 ~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      ++|.+++++++||||+||+|+|||||||++|||++|+|||+|++++++|++++|++++||++||||+|||+||++++++.
T Consensus       128 ~~r~~~~e~l~TGir~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~~iGER~rEv~e~~~~~~~~  207 (482)
T 2ck3_D          128 VEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIES  207 (482)
T ss_dssp             GGCCCCCCEECCSCHHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEEEESCCHHHHHHHHHHHHHH
T ss_pred             HHhcccCcCCccceEEEecccccccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEEECCCcchHHHHHHHHhhhc
Confidence            99999999999999999999999999999999999999999999999999877889999999999999999999999999


Q ss_pred             Cccc------cEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcc
Q psy210          737 NVLD------KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQP  809 (915)
Q Consensus       737 ~~~~------~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~  809 (915)
                      ++++      ||++|++|+|+||.+|++++++|+|+|||||| +|+|||+++||+||||+|+||||+++||+|+++||||
T Consensus       208 ~~l~~~~~~~rtvvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A~A~rEis~~lge~P~~~GYpp  287 (482)
T 2ck3_D          208 GVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQP  287 (482)
T ss_dssp             TSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCT
T ss_pred             cccccccCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHHhhhhcCCCCccccCch
Confidence            9998      99999999999999999999999999999999 8999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCC
Q psy210          810 TLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIV  889 (915)
Q Consensus       810 ~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~  889 (915)
                      ++|++|++||||+++.++||||+|+||++|+||++|||||++++||||||+|||+||++||||||||+.|+||+|++.++
T Consensus       288 ~l~~~l~~l~ERag~~~~GSIT~i~tv~v~~dD~tdPi~d~~~~i~dG~ivLsr~La~~giyPAIDvl~S~SR~~~~~i~  367 (482)
T 2ck3_D          288 TLATDMGTMQERITTTKKGSITSVQAIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRIMDPNIV  367 (482)
T ss_dssp             THHHHHHHHHTTSSCCSSCCEEEEEEEECGGGCTTSHHHHHHGGGCSEEEEBCHHHHTTTCSSCBCTTSCEETTCSHHHH
T ss_pred             hHHHHhHHHHHhhcCCCCCceeeeEEEEecCCCCCCccHHHHHHhcCeEEEEcHHHHhCCCCCccCcccccccCCCcccC
Confidence            99999999999999989999999999999999999999999999999999999999999999999999999999977789


Q ss_pred             CHHHHHHHHHHHHHHHccHhhhhcc
Q psy210          890 GEEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       890 ~~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++|+++++++|++|++|+|+++|.
T Consensus       368 ~~~~~~~a~~lr~~la~y~el~~li  392 (482)
T 2ck3_D          368 GSEHYDVARGVQKILQDYKSLQDII  392 (482)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhhhHHHHHH
Confidence            9999999999999999999999974

>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=1.2e-90  Score=793.95  Aligned_cols=423  Identities=20%  Similarity=0.264  Sum_probs=375.2

Q ss_pred             eeecc-eeEEEEeecC--hhhcccccccccCC--Cc--eEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCc
Q psy210          116 SIIRF-AYNIEYDYFD--PRCLNQTLNIKFAN--NT--VLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEK  188 (915)
Q Consensus       116 ~~~r~-g~~~~~~~~~--p~~L~~~le~~~~~--g~--~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~  188 (915)
                      ++.+. |-.++-.+.+  -..+++.+++...+  |.  .+.++|.+.-+  +   ..+.+++|+.+.|++.|++|.+||+
T Consensus        22 ~v~~V~G~vv~v~~~~~~~~~i~~~~~i~~~~~~g~~~~~~~eV~~~~~--~---~~v~~~~~~~t~Gl~~G~~V~~tg~   96 (498)
T 1fx0_B           22 RIAQIIGPVLNVAFPPGKMPNIYNALIVKGRDTAGQPMNVTCEVQQLLG--N---NRVRAVAMSATDGLTRGMEVIDTGA   96 (498)
T ss_dssp             EEEEEETTEEEEECCSSCCCCTTCEEEECCCSSSSCCCCCEEEEEECCS--S---SCEEEEESSCCTTCCTTCEEEECSS
T ss_pred             eEEEEEccEEEEEeCCCCccccccEEEEEeCCCCCcccceEEEEEEEec--C---CeEEEEEecCccCCCCCCEEEecCC
Confidence            44442 3445555653  12344445665322  32  24566666332  2   2346778999999999999999999


Q ss_pred             cceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCC
Q psy210          189 IFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQT  268 (915)
Q Consensus       189 ~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~  268 (915)
                      ++++|+|+++||||+|++|+|||+++++....+||++.+||++++|.++++||+||||+||+|+|||||||++|||++|+
T Consensus        97 ~~~vpvG~~lLGRV~d~lG~PiD~~~~i~~~~~~pi~~~~p~~~~r~~~~e~l~TGirvID~l~pigkGqr~gIfgg~Gv  176 (498)
T 1fx0_B           97 PLSVPVGGPTLGRIFNVLGEPVDNLRPVDTRTTSPIHRSAPAFTQLDTKLSIFETGIKVVNLLAPYRRGGKIGLFGGAGV  176 (498)
T ss_dssp             SCEEEESSTTTTCEECTTSCBCSSSSCCCCSEEEESCCCCCCGGGCCCCCCCCCCSCTTHHHHSCCCTTCCEEEEECSSS
T ss_pred             cceEecCccceeeEEcccccCCCCcCCcCCCceeccccCCCchhhhcccccccccceeEeeeecccccCCeEEeecCCCC
Confidence            99999999999999999999999999988888899999999999999999999999999999999999999999999999


Q ss_pred             ChhHHHHHHHHhhc-CCCeEEEEEeeccchhhHHHHHHHHhccCCcc-------eEEEEEecCCCCHHHhhhhhhhhhhh
Q psy210          269 GKTTIAIDTIINQK-NKNVICIYVCIGQKISSLINVINKLKYYNCMD-------YTVVVAATAADSAAEQYISPYTGCTI  340 (915)
Q Consensus       269 GKt~l~l~~i~~~~-~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~-------~tvvv~~~a~~~~~~r~~~~~~a~ti  340 (915)
                      |||+|+.+++.|++ +++.+|||++||||+||+++|++++++.++++       ||++|++++|+||.+|++++++|+|+
T Consensus       177 GKT~L~~~l~~~~a~~~~~v~V~~~iGER~rEv~e~~~~~~~~~~l~~~~l~~~rtvvV~~t~d~p~~~R~~~~~~alti  256 (498)
T 1fx0_B          177 GKTVLIMELINNIAKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPPGARMRVGLTALTM  256 (498)
T ss_dssp             SHHHHHHHHHHHTTTTCSSCEEEEEESCCSHHHHHHHHHHHHTTSSCSSTTCCCCEEEEEECTTSCHHHHTTHHHHHHHT
T ss_pred             CchHHHHHHHHHHHhhCCCEEEEEEcccCcHHHHHHHHhhhcccccccccccccceEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            99999655555554 23335899999999999999999999999997       99999999999999999999999999


Q ss_pred             HHHHHh-cCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccce
Q psy210          341 GEYFRD-LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTA  419 (915)
Q Consensus       341 AEy~r~-~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~  419 (915)
                      |||||| +|+|||+++|||||||+|+||||+++||||+++||||++|+.|++||||||+.             ++||||+
T Consensus       257 AEyfrd~~G~dVLl~~DsitR~A~A~rEvs~~lge~Ps~~GYpp~l~~~l~~L~ERag~~-------------~~GSIT~  323 (498)
T 1fx0_B          257 AEYFRDVNEQDVLLFIDNIFRFVQAGSEVSALLGRMPSAVGYQPTLSTEMGSLQERITST-------------KEGSITS  323 (498)
T ss_dssp             HHHHTTTSCCEEEEEEECSHHHHHHHHHHHHHHTCCCCGGGCCTTHHHHHHHTSSSSSCC-------------TTCEECC
T ss_pred             HHHHHHhcCCcEEEEeccHHHHHHHHHHHHhhcCCCCccccCCchhhhHHHHHHHhccCC-------------CCCceee
Confidence            999999 99999999999999999999999999999999999999999999999999863             2799999


Q ss_pred             eEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccc-cccHHHHHHHHHHHHHHHhhHHHHh
Q psy210          420 FPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGA-AQYKIVKKLSGDIRIMLAQYRELES  498 (915)
Q Consensus       420 ~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~-~~~~~~~~~a~~lr~~la~~~e~e~  498 (915)
                      +|+|++|+||++|||||++++|+||||+|||+||++||||||||+.|+||+|.. ...++|++++.++|+.|++|+|+++
T Consensus       324 i~tV~v~~dD~tdPi~d~~~~ilDG~ivLsR~La~~giyPAID~l~S~SR~~~~~i~~~~h~~~a~~lr~~la~y~el~~  403 (498)
T 1fx0_B          324 IQAVYVPADDLTDPAPATTFAHLDATTVLSRGLAAKGIYPAVDPLDSTSTMLQPRIVGEEHYEIAQRVKETLQRYKELQD  403 (498)
T ss_dssp             EEEEECGGGCSSSHHHHHHHTTCSEEEEBCSTTTTTTCSSCBCSSSCCBTTCSTTTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEccCCCcCCcchHHHHHhhCceEEehhhHHhCCCCceeccccccccCCCcccCCHHHHHHHHHHHHHHHhhHHHHH
Confidence            999999999999999999999999999999999999999999999999999865 5569999999999999999999999


Q ss_pred             hhhc-cC-CCCHHHHHHHHhHHHHHHHhhcCCC----------CCccHHHHHHHHHHHhcccccccchhh
Q psy210          499 FSKF-SS-DLDIVTKTQLYNGEKISLLMKQKPH----------ENYSIVELIIILLIIKNRFFFKIPIKQ  556 (915)
Q Consensus       499 l~~l-G~-~ld~~~~~~L~~~~~i~~fL~Q~~~----------e~~s~ee~l~~L~ai~~G~Ld~vp~~e  556 (915)
                      ++++ |. .++++++++++++++|++||+|+.+          +..++++++..+..+..|-+|.+|.+.
T Consensus       404 li~i~G~d~ls~~d~~~l~~~~~i~~fL~Q~~~v~e~ft~~~g~~v~~~~t~~~l~~il~g~~d~~pe~~  473 (498)
T 1fx0_B          404 IIAILGLDELSEEDRLTVARARKIERFLSQPFFVAEVFTGSPGKYVGLAETIRGFQLILSGELDSLPEQA  473 (498)
T ss_dssp             HHHHHCSTTSCTTTHHHHHHHHHHHHHTCCCCSSCTTTSCSCCCCCCHHHHHHHHHTTTTTTTSSSCGGG
T ss_pred             HHHHhCCCcCCHHHHHHHHHHHHHHHHHcCCchHHHHhhcCCCcccCHHHHHHHHHHHhcCcccCCCHHH
Confidence            9875 64 6999999999999999999999966          888999999999998888888887643

>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=9.8e-90  Score=783.83  Aligned_cols=402  Identities=23%  Similarity=0.311  Sum_probs=365.8

Q ss_pred             cccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCceeecCCCc
Q psy210          136 QTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKK  215 (915)
Q Consensus       136 ~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~  215 (915)
                      +.+++.. +|....++|.+.-+  +   ..+.+++|+.+.|++.|++|.+||+++++|+|+++||||+|++|+|||++++
T Consensus        38 ~~~~i~~-~~~~~~~eV~~~~~--~---~~v~~~~~~~t~Gl~~G~~V~~tg~~~~vpvG~~lLGRV~d~lG~PiDg~~~  111 (482)
T 2ck3_D           38 NALEVQG-RETRLVLEVAQHLG--E---STVRTIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGP  111 (482)
T ss_dssp             CEEEESS-CSSCCEEEEEEEEE--T---TEEEEEESSCCTTCBTTCEEEECSSSCEEECSGGGBTCEECTTSCBCSSSCS
T ss_pred             ceEEEee-CCCcEEEEEeEEec--C---CeEEEEeccCccCCCCCCEEEEcCCcceeeccccccCCEEcccCcCcCCcCC
Confidence            4445543 23334556666322  1   2246778999999999999999999999999999999999999999999998


Q ss_pred             ccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc-CCCeEEEEEeec
Q psy210          216 FLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK-NKNVICIYVCIG  294 (915)
Q Consensus       216 ~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~-~~~~~~V~~~iG  294 (915)
                      +....+||++..+|++.+|..+++||+||||+||+|+|||||||++|||++|+|||+|+.+++.|++ +++.+|||++||
T Consensus       112 ~~~~~~~pi~~~~P~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~~~iG  191 (482)
T 2ck3_D          112 IKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVG  191 (482)
T ss_dssp             CCCCCEEESCCCCCCGGGCCCCCCEECCSCHHHHHHSCEETTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEEEEES
T ss_pred             CCccccccccccCCchHHhcccCcCCccceEEEecccccccCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEEEECC
Confidence            8888889999999999999999999999999999999999999999999999999999555555553 232348999999


Q ss_pred             cchhhHHHHHHHHhccCCcc------eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcEEEEeccchhHHHHHHH
Q psy210          295 QKISSLINVINKLKYYNCMD------YTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLIIYDDLTKHAWAYRQ  367 (915)
Q Consensus       295 er~~ev~~~~~~l~~~~~~~------~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~Vlv~~Ddltr~a~A~re  367 (915)
                      ||++|+++|++++++.++++      ||++|++++|+||.+|++++|+|+|+|||||| +|+|||+++|||||||+|+||
T Consensus       192 ER~rEv~e~~~~~~~~~~l~~~~~~~rtvvV~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~dVLll~DsitR~A~A~rE  271 (482)
T 2ck3_D          192 ERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFTQAGSE  271 (482)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHHHHHHH
T ss_pred             CcchHHHHHHHHhhhccccccccCCceEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHH
Confidence            99999999999999999998      99999999999999999999999999999999 999999999999999999999


Q ss_pred             HHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCccccccccccCcEEE
Q psy210          368 ISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSFIPTNVISITDGQIF  447 (915)
Q Consensus       368 is~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~pi~~~~~~i~dgqi~  447 (915)
                      ||+++||||+++||||++|+.|++|+||||+.             ++||||++++|++|+||++|||||++++|+||||+
T Consensus       272 is~~lge~P~~~GYpp~l~~~l~~l~ERag~~-------------~~GSIT~i~tv~v~~dD~tdPi~d~~~~i~dG~iv  338 (482)
T 2ck3_D          272 VSALLGRIPSAVGYQPTLATDMGTMQERITTT-------------KKGSITSVQAIYVPADDLTDPAPATTFAHLDATTV  338 (482)
T ss_dssp             HHGGGTCCCCGGGCCTTHHHHHHHHHTTSSCC-------------SSCCEEEEEEEECGGGCTTSHHHHHHGGGCSEEEE
T ss_pred             hhhhcCCCCccccCchhHHHHhHHHHHhhcCC-------------CCCceeeeEEEEecCCCCCCccHHHHHHhcCeEEE
Confidence            99999999999999999999999999999853             27999999999999999999999999999999999


Q ss_pred             eehhhhhcCCCCeeeecCCccccccc-cccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHHHhHHHHHHHh
Q psy210          448 LDTNLFNSNYRPAINVGLSVSRVGGA-AQYKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQLYNGEKISLLM  524 (915)
Q Consensus       448 Lsr~la~~g~~PaId~~~S~SR~~~~-~~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~i~~fL  524 (915)
                      |||+||++||||||||+.|+||+|.. .+.++|+++++++|+.|++|+|+++++++ | +.++++++++++++++|++||
T Consensus       339 Lsr~La~~giyPAIDvl~S~SR~~~~~i~~~~~~~~a~~lr~~la~y~el~~li~i~G~~~l~~~d~~~l~~~~~i~~fL  418 (482)
T 2ck3_D          339 LSRAIAELGIYPAVDPLDSTSRIMDPNIVGSEHYDVARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVSRARKIQRFL  418 (482)
T ss_dssp             BCHHHHTTTCSSCBCTTSCEETTCSHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGSCHHHHHHHHHHHHHHHHT
T ss_pred             EcHHHHhCCCCCccCcccccccCCCcccCCHHHHHHHHHHHHHHHhhhHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999844 67799999999999999999999999875 6 469999999999999999999


Q ss_pred             hcCCC----------CCccHHHHHHHHHHHhcccccccchhh
Q psy210          525 KQKPH----------ENYSIVELIIILLIIKNRFFFKIPIKQ  556 (915)
Q Consensus       525 ~Q~~~----------e~~s~ee~l~~L~ai~~G~Ld~vp~~e  556 (915)
                      +|+.+          +..++++++..+..+..|-+|.+|.+.
T Consensus       419 ~Q~~~v~~~f~~~~g~~~~~~~t~~~l~~il~g~~d~~pe~~  460 (482)
T 2ck3_D          419 SQPFQVAEVFTGHLGKLVPLKETIKGFQQILAGEYDHLPEQA  460 (482)
T ss_dssp             CCCCGGGHHHHSSCCCCCCHHHHHHHHHHHHTTTTTTSCGGG
T ss_pred             cCCchHHHHhhcCccccCCHHHHHHHHHHHhcccccCCCHHH
Confidence            99965          889999999999999889999988754

>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=3.7e-90  Score=787.15  Aligned_cols=334  Identities=23%  Similarity=0.379  Sum_probs=318.1

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      ...+.+|+++.+.+++|+++.||++|++|++||++++||||+++||||+|++|+|||+++++...+++|++..+|++++|
T Consensus        60 ~g~v~~l~~d~v~~~~~~~~~gi~~G~~V~~tg~~~~VpvG~~lLGRV~d~lG~PiDg~g~i~~~~~~pi~~~ap~~~~R  139 (513)
T 3oaa_A           60 YAIALNLERDSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPLDHDGFSAVEAIAPGVIER  139 (513)
T ss_dssp             EEEEEEECSSCEEEEESSCCSSCCTTCEEECCSCSSEEECSGGGTTCEEETTSCBTTCSCSCCCSCEEESSCCCCCSSSC
T ss_pred             EEEEEEeeCCEEEEEEeCCccCCCCCCEEEEcCCCCeEeeCHHHhccchhhcCcCccCCCCCCccceeecccCCCCcccc
Confidence            35668999999999999999999999999999999999999999999999999999999999888999999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      .++++|++||||+||+|+|||||||++|||++|+|||+|+.+++.|++ .+..+|||++||||++||++|+++++++|+|
T Consensus       140 ~~v~epl~TGikaID~l~PigrGQR~~Ifg~~g~GKT~l~l~~I~n~~-~~dv~~V~~~IGeR~~ev~e~~~~l~~~g~m  218 (513)
T 3oaa_A          140 QSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAIDAIINQR-DSGIKCIYVAIGQKASTISNVVRKLEEHGAL  218 (513)
T ss_dssp             CCCCCBCCCSCHHHHHHSCCBTTCBCEEEESSSSSHHHHHHHHHHTTS-SSSCEEEEEEESCCHHHHHHHHHHHHHHSCS
T ss_pred             CCcCcccccceeeeccccccccCCEEEeecCCCCCcchHHHHHHHhhc-cCCceEEEEEecCChHHHHHHHHHHhhcCcc
Confidence            999999999999999999999999999999999999999654455543 2233589999999999999999999999999


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                      +||+||++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+
T Consensus       219 ~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~A~REisl~lgepP~r~gYP~~vf~~~srLl  298 (513)
T 3oaa_A          219 ANTIVVVATASESAALQYLAPYAGCAMGEYFRDRGEDALIIYDDLSKQAVAYRQISLLLRRPPGREAFPGDVFYLHSRLL  298 (513)
T ss_dssp             TTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHHHHHHHHHHHTTCCBCTTSCBTTHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHhcCCCCcccCCCchhhhhcchHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCC---------------CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCccccc
Q psy210          820 ERISST---------------KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQL  884 (915)
Q Consensus       820 ERag~~---------------~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~  884 (915)
                      ||||+.               ++||||++|+|++|+||++||||+++++||||||+|||+||++||||||||+.|+||+|
T Consensus       299 ERAg~~~~~~~~~~~~~~~~g~~GSITal~~V~~~~dD~s~pIp~~~~si~DGqIvLsr~La~~giyPAIdvl~SvSRv~  378 (513)
T 3oaa_A          299 ERAARVNAEYVEAFTKGEVKGKTGSLTALPIIETQAGDVSAFVPTNVISITDGQIFLETNLFNAGIRPAVNPGISVSRVG  378 (513)
T ss_dssp             TTCSEECHHHHHHHHTTSCCSCCEEEEECCEEECGGGCCSSHHHHHHHHHSSEEEEECHHHHTTSCCSCBCTTTCEESSG
T ss_pred             HHHhhcccccchhccccccCCCCcceEEEEEEEcCCCCccCcchHhhhccCCeEEEEehhHHhCCCCCccCccccccccC
Confidence            999962               38999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          885 DPYIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       885 ~~~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      + ..+.++|+++++++|+.|++|+|++++++
T Consensus       379 ~-~~~~~~~~~va~~lr~~la~y~el~~~~~  408 (513)
T 3oaa_A          379 G-AAQTKIMKKLSGGIRTALAQYRELAAFSQ  408 (513)
T ss_dssp             G-GGSCHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             c-ccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5 56789999999999999999999999874

>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=3.4e-89  Score=782.72  Aligned_cols=333  Identities=25%  Similarity=0.386  Sum_probs=318.9

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      .+++++|+++.+.+++|+++.||+.|+.|++||+++++|||+++||||+|++|+|||+++++...++||++..+|++++|
T Consensus        60 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R  139 (502)
T 2qe7_A           60 MGMAQNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLGQPLDGRGPIETAEYRPIESPAPGVMDR  139 (502)
T ss_dssp             EEEEEEEETTEEEEEECSCCSSCCTTCEEEEEEEESEEECSGGGTTCEECTTCCBSSCSCCCCCCCEEESSCCCCCTTSB
T ss_pred             EEEEEEecCCeEEEEEecCccCCcCCCEEEEeCCcceEEcccccceEEEccCCCCCCCCCCCCCCceeeccCCCCCcccc
Confidence            36778999999999999999999999999999999999999999999999999999999999888899999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCc-EEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG-CSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      .++++|++||||+||+|+|||||||++|||++|+|||+|+.+++.|++  ++| +|||++||||++||+||+++++++++
T Consensus       140 ~~v~epl~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~--~~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~  217 (502)
T 2qe7_A          140 KSVHEPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAIDTIINQK--GQDVICIYVAIGQKQSTVAGVVETLRQHDA  217 (502)
T ss_dssp             CCCCSBCCCSCHHHHHSSCCBTTCBCEEEECSSSCHHHHHHHHHHGGG--SCSEEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             cCCCCccccceeecccccccccCCEEEEECCCCCCchHHHHHHHHHhh--cCCcEEEEEECCCcchHHHHHHHHHhhCCC
Confidence            999999999999999999999999999999999999999554444544  256 58999999999999999999999999


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      |+||+||++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       218 m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLl~~Dsltr~A~A~REisl~lgepP~~~gYpg~vf~~~~rL  297 (502)
T 2qe7_A          218 LDYTIVVTASASEPAPLLYLAPYAGCAMGEYFMYKGKHALVVYDDLSKQAAAYRELSLLLRRPPGREAYPGDVFYLHSRL  297 (502)
T ss_dssp             STTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHHHTTTTCCCCSTTSCTTHHHHHHHH
T ss_pred             cceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHHHHHHHHHHhcCCCCccCCCCchHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHH
Q psy210          819 QERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHY  894 (915)
Q Consensus       819 ~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~  894 (915)
                      +||||+.    ++||||++++|++++||++||||+++++||||||+|||+||++||||||||+.|+||+|+ ..+.++|+
T Consensus       298 ~ERAg~~~~~~~~GSITal~~v~~~~dD~s~pI~~~~~si~DgqI~Lsr~La~~g~~PAIdvl~S~SRv~~-~~~~~~~~  376 (502)
T 2qe7_A          298 LERAAKLSDEKGGGSLTALPFIETQAGDVSAYIPTNVISITDGQIFLESDLFYSGVRPAVNVGISVSRVGG-AAQIKAMK  376 (502)
T ss_dssp             HTSCCBBCTTTTCCEEEEEEEEECSTTCCSSHHHHHHHTTSSEEEEECHHHHTTTCSSCBCTTTCEESSGG-GGSCHHHH
T ss_pred             HHhhhcccccCCCcceeEEEEEEccCCCcccchhHHHhhhcCcEEEEehhHhhCCCCceeCcccccccCCC-ccCCHHHH
Confidence            9999985    579999999999999999999999999999999999999999999999999999999995 56789999


Q ss_pred             HHHHHHHHHHHccHhhhhccC
Q psy210          895 KVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       895 ~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ++++++|++|++|+|++++++
T Consensus       377 ~~a~~lr~~la~y~el~~~~~  397 (502)
T 2qe7_A          377 KVAGTLRLDLAQYRELQAFAQ  397 (502)
T ss_dssp             HHHHHHHHHHHHHHHGGGSTT
T ss_pred             HHHHHHHHHHhhhHHHHHHHH
Confidence            999999999999999999874

>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=1.2e-89  Score=784.21  Aligned_cols=333  Identities=23%  Similarity=0.381  Sum_probs=307.2

Q ss_pred             hhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccccc
Q psy210          582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIF  661 (915)
Q Consensus       582 v~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~  661 (915)
                      .+..|+++.+.+++|+++.||++|++|++||+++++|||+++||||+|++|+|||+++++....++|+++.||+|++|.+
T Consensus        52 eV~~~~~~~v~~~~~~~t~gl~~G~~V~~tg~~l~vpvg~~lLGRV~d~lG~PiDg~~~i~~~~~~~i~~~~p~p~~R~~  131 (469)
T 2c61_A           52 QVLDSSADIVVVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLDINGAAMNPYARLP  131 (469)
T ss_dssp             EEEEECSSEEEEEEC-------------CEEEBCEEEECGGGTTCEEETTSCBSSSCCCCCCSEEEESSSCSSCCBCSCC
T ss_pred             EEEEEeCCEEEEEEeCCCcCCCCCCEEEEcCCCcEEEccccceeeEEcccCCCCCCCCCCCccccccccCccCCcccccc
Confidence            44689999999999999999999999999999999999999999999999999999998887788999999999999999


Q ss_pred             ccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCC---cEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          662 NNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHK---GCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~---~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      ++++++||||+||+|+|||||||++|||++|+|||+|+++|+++...|++   ++|||++||||++||+||+++++++++
T Consensus       132 ~~e~l~TGir~ID~l~pigrGQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~~Ev~e~~~~~~~~g~  211 (469)
T 2c61_A          132 PKDFIQTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITNEEAQYFMSDFEKTGA  211 (469)
T ss_dssp             CCSBCBCSCHHHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECHHHHHHHHHHHHHHSG
T ss_pred             cccccceeeEeeeeeeccccCCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCcHHHHHHHHHHHhccC
Confidence            99999999999999999999999999999999999999999998765443   689999999999999999999999999


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHH-HCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGK  817 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~-~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~  817 (915)
                      |+||++|++|||+||.+|+++||+|+|+||||| |+|+|||+++||+||||+|+||||+++||||+++||||++|++|++
T Consensus       212 m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrdd~G~dVLl~~DsltR~A~A~rEis~~lge~P~~~Gyp~~l~~~l~~  291 (469)
T 2c61_A          212 LERAVVFLNLADDPAVERIVTPRMALTAAEYLAYEHGMHVLVILTDITNYAEALRQMGAARNEVPGRRGYPGYMYTDLAT  291 (469)
T ss_dssp             GGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHHHCCEEEEEEECHHHHHHHHTTSGGGTTCCTTSTTCCTHHHHHHHH
T ss_pred             ccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEeCHHHHHHHHHHHHHhcCCCCcccCcCchhhhhhhh
Confidence            999999999999999999999999999999999 5999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcC--CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCC----CCH
Q psy210          818 LQERISS--TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI----VGE  891 (915)
Q Consensus       818 l~ERag~--~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~----~~~  891 (915)
                      ||||||+  .++||||+|+||++|+||++|||++++++||||||+|||+||++||||||||+.|+||+|++.+    +++
T Consensus       292 l~ERAg~~~~~~GSIT~i~~v~~~~dD~~dPI~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~~~~~ig~~~~~~  371 (469)
T 2c61_A          292 LYERAGIVKGAKGSVTQIPILSMPGDDITHPIPDLSGYITEGQIVVARELHRKGIYPPINVLPSLSRLMNSGIGAGKTRE  371 (469)
T ss_dssp             HHTSCEEBTTSSCEEEEEEEEECCSCTTTSCCCCCGGGGTTEEEEBCHHHHHTTCSSCBCTTTCEETTGGGSCSTTTSCT
T ss_pred             HHhhccccCCCCCceeeeeeeecCCCCcCcchHHHHhhccCcEEEEcHHHHhCCCCCccCccccccccchhhcccccCCH
Confidence            9999987  5689999999999999999999999999999999999999999999999999999999996543    789


Q ss_pred             HHHHHHHHHHHHHHccHhhhhcc
Q psy210          892 EHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       892 ~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +|+++++++++.|++|+||+++.
T Consensus       372 ~~~~~a~~l~~~l~~~~eL~~i~  394 (469)
T 2c61_A          372 DHKAVSDQMYAGYAEGRDLRGLV  394 (469)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999875

>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=1.3e-89  Score=778.57  Aligned_cols=333  Identities=26%  Similarity=0.393  Sum_probs=318.2

Q ss_pred             hhhhccccceeeeccccCccCcc-cCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          581 KVQQQIGENIVRTIAFGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       581 ev~~~l~~~~v~l~~~~~~~gl~-~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      ..+..|+++.+.+++|+++.||+ .|++|++||+++++|||+++||||+|++|+|||+++++...+++|+++.+|+|++|
T Consensus        49 geVv~~~~~~~~~~~~~~~~gl~~~g~~V~~tg~~~~vpvg~~lLGRV~d~lG~PiD~~~~i~~~~~~~i~~~~p~p~~R  128 (465)
T 3vr4_D           49 GQVLEVQEDKAMVQIFEGTSGINLKNSSVRFLGHPLQLGVSEDMIGRVFDGLGRPKDNGPEILPEKYLDINGEVINPIAR  128 (465)
T ss_dssp             EEEEEEESSEEEEEETTCCTTCCTTTCEEEECSSCCEEEECGGGTTEEEETTSCBCSCCCCCCCSEEEESSCCCBCTTTE
T ss_pred             EEEEEEeCCeEEEEEecCccccccCCCEEEECCCcceeecchhhccceeccCCcccCCCCCCcccceeeccCcccCchhc
Confidence            34469999999999999999999 89999999999999999999999999999999999998888889999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHh--cCCc-EEEEEEecCCCchHHHHHHHhhhc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI--EHKG-CSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~--~~~~-~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      .+++++++||||+||+|+|||||||++|||++|+|||+|+.+|+++..+  ++++ +|||++||||++||+||+++++++
T Consensus       129 ~~~~e~l~TGiraID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~~~~~~~~  208 (465)
T 3vr4_D          129 DYPDEFIQTGISAIDHLNTLVRGQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITFEEAEFFMEDFRQT  208 (465)
T ss_dssp             ECCCCBCBCSCHHHHTTSCCBTTCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECHHHHHHHHHHHHHH
T ss_pred             cCcccccccCceEEecccccccCCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCcHHHHHHHHHHhhc
Confidence            9999999999999999999999999999999999999999999987654  2222 799999999999999999999999


Q ss_pred             CccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHH
Q psy210          737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM  815 (915)
Q Consensus       737 ~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l  815 (915)
                      ++|+||++|++|+|+||.+|+++||+|+|+|||||| +|+|||++|||+||||+|+||||+++||||+++||||++|++|
T Consensus       209 g~~~rtvvV~atsd~p~~~r~~a~~~a~tiAEyfrd~~G~~VLl~~DslTr~A~A~REisl~lge~P~~~GYp~~vf~~l  288 (465)
T 3vr4_D          209 GAIDRSVMFMNLANDPAIERIATPRMALTAAEYLAYEKGMHVLVIMTDMTNYAEALREISAARREVPGRRGYPGYLYTNL  288 (465)
T ss_dssp             TGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGSCTTHHHHH
T ss_pred             CCccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHHHHHHHHHHhhcCCCCccccCCchHHHHh
Confidence            999999999999999999999999999999999999 5999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcC--CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCC---
Q psy210          816 GKLQERISS--TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVG---  890 (915)
Q Consensus       816 ~~l~ERag~--~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~---  890 (915)
                      ++||||||+  .++||||+|+||++|+||++|||++++++||||||+|||+||++||||||||+.|+||+|+ .+++   
T Consensus       289 ~~l~ERAg~~~~~~GSIT~i~tv~~~~dD~~~pI~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~m~-~~ig~~~  367 (465)
T 3vr4_D          289 ATLFERAGRIRGLKGSVTQIPILTMPEDDKTHPIPDLTGYITEGQIILTRELYKSGIQPPIDVLPSLSRLKD-KGTGAGK  367 (465)
T ss_dssp             HHHHTSCEEETTCSCEEEEEEEEECGGGCTTSHHHHHHHHHSSEEEEBCHHHHHTTCSSCBCTTTCEETTGG-GSCSTTT
T ss_pred             HHHHHhhhccCCCCCcEEEEEEEEecCCCcccchhHHHhhhcCeEEEEcHHHHhCCCCCCCCccccchhcch-hhcCccc
Confidence            999999997  4589999999999999999999999999999999999999999999999999999999995 4556   


Q ss_pred             --HHHHHHHHHHHHHHHccHhhhhcc
Q psy210          891 --EEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       891 --~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                        ++|++++++++++|++|+|++++.
T Consensus       368 ~~~~h~~~a~~l~~~~~~~~el~~i~  393 (465)
T 3vr4_D          368 TREDHAATMNQLFAAYAQGKQAKELA  393 (465)
T ss_dssp             SCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              899999999999999999999985

>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=3.4e-89  Score=784.07  Aligned_cols=335  Identities=25%  Similarity=0.389  Sum_probs=319.7

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      .+++++|+++.+.+++|+++.||+.|+.|++||+++++|||+++||||+|++|+|||+++++...++||++..+|++++|
T Consensus        60 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvg~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R  139 (510)
T 2ck3_A           60 KGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKAPGIIPR  139 (510)
T ss_dssp             EEEEEEECSSCEEEEESSCGGGCCTTCEEEECCCCCEEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESSCCCCCSTTB
T ss_pred             eEEEEeccCCeEEEEEECCcccccCCCEEEEeCCcceeecCccceeeEEccCCcCcCCCCCCCccceeecccCCCCcccc
Confidence            36778999999999999999999999999999999999999999999999999999999998888889999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHH-HHHHHHHHh-----cCCc-EEEEEEecCCCchHHHHHHH
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNM-MELIRNIAI-----EHKG-CSVFIGVGERSREGNDFYHE  732 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll-~~i~~~~~~-----~~~~-~~v~~~iGer~~ev~e~~~~  732 (915)
                      .++++|++||||+||+|+|||||||++|||++|+|||+|+ .+|+++..+     +++| +|||++||||++||++|+++
T Consensus       140 ~~v~epl~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~Ev~~~~~~  219 (510)
T 2ck3_A          140 ISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKR  219 (510)
T ss_dssp             CCCCSBCCCSCHHHHHHSCCBTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHHHHHHHHHH
T ss_pred             cccCccccccceeeccccccccCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcHHHHHHHHH
Confidence            9999999999999999999999999999999999999995 455554442     2345 69999999999999999999


Q ss_pred             hhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhh
Q psy210          733 MKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLA  812 (915)
Q Consensus       733 ~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~  812 (915)
                      ++++++|+||+||++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|
T Consensus       220 ~~~~g~m~~tvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~A~REisl~lgepP~r~gYpg~vf  299 (510)
T 2ck3_A          220 LTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVF  299 (510)
T ss_dssp             HHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHH
T ss_pred             HHhcCCcccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEcCHHHHHHHHHHHHHhcCCCCccCCcCchHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCC
Q psy210          813 EEMGKLQERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYI  888 (915)
Q Consensus       813 ~~l~~l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~  888 (915)
                      +.|++|+||||+.    ++||||++++|++++||++||||+++++||||||+|||+||++||||||||+.|+||+|+ ..
T Consensus       300 ~~~~rLlERAg~~~~~~~~GSITal~~v~~~~dD~s~pI~~~~~si~DgqI~Lsr~La~~gi~PAIdvl~SvSRv~~-~~  378 (510)
T 2ck3_A          300 YLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGS-AA  378 (510)
T ss_dssp             HHHHHHHTTCEEBCGGGTSCEEEEEEEEECSTTCTTSHHHHHHHHHSSEEEEBCHHHHHHTCSSCBCTTTCEESSGG-GG
T ss_pred             HhhHHHHHhhhcccccCCCcceeEeeeeccCCCCccccchHhhhcccceEEEEehhHhhCCCCCcccchhccccccc-cc
Confidence            9999999999985    579999999999999999999999999999999999999999999999999999999995 56


Q ss_pred             CCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          889 VGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       889 ~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +.++|+++++++|++|++|+|++++++
T Consensus       379 ~~~~~~~~a~~lr~~la~y~el~~~~~  405 (510)
T 2ck3_A          379 QTRAMKQVAGTMKLELAQYREVAAFAQ  405 (510)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHGGGSS
T ss_pred             CCHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            789999999999999999999999874

>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=2.5e-89  Score=776.04  Aligned_cols=334  Identities=25%  Similarity=0.408  Sum_probs=319.3

Q ss_pred             hhhhccccceeeeccccCccCcc-cCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          581 KVQQQIGENIVRTIAFGNTNGIK-RNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       581 ev~~~l~~~~v~l~~~~~~~gl~-~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      ..+..|+++.+.+++|+++.||+ .|+.|++||+++++|||+++||||+|++|+|||+++++...+++|+++.||+|++|
T Consensus        45 geVv~~~~~~~~~~~~~~~~gl~~~g~~V~~tg~~~~vpvg~~lLGRV~d~lG~PiD~~~~i~~~~~~~i~~~~p~p~~R  124 (464)
T 3gqb_B           45 GQVIEVSEEYAVIQVFEETTGLDLATTSVSLVEDVARLGVSKEMLGRRFNGIGKPIDGLPPITPEKRLPITGLPLNPVAR  124 (464)
T ss_dssp             EEEEEEESSEEEEEESSCCTTCCSSSCEEEEEESSCEEEECSTTTTEEEETTCCBCSSSCCCCCSEEEETTCCCBCGGGB
T ss_pred             EEEEEEeCCeEEEEEecCccccccCCCEEEECCCCcEEEeChHhcCCEeccCCcccCCCccccCcceeeccCCCCChhhc
Confidence            34568999999999999999999 99999999999999999999999999999999999998888889999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhc---------CCc-EEEEEEecCCCchHHHH
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE---------HKG-CSVFIGVGERSREGNDF  729 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~---------~~~-~~v~~~iGer~~ev~e~  729 (915)
                      .+++++++||||+||+|+|||||||++|||++|+|||+|+.+|+++..++         +++ +|||++||||++||+||
T Consensus       125 ~~~~e~l~TGiraID~l~pigrGQr~~Ifgg~G~GKt~L~~~Ia~~~~a~~~~~~~~~d~~~~~~V~~~iGeR~~Ev~e~  204 (464)
T 3gqb_B          125 RKPEQFIQTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPFAVVFAAMGITQRELSYF  204 (464)
T ss_dssp             CCCCCBCBCSCHHHHTTSCCBTTCBCCEEEETTSCHHHHHHHHHHHCBCCHHHHCCCSTTCCEEEEEEEEEECHHHHHHH
T ss_pred             cCccccccCcceeeecccccccCCEEEEecCCCCCchHHHHHHHHHHHhcccccccccCCCceEEEEEEecCchHHHHHH
Confidence            99999999999999999999999999999999999999999999876542         333 89999999999999999


Q ss_pred             HHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCc
Q psy210          730 YHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQ  808 (915)
Q Consensus       730 ~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp  808 (915)
                      +++++++|+|+||++|++|+|+||.+|+++||+|+|+|||||| +|+|||++|||+||||+|+||||+++||||+++|||
T Consensus       205 ~~~l~~~g~~~rtvvv~~t~d~p~~~r~~~~~~a~tiAEyfrd~~G~~VLl~~DdlTr~A~A~REisl~lge~P~~~GYp  284 (464)
T 3gqb_B          205 IQEFERTGALSRSVLFLNKADDPTIERILTPRMALTVAEYLAFEHDYHVLVILTDMTNYSEALREIGAAREEIPGRRGYP  284 (464)
T ss_dssp             HHHHHHTSGGGGEEEEEEETTSCTHHHHHHHHHHHHHHHHHHHTTCCEEEEEEETHHHHHHHHHHHHHTTTCCBCGGGSB
T ss_pred             HHHhhhcccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHhcCCeEEEEEcChHHHHHHHHHHHHhcCCCCccccCC
Confidence            9999999999999999999999999999999999999999999 599999999999999999999999999999999999


Q ss_pred             chhhHHHHHHHHHhcC--CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCC
Q psy210          809 PTLAEEMGKLQERISS--TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDP  886 (915)
Q Consensus       809 ~~l~~~l~~l~ERag~--~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~  886 (915)
                      |++|++|++||||||+  .++||||+++||++|+||++|||++++++||||||+|||+||++||||||||+.|+||+|+ 
T Consensus       285 ~~~f~~l~~l~ERag~~~~~~GSIT~l~~v~~~~dD~~~pi~~~~~~i~dg~ivLsr~La~~g~yPAIdvl~S~SR~m~-  363 (464)
T 3gqb_B          285 GYMYTDLATIYERAGVVEGKKGSVTQIPILSMPDDDRTHPIPDLTGYITEGQIQLSRELHRKGIYPPIDPLPSLSRLMN-  363 (464)
T ss_dssp             TTHHHHHHHHHTSCBCBTTCSCEEEEEEEEEETTSCTTSHHHHHHHHHSSEEEEBCHHHHHTTCSSCBCTTTCEETTGG-
T ss_pred             chHHHHhHHHHHhhcccCCCCCcEEEEEEEEccCCCccCchhHHHhhhcCeEEEEcHHHHhCCCCCCcCcccchhhcch-
Confidence            9999999999999998  4589999999999999999999999999999999999999999999999999999999995 


Q ss_pred             CCCC-----HHHHHHHHHHHHHHHccHhhhhccC
Q psy210          887 YIVG-----EEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       887 ~~~~-----~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      .+++     ++|+++++++++.|++|+|++++.+
T Consensus       364 ~~ig~~~~~~~h~~~a~~l~~~~~~~~el~~i~~  397 (464)
T 3gqb_B          364 NGVGKGKTREDHKQVSDQLYSAYANGVDIRKLVA  397 (464)
T ss_dssp             GTSSTTTSCTTHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             hhcCcccCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4556     8999999999999999999999863

>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=3.3e-89  Score=782.36  Aligned_cols=332  Identities=25%  Similarity=0.385  Sum_probs=318.0

Q ss_pred             hhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccc
Q psy210          581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQI  660 (915)
Q Consensus       581 ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~  660 (915)
                      +++++|+++.+.+++|+++.||+.|+.|++||+++++|||+++||||+|++|+|+|+++++...++||++..+|++++|.
T Consensus        74 g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~P~~~~R~  153 (515)
T 2r9v_A           74 GVAFNLEEDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPINAKNFRPIEIKAPGVIYRK  153 (515)
T ss_dssp             EEEEECCTTCEEEEEESCCTTCCTTCEEEEEEEECEEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESCCCCCCGGGBC
T ss_pred             EEEEEecCCeEEEEEecCcccccCCCEEEEeCCcceeecCccceeeEEcCCCCCcCCCCCCCccceeecccCCCCccccc
Confidence            66789999999999999999999999999999999999999999999999999999999988888899999999999999


Q ss_pred             cccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCc-EEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          661 FNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG-CSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       661 ~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      ++++|++||||+||+|+|||||||++|||++|+|||+|+.+++.|++  ++| +|||++||||++||+||+++++++++|
T Consensus       154 ~v~epl~TGiraID~l~PigrGQR~~I~g~~g~GKT~Lal~~I~~~~--~~dv~~V~~~IGeR~~Ev~e~~~~~~~~g~m  231 (515)
T 2r9v_A          154 PVDTPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAIDTIINQK--GQGVYCIYVAIGQKKSAIARIIDKLRQYGAM  231 (515)
T ss_dssp             CCCSEECCSCHHHHHHSCEETTCBEEEEEETTSSHHHHHHHHHHTTT--TTTEEEEEEEESCCHHHHHHHHHHHHHTTGG
T ss_pred             CCCcchhcCccccccccccccCCEEEEEcCCCCCccHHHHHHHHHhh--cCCcEEEEEEcCCCcHHHHHHHHHHHhCCCc
Confidence            99999999999999999999999999999999999999554444443  256 589999999999999999999999999


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQ  819 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~  819 (915)
                      +||+||++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|+
T Consensus       232 ~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~DslTr~A~A~REisl~lgepP~r~gYp~~vf~~~~rLl  311 (515)
T 2r9v_A          232 EYTTVVVASASDPASLQYIAPYAGCAMGEYFAYSGRDALVVYDDLSKHAVAYRQLSLLMRRPPGREAYPGDIFYLHSRLL  311 (515)
T ss_dssp             GGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEETHHHHHHHHHHHHHTSCCCTTCCCCCCCHHHHHHHHH
T ss_pred             ceeEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEeccHHHHHHHHHHHhhhcCCCCCcccCChhHHHHhHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          820 ERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       820 ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      ||||+.    ++||||++|||++++||++||||+++++||||||+|||+||++||||||||+.|+||+|+ .++.++|++
T Consensus       312 ERAg~~~~~~~~GSITal~~v~~~~~D~s~pI~~~~~si~DGqI~Lsr~La~~g~yPAIdvl~SvSRv~~-~~~~~~~~~  390 (515)
T 2r9v_A          312 ERAVRLNDKLGGGSLTALPIVETQANDISAYIPTNVISITDGQIYLEPGLFYAGQRPAINVGLSVSRVGG-SAQIKAMKQ  390 (515)
T ss_dssp             TTCEEBCTTTTSCEEEEEEEEEESTTCTTSHHHHHHHHTSSEEEEBCHHHHHHTCSSCBCTTTCEEGGGT-TTSCHHHHH
T ss_pred             HHHhhccccCCCcceEEeeeeeccCCCccccchhhhccccceEEEEchHHHhCCCCCeeccccccccCCc-ccCCHHHHH
Confidence            999985    579999999999999999999999999999999999999999999999999999999995 678899999


Q ss_pred             HHHHHHHHHHccHhhhhccC
Q psy210          896 VANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +++++|++|++|+|++++++
T Consensus       391 ~a~~lr~~la~y~el~~~~~  410 (515)
T 2r9v_A          391 VAGMLRIDLAQYRELETFAQ  410 (515)
T ss_dssp             HHHHHHHHHHHHHHHHTTGG
T ss_pred             HHHHHHHHHhhhhHHHHHHH
Confidence            99999999999999999864

>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=5.4e-89  Score=781.90  Aligned_cols=333  Identities=23%  Similarity=0.343  Sum_probs=318.5

Q ss_pred             hhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcccc
Q psy210          580 NKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQ  659 (915)
Q Consensus       580 ~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r  659 (915)
                      .+++++|+++.+.+++|+++.||+.|+.|++||+++++|||+++||||+|++|+|||+++++...++||++..+|++++|
T Consensus        61 ~g~v~~l~~~~v~~~~~~~~~gi~~G~~V~~tg~~~~vpvG~~lLGRVvd~lG~PiDg~g~i~~~~~~pi~~~~p~~~~R  140 (507)
T 1fx0_A           61 IGIALNLESNNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEITASESRLIESPAPGIMSR  140 (507)
T ss_dssp             EEEEEEECSSEEEEEECSCGGGCCTTCEEECCCCCCEEEESSSCSSCCCCSSSCCSSSSCCCCCSEEEESSCCCCCSSSB
T ss_pred             eEEEEeccCCeEEEEEecCccCCcCCCEEEEeCCcceeecCccceeEEEccCCcCCCCCCCCCCCceeeccCCCCCcccc
Confidence            36778999999999999999999999999999999999999999999999999999999998888889999999999999


Q ss_pred             ccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCc-EEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          660 IFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG-CSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      .++++|++||||+||+|+|||||||++|||++|+|||+|+.+++.|++.  +| +|||++||||++||++|+++++++++
T Consensus       141 ~~v~epl~TGiraID~l~PigrGQR~~Ifg~~g~GKT~Lal~~I~~~~~--~dv~~V~~~iGeR~~Ev~~~~~~~~~~g~  218 (507)
T 1fx0_A          141 RSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATDTILNQQG--QNVICVYVAIGQKASSVAQVVTNFQERGA  218 (507)
T ss_dssp             CCCCSBCCCSCTTTTTTSCCBTTCBCBEEESSSSSHHHHHHHHHHTCCT--TTCEEEEEEESCCHHHHHHHHHHTGGGTG
T ss_pred             cccCCcccccceecccccccccCCEEEEecCCCCCccHHHHHHHHHhhc--CCcEEEEEEcCCCchHHHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999995544444432  45 68999999999999999999999999


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKL  818 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l  818 (915)
                      |+||+||++|+|+||.+|+++||+|+|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.|++|
T Consensus       219 m~rtvvV~atad~p~~~r~~a~~~a~tiAEyfrd~G~dVLli~Dsltr~A~A~REisl~lge~P~~~gYp~~vf~~~srL  298 (507)
T 1fx0_A          219 MEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRL  298 (507)
T ss_dssp             GGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTT
T ss_pred             cccceEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEEEecHHHHHHHHHHHHHhcCCCCccccCCchHhhhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCC----CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHH
Q psy210          819 QERISST----KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHY  894 (915)
Q Consensus       819 ~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~  894 (915)
                      +||||+.    ++||||+++||++|+||++||||+++++||||||+|||+||++||||||||+.|+||+|+ ..+.++|+
T Consensus       299 lERAg~~~~~~~~GSITal~~v~~~~~D~s~pI~~~~~si~DgqIvLsr~La~~g~yPAIdvl~S~SR~~~-~~~~~~~~  377 (507)
T 1fx0_A          299 LERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVGS-AAQIKAMK  377 (507)
T ss_dssp             GGGCCBBCTTTTSCEEEECCEEECSTTCTTSHHHHHHHTTSSCBCCCCSSSSSSSCSSCCCTTTCCCTTGG-GGSCHHHH
T ss_pred             HHhhhhccccCCCcceeeeeeeeccCCCcccchHHHHHhhcCcEEEEehhHhhCCCCCccchhhhhccccc-cCCCHHHH
Confidence            9999985    579999999999999999999999999999999999999999999999999999999995 56789999


Q ss_pred             HHHHHHHHHHHccHhhhhccC
Q psy210          895 KVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       895 ~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      ++++++|++|++|+|++++++
T Consensus       378 ~~a~~lr~~la~y~el~~~~~  398 (507)
T 1fx0_A          378 KVAGKLKLELAQFAELEAFAQ  398 (507)
T ss_dssp             HHHHHHHHHHHHHHHHTTTGG
T ss_pred             HHHHHHHHHHHhhhHHHHHHH
Confidence            999999999999999999864

>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=1.1e-86  Score=766.24  Aligned_cols=429  Identities=20%  Similarity=0.263  Sum_probs=372.7

Q ss_pred             ceeeecc-eeEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCcccee
Q psy210          114 YSSIIRF-AYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEI  192 (915)
Q Consensus       114 ~a~~~r~-g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~v  192 (915)
                      .-++.+. |-.++-.......+++.+++.. .  .+.|+|.+.+|  +.    +.+++|+++.|++.|++|.+||+++++
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   80 (600)
T 3vr4_A           10 IGKIIKVSGPLVMAENMSEASIQDMCLVGD-L--GVIGEIIEMRQ--DV----ASIQVYEETSGIGPGEPVRSTGEALSV   80 (600)
T ss_dssp             CEEEEEEETTEEEEESCTTSCTTCEEEETT-T--TEEEEEEEEET--TE----EEEEESSCCTTCCTTCEEEECSSSSEE
T ss_pred             ceEEEEEECcEEEEEcCCCCccCCEEEECC-C--cEEEEEEEEcC--Cc----EEEEEccCCCCCCCCCEEEECCCCCEE
Confidence            3455554 3566666666678899998843 2  36799999998  33    378999999999999999999999999


Q ss_pred             ccccccceeEeCCCceeecCC----C-----------ccccc--------------------------------------
Q psy210          193 PVGFELLGRIVNSKGEFIDNK----K-----------KFLIK--------------------------------------  219 (915)
Q Consensus       193 pvg~~lLGrviD~lG~PiD~~----~-----------~~~~~--------------------------------------  219 (915)
                      ++|+++||||+|++|+|||++    +           ++...                                      
T Consensus        81 ~vG~~lLGrV~DglGrPlD~~~~~~g~~~~~~g~~~~~l~~~~~w~f~p~~~~Gd~v~~g~i~g~v~e~~~i~h~im~pp  160 (600)
T 3vr4_A           81 ELGPGIISQMFDGIQRPLDTFMEVTQSNFLGRGVQLPALDHEKQWWFEATIEEGTEVSAGDIIGYVDETKIIQHKIMVPN  160 (600)
T ss_dssp             EESTTCTTCEECTTCCBHHHHHHHHCSSBCCTTCCCCSSCSSCCEEEEECSCTTCEECTTCEEEEEECSSSCEEEEECCT
T ss_pred             EeCHHHHhhhhCcCCCcccccccccCccccccCCcCCCCCcccccccCcccccCCEecCCceEEEEecCCceeeeeecCC
Confidence            999999999999999999986    3           11111                                      


Q ss_pred             -----------------------------------ccccccccCCCCCcccccCccccccceeeeccccccccceeeeec
Q psy210          220 -----------------------------------NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIG  264 (915)
Q Consensus       220 -----------------------------------~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g  264 (915)
                                                         ++||+.. ||++.+|.++++||+||||+||+|+|||||||++|||
T Consensus       161 ~~~g~v~~i~~g~~~v~~~v~~i~~~~g~~~i~~~~~wpv~~-~~p~~~R~~~~epl~TGirvID~l~PigrGqr~~Ifg  239 (600)
T 3vr4_A          161 GIKGTVQKIESGSFTIDDPICVIETEQGLKELTMMQKWPVRR-GRPIKQKLNPDVPMITGQRVIDTFFPVTKGGAAAVPG  239 (600)
T ss_dssp             TCCEEEEEECCEEECTTSCCEEEEETTEEEEECSCEEEETTS-CCCCSEEECCCSBCCCCCHHHHHHSCCBTTCEEEEEC
T ss_pred             CCCceEEEecCCcceeceeEEEEeccCCcccccccccccccC-CCchhhccCCCceecccchhhhccCCccCCCEEeeec
Confidence                                               1223322 3445689999999999999999999999999999999


Q ss_pred             CCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhh
Q psy210          265 DRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTG  337 (915)
Q Consensus       265 ~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a  337 (915)
                      ++|+|||+| +.+|++|++.++ |||++||||++|+++|+++|++       .++|+||++|++++|+||.+|+++||+|
T Consensus       240 g~g~GKT~L-~~~ia~~~~~~v-~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~m~rtvvV~~tsd~p~~~R~~~~~~a  317 (600)
T 3vr4_A          240 PFGAGKTVV-QHQIAKWSDVDL-VVYVGCGERGNEMTDVVNEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTG  317 (600)
T ss_dssp             CTTSCHHHH-HHHHHHHSSCSE-EEEEEEEECHHHHHHHHHHTTTCBCTTTCSBGGGGEEEEEEETTSCHHHHHHHHHHH
T ss_pred             CCCccHHHH-HHHHHhccCCCE-EEEEEecccHHHHHHHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHH
Confidence            999999999 678999998886 9999999999999999999976       5689999999999999999999999999


Q ss_pred             hhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCcc
Q psy210          338 CTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTL  417 (915)
Q Consensus       338 ~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSi  417 (915)
                      +|+||||||+|+|||+++||+||||+|+||||+++||||+++||||++|+.+++||||||+++... +     .+++|||
T Consensus       318 ltiAEyfrd~G~dVLl~~Ds~tR~A~A~rEiS~~lge~P~~~GYp~~l~s~L~~l~ERAg~~~~~~-~-----~~~~GSI  391 (600)
T 3vr4_A          318 ITIAEYFRDMGYDVAIMADSTSRWAEALREMSGRLEEMPGDEGYPAYLGSRLAEYYERSGRVIALG-S-----DQREGSI  391 (600)
T ss_dssp             HHHHHHHHTTTCEEEEEEECHHHHHHHHHHHHHHTTCCBCGGGCBTTHHHHHHHHHTTSEEEECSS-T-----TCCEEEE
T ss_pred             HHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhccCCCCccccCCchhhhHHHHHHHhhccccccC-C-----CCCCcce
Confidence            999999999999999999999999999999999999999999999999999999999999985311 0     1247999


Q ss_pred             ceeEEEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc-------ccHHHHHHHHHHHHHH
Q psy210          418 TAFPIIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-------QYKIVKKLSGDIRIML  490 (915)
Q Consensus       418 T~~~~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-------~~~~~~~~a~~lr~~l  490 (915)
                      |++++|++|+||++||||+++++|+||||+|||+||++||||||||+.|+||++..+       ..++|.+++.+++++|
T Consensus       392 T~i~~v~~~gdD~tdPi~~~t~~i~dg~ivLsr~La~~giyPAId~l~S~SR~~~~l~~~~~~~~~~~h~~~a~~~~~~l  471 (600)
T 3vr4_A          392 TAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFPSINWIQSYSLYSTEVGRYMDQILQQDWSDMVTEGMRIL  471 (600)
T ss_dssp             EEEEEECCSSSCTTSHHHHHHHTTCCEECCBCHHHHTTTCSSCBCTTTCEETTHHHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCCCcchhhhhhhccEEEEEhhhHHhCCCCCccCcccchhhhcccccccccccCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999743       4688999999999999


Q ss_pred             HhhHHHHhhhhc-c-CCCCHHHHHHHHhHHHHH-HHhhcCCCCC----ccHHHHHHHHHHHh------ccccc-ccchhh
Q psy210          491 AQYRELESFSKF-S-SDLDIVTKTQLYNGEKIS-LLMKQKPHEN----YSIVELIIILLIIK------NRFFF-KIPIKQ  556 (915)
Q Consensus       491 a~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~i~-~fL~Q~~~e~----~s~ee~l~~L~ai~------~G~Ld-~vp~~e  556 (915)
                      ++|+|+++++++ | ++|+++++..++++++|+ +||+|+.|++    .++++++..|..+.      ..+++ .++.++
T Consensus       472 a~~~el~~ii~i~G~d~Ls~~dk~~l~~a~~i~e~fL~Q~~f~~~d~~~~~~kq~~~l~~i~~~~~~~~~~~~~~~~~~~  551 (600)
T 3vr4_A          472 QEEEQLNEIVRLVGIDSLSDNDRLTLEVAKSIREDYLQQNAFDDVDTFTSREKQFNMLKVILTFGKEARKALSLGAYFNE  551 (600)
T ss_dssp             HHHHHHHHHHHHTCGGGSCHHHHHHHHHHHHHHHHTTCCCTTSTTTTCCCHHHHHHHHHHHHHHHHHHHHHHTTTCCHHH
T ss_pred             HHHHHHHHHHhccCCccCCHHHHHHHHHHHHHHHHhCCCCCcCCccccCCHHHHHHHHHHHHHHHHHHHHHHHcCCCHHH
Confidence            999999999995 7 469999999999999997 6999998766    79999998887642      12332 456677


Q ss_pred             HHHH
Q psy210          557 IELF  560 (915)
Q Consensus       557 v~~f  560 (915)
                      +..+
T Consensus       552 i~~~  555 (600)
T 3vr4_A          552 IMEG  555 (600)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>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=7e-87  Score=765.04  Aligned_cols=403  Identities=21%  Similarity=0.256  Sum_probs=360.4

Q ss_pred             eEEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecccccccee
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGR  201 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGr  201 (915)
                      -.++-.+.....+++.+++.. .  .+.|+|.+.+|  +.    +.+++|+++.|++.|++|.+||+++++++|+++|||
T Consensus        12 ~vv~v~g~~~~~~gE~v~v~~-~--~l~gEVi~~~~--d~----~~i~v~e~t~Gl~~G~~V~~tg~~l~V~vG~~lLGr   82 (578)
T 3gqb_A           12 PAVIAKGMLGARMYDISKVGE-E--GLVGEIIRLDG--DT----AFVQVYEDTSGLKVGEPVVSTGLPLAVELGPGMLNG   82 (578)
T ss_dssp             TEEEEESCTTCCTTEEEEETT-T--TEEEEEEEEET--TE----EEEEESSCCTTCCTTCEEEEEEEESEEEESTTCTTC
T ss_pred             CEEEEEcCCCCccCCEEEECC-C--cEEEEEEEEcC--Cc----EEEEEcCCCCCCCCCCEEEECCCCCEEEeCHHHhhh
Confidence            455566665567888888843 2  36799999998  33    378899999999999999999999999999999999


Q ss_pred             EeCCCceeecCC----Cc----------cccc------------------------------------------------
Q psy210          202 IVNSKGEFIDNK----KK----------FLIK------------------------------------------------  219 (915)
Q Consensus       202 viD~lG~PiD~~----~~----------~~~~------------------------------------------------  219 (915)
                      |+|++|+|||++    ++          +...                                                
T Consensus        83 V~DglG~PlD~~~~~~g~~~~~g~~~~~l~~~~~w~f~p~~~~g~~v~~G~i~g~v~e~~~ih~i~~pp~~~g~v~~i~~  162 (578)
T 3gqb_A           83 IYDGIQRPLERIREKTGIYITRGVVVHALDREKKWAWTPMVKPGDEVRGGMVLGTVPEFGFTHKILVPPDVRGRVKEVKP  162 (578)
T ss_dssp             EECTTSCBHHHHHHHHCSBCCTTCCCCSSCSSSCEEEEECCCTTCEECTTCEEEEEEETTEEEEEECCTTCCEEEEEECC
T ss_pred             hhCcCCCcccccccccCccccccccCCCcCcccccccccccccCccccccceeeeecccccceecccCCCcCceeEEecc
Confidence            999999999987    21          1111                                                


Q ss_pred             ----------------------ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHH
Q psy210          220 ----------------------NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDT  277 (915)
Q Consensus       220 ----------------------~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~  277 (915)
                                            ++||+..+ +++.+|.++++||+||||+||+|+|||||||++|||++|+|||+| +.+
T Consensus       163 ~G~~~v~~~i~~~~~g~~i~~~~~wPv~~~-~p~~~R~~~~epl~TGirvID~l~PigrGqr~~Ifg~~g~GKT~l-~~~  240 (578)
T 3gqb_A          163 AGEYTVEEPVVVLEDGTELKMYHTWPVRRA-RPVQRKLDPNTPFLTGMRILDVLFPVAMGGTAAIPGPFGSGKSVT-QQS  240 (578)
T ss_dssp             SEEECTTSCSEEETTCCEECSCEEEETTSC-CCCSEEECSCSEECCSCHHHHTTSCEETTCEEEECCCTTSCHHHH-HHH
T ss_pred             CCcccccceeEEeecCccccccccccccCC-CChHHhccCCCcccccchhhhhcccccCCCEEeeeCCCCccHHHH-HHH
Confidence                                  12233322 346689999999999999999999999999999999999999999 568


Q ss_pred             HHhhcCCCeEEEEEeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCc
Q psy210          278 IINQKNKNVICIYVCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQD  350 (915)
Q Consensus       278 i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~  350 (915)
                      |++|++.++ |||++||||++|+++|+++|++       .++|+||++|++++|+||.+|+++||+|+|+||||||+|+|
T Consensus       241 ia~~~~~~v-~V~~~iGER~~Ev~e~~~~~~el~d~~~G~~~~~rtvvv~~tsd~p~~~R~~~~~~altiAEyfrd~G~d  319 (578)
T 3gqb_A          241 LAKWSNADV-VVYVGSGERGNEMTDVLVEFPELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFS  319 (578)
T ss_dssp             HHHHSSCSE-EEEEEEEECHHHHHHHHTTGGGCBCTTTSSBSGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCE
T ss_pred             HHhccCCCE-EEEEEecccHHHHHHHHHHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCC
Confidence            999998886 9999999999999999999976       56899999999999999999999999999999999999999


Q ss_pred             EEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCC
Q psy210          351 CLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDV  430 (915)
Q Consensus       351 Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~  430 (915)
                      ||+++||+||||+|+||||+++||||+++||||++|+.+++||||||+++...        +++||||++++|++|+||+
T Consensus       320 VLl~~Ds~tR~A~A~rEis~~lge~P~~~GYp~~l~s~l~~l~ERAg~~~~~~--------~~~GSIT~i~~v~~~gdD~  391 (578)
T 3gqb_A          320 VALMADSTSRWAEALREISSRLEEMPAEEGYPPYLAARLAAFYERAGKVITLG--------GEEGAVTIVGAVSPPGGDM  391 (578)
T ss_dssp             EEECCSCHHHHHHHHHHHHHHTTCCCCSSSSCTTHHHHHHHHHTTCEEEECTT--------SCEEEEEEEEECCCTTTCT
T ss_pred             EEEEecChHHHHHHHHHHHHhccCCCccccCCchhhhHHHHHHHhhcCcccCC--------CCCcceEEEEEEEcCCCCC
Confidence            99999999999999999999999999999999999999999999999986422        2379999999999999999


Q ss_pred             CCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccc-------cccHHHHHHHHHHHHHHHhhHHHHhhhh-c
Q psy210          431 TSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGA-------AQYKIVKKLSGDIRIMLAQYRELESFSK-F  502 (915)
Q Consensus       431 ~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~-------~~~~~~~~~a~~lr~~la~~~e~e~l~~-l  502 (915)
                      +||||+++++|+||||+|||+||++||||||||+.|+||++..       ...++|.+++.+++++|++|+|++++++ +
T Consensus       392 tdPi~~~t~~i~dg~ivLsr~La~~g~yPAId~l~S~SR~~~~v~~~~~~~~~~~h~~~a~~~~~~l~~~~el~~ii~i~  471 (578)
T 3gqb_A          392 SEPVTQSTLRIVGAFWRLDASLAFRRHFPAINWNGSYSLFTSALDPWYRENVAEDYPELRDAISELLQREAGLQEIVQLV  471 (578)
T ss_dssp             TSHHHHHHHTTCSEECCBCHHHHHHTCSSCBCTTTCEESSHHHHHHHHHHHTCTTHHHHHHHHHHHHHHHHTTTTTTTTT
T ss_pred             CCcchHHHhhhcCceEEECHHHHhCCCCCCcCcccchhhccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999974       3568999999999999999999999999 4


Q ss_pred             c-CCCCHHHHHHHHhHHHHH-HHhhcCCCCC----ccHHHHHHHHHHH
Q psy210          503 S-SDLDIVTKTQLYNGEKIS-LLMKQKPHEN----YSIVELIIILLII  544 (915)
Q Consensus       503 G-~~ld~~~~~~L~~~~~i~-~fL~Q~~~e~----~s~ee~l~~L~ai  544 (915)
                      | ++|+++++..++++++|+ +||+|+.|++    .++++++..|..+
T Consensus       472 G~d~Ls~~dk~~l~~a~~i~~~fL~Q~~f~~~d~~~~~~kq~~~l~~i  519 (578)
T 3gqb_A          472 GPDALQDAERLVIEVGRIIREDFLQQNAYHEVDAYSSMKKAYGIMKMI  519 (578)
T ss_dssp             TGGGCCHHHHHHHHHHHHHHHHHTCCCSSSTTTTCCCHHHHHHHHHHH
T ss_pred             CCccCCHHHHHHHHHHHHHHHHhCCCCCCCCceecCCHHHHHHHHHHH
Confidence            7 469999999999999996 6999998766    7999999888764

>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=3.3e-87  Score=767.45  Aligned_cols=397  Identities=22%  Similarity=0.280  Sum_probs=309.1

Q ss_pred             ChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeCCCcee
Q psy210          130 DPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEF  209 (915)
Q Consensus       130 ~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~P  209 (915)
                      ....+++.+++..   ..+.|+|.++++  +.+    .+++|+++.|++.|++|.+||+++++++|+++||||+|++|+|
T Consensus        21 ~~~~~gElv~v~~---~~l~geVi~l~~--d~~----~i~v~e~t~Gi~~G~~V~~tg~~lsV~vG~gLLGrV~DglgrP   91 (588)
T 3mfy_A           21 KGAKMYEVVRVGE---LGLIGEIIRLEG--DKA----VIQVYEETAGVRPGEPVVGTGASLSVELGPRLLTSIYDGIQRP   91 (588)
T ss_dssp             -------------------------------------------------CCCCCSSSSSCCEEEESTTCTTCEEETTCCS
T ss_pred             CCCccCCEEEEcC---CceEEEEEEecC--CeE----EEEEccCCCCCCCCCEEEEcCCCCEEEeCHHHHhhccCCCCCc
Confidence            3356777777732   236799999998  433    7899999999999999999999999999999999999999999


Q ss_pred             ecCCCcccc-----------------------------------------------------------------------
Q psy210          210 IDNKKKFLI-----------------------------------------------------------------------  218 (915)
Q Consensus       210 iD~~~~~~~-----------------------------------------------------------------------  218 (915)
                      ||++++...                                                                       
T Consensus        92 Ld~~~~~~g~~~~~g~~~~~l~~~~~w~f~p~~~~gd~v~~G~i~g~v~e~~~~~~~imvpp~~~g~v~~i~~~g~~~v~  171 (588)
T 3mfy_A           92 LEVIREKTGDFIARGVTAPALPRDKKWHFIPKAKVGDKVVGGDIIGEVPETSIIVHKIMVPPGIEGEIVEIAEEGDYTIE  171 (588)
T ss_dssp             SSSCCCCCSSSCCCCCCCCSSCSSCCEEEEECCCTTCEECTTCEEEEEECSSSCEEEEECCTTCCEEEEEECCSEEECTT
T ss_pred             ccCcccccccccccccccCccccccccccccccccCcccccCceEEEEecccceeeeeecCCCCCceEEEeccCCccccc
Confidence            999753110                                                                       


Q ss_pred             ------------------cccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          219 ------------------KNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       219 ------------------~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                                        .++||+.. |+++++|.++++||+||||+||+|+|||||||++|||++|+|||+| +++|++
T Consensus       172 ~~i~~i~~~~g~~~~i~~~~~wpv~~-~~p~~~R~~~~epl~TGirvID~l~PigkGqr~~I~g~~g~GKT~L-~~~ia~  249 (588)
T 3mfy_A          172 EVIAKVKTPSGEIKELKMYQRWPVRV-KRPYKEKLPPEVPLITGQRVIDTFFPQAKGGTAAIPGPAGSGKTVT-QHQLAK  249 (588)
T ss_dssp             SEEEEEECTTCCEEEEESCEEEETTS-CCCCSEEECSCSEECCSCHHHHHHSCEETTCEEEECSCCSHHHHHH-HHHHHH
T ss_pred             ceEEEEecCCCccccccccccccccC-CCchhhhccCCcccccCcchhhccCCcccCCeEEeecCCCCCHHHH-HHHHHh
Confidence                              01233332 2335689999999999999999999999999999999999999999 677999


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhc-------cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEE
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKY-------YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLI  353 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~-------~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv  353 (915)
                      |++.++ |||++||||++|+++|+++|++       .++|+||++|++++|+||.+|+++||+|+|+||||||+|+|||+
T Consensus       250 ~~~~~~-~V~~~iGER~~Ev~e~~~~~~el~d~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl  328 (588)
T 3mfy_A          250 WSDAQV-VIYIGCGERGNEMTDVLEEFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAL  328 (588)
T ss_dssp             HSSCSE-EEEEECCSSSSHHHHHHHHTTTCEETTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEE
T ss_pred             ccCCCE-EEEEEecccHHHHHHHHHHHHHhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEE
Confidence            988885 9999999999999999999976       56899999999999999999999999999999999999999999


Q ss_pred             EeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCCCc
Q psy210          354 IYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVTSF  433 (915)
Q Consensus       354 ~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~~p  433 (915)
                      ++||+||||+|+||||+++||||+++||||++|+.+++||||||+++...+      .+++||||++++|++|+||++||
T Consensus       329 ~~DsltR~A~A~rEis~~lge~P~~~GYp~~l~s~L~~l~ERAg~~~~~~~------~~~~GSIT~i~~v~~~gdD~sdp  402 (588)
T 3mfy_A          329 MADSTSRWAEALREISGRLEEMPGEEGYPAYLASKLAEFYERAGRVVTLGS------DYRVGSVSVIGAVSPPGGDFSEP  402 (588)
T ss_dssp             EEECTTTCCCCC----------------CCHHHHHHHHHHTTCEEEECSSS------SCCEEEEEEEEECCCTTSCSSCS
T ss_pred             eecchHHHHHHHHHHHHhccCCCccccCCchhhhhhhHHHhccccccccCC------CCCCcceEEEEEEECCCCCCCCc
Confidence            999999999999999999999999999999999999999999999853110      12479999999999999999999


Q ss_pred             cccccccccCcEEEeehhhhhcCCCCeeeecCCcccccccc-------ccHHHHHHHHHHHHHHHhhHHHHhhhh-ccC-
Q psy210          434 IPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAA-------QYKIVKKLSGDIRIMLAQYRELESFSK-FSS-  504 (915)
Q Consensus       434 i~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~-------~~~~~~~~a~~lr~~la~~~e~e~l~~-lG~-  504 (915)
                      ||+++++|+||||+|||+||++||||||||+.|+||++...       ..++|.+++.+++++|++|+|++++++ +|. 
T Consensus       403 i~~~~~~i~dg~i~Lsr~La~~g~yPAId~l~S~SR~~~~i~~~~~~~~~~~h~~~a~~~~~~La~~~el~~ii~i~G~d  482 (588)
T 3mfy_A          403 VVQNTLRVVKVFWALDADLARRRHFPAINWLTSYSLYVDAVKDWWHKNIDPEWKAMRDKAMALLQKESELQEIVRIVGPD  482 (588)
T ss_dssp             HHHHHHHHCSEECCBCHHHHHTTCSSCBCTTTCEETTHHHHHHHHHHHTCTTHHHHHHHHHHHHHHHHHHHHHHHHHCST
T ss_pred             chHHHHHhccCeeecCHHHHhCCCCCCcCcccchhhhcccccchhhccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence            99999999999999999999999999999999999999763       468999999999999999999999999 574 


Q ss_pred             CCCHHHHHHHHhHHHHH-HHhhcCCCCCc----cHHHHHHHHHHH
Q psy210          505 DLDIVTKTQLYNGEKIS-LLMKQKPHENY----SIVELIIILLII  544 (915)
Q Consensus       505 ~ld~~~~~~L~~~~~i~-~fL~Q~~~e~~----s~ee~l~~L~ai  544 (915)
                      +|+++++..++++++|+ +||+|+.|+++    ++++++..|..+
T Consensus       483 ~Ls~~dk~~l~~ar~i~e~fL~Q~~f~~~d~~~~~~k~~~~l~~i  527 (588)
T 3mfy_A          483 ALPERERAILLVARMLREDYLQQDAFDEVDTYCPPEKQVTMMRVL  527 (588)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCCCTTSTTTTCCCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHhcCCCCCCCCccCCCHHHHHHHHHHH
Confidence            69999999999999996 79999988877    999999887764

>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=5.5e-84  Score=739.34  Aligned_cols=416  Identities=22%  Similarity=0.303  Sum_probs=373.9

Q ss_pred             EEEEeecC--hhhcccccccccCC--Cc----eEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceecc
Q psy210          123 NIEYDYFD--PRCLNQTLNIKFAN--NT----VLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPV  194 (915)
Q Consensus       123 ~~~~~~~~--p~~L~~~le~~~~~--g~----~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpv  194 (915)
                      .++-.+.+  -..+++.+++...+  |.    ...++|.+.-+  +   +.+.+++++.+.+++.|++|.+||+++++|+
T Consensus        13 vv~~~~~~~~~~~i~~~~~i~~~~~~~~~~~~~~~~ev~~~~~--~---~~v~~~~~~~t~gl~~G~~V~~tg~~~~vpv   87 (473)
T 1sky_E           13 VVDVKFENGHLPAIYNALKIQHKARNENEVDIDLTLEVALHLG--D---DTVRTIAMASTDGLIRGMEVIDTGAPISVPV   87 (473)
T ss_dssp             EEEEEESTTCCCCTTEEEEEEECCSSTTCCCEEEEEEEEEEEE--T---TEEEEEESSCCTTCCTTCEEEEEEEECEEEC
T ss_pred             EEEEEecCCcccccCCEEEEEecCCCCCccccceEEEEeEEec--C---CcEEEEEecCccCCCCCCEEEEcCCcceeec
Confidence            44445542  23577777776422  32    35567777333  1   2347789999999999999999999999999


Q ss_pred             ccccceeEeCCCceeecCCCccccc-ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHH
Q psy210          195 GFELLGRIVNSKGEFIDNKKKFLIK-NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTI  273 (915)
Q Consensus       195 g~~lLGrviD~lG~PiD~~~~~~~~-~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l  273 (915)
                      |+++||||+|++|+|||+++++... .+||++..+|++++|.++++||+||||+||.|+|+++|||++|||++|+|||+|
T Consensus        88 g~~llGrv~d~lG~piD~~g~i~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~L~pi~kGq~~~i~G~sGvGKTtL  167 (473)
T 1sky_E           88 GQVTLGRVFNVLGEPIDLEGDIPADARRDPIHRPAPKFEELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVL  167 (473)
T ss_dssp             SGGGTTCEECTTSCBCSSSCCCCTTSCEEESCCCCCCGGGBCCSCCEECCSCHHHHHHSCEETTCEEEEECCSSSCHHHH
T ss_pred             cccceeeEEeecCCccCcccccCCCceeecccccCcchhhhcccCccccccchHHHHHhhhccCCEEEEECCCCCCccHH
Confidence            9999999999999999999988876 789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhc-CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHh-cCCcE
Q psy210          274 AIDTIINQK-NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDC  351 (915)
Q Consensus       274 ~l~~i~~~~-~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~-~g~~V  351 (915)
                      +...+.+++ +...+|||++||+|.+|+.+|++++++.++++||++|++++++||..|++++++++++||||++ +|+||
T Consensus       168 ~~~l~~~~~~~~~~i~V~~~iGerttev~el~~~l~~~~~l~~tvvv~~~~~d~pg~r~~~~~~~ltiAEyFrd~~G~~V  247 (473)
T 1sky_E          168 IQELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKDSGVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDG  247 (473)
T ss_dssp             HHHHHHHHHHHTCCCEEEEEESSCHHHHHHHHHHHHHTSGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHHSCCEE
T ss_pred             HHHHHhhhhhccCcEEEEeeeccCchHHHHHHHHhhhcCCcceeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcE
Confidence            544444443 2334589999999999999999999999999999999999999999999999999999999999 89999


Q ss_pred             EEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCC
Q psy210          352 LIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT  431 (915)
Q Consensus       352 lv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~  431 (915)
                      |+++|||||||+|+||||+++||||+++||||++|+.|++|+||||+.             ++||||++|+|++|+||++
T Consensus       248 Ll~~D~itR~a~A~reis~~~ge~P~~~GYp~~~~~~l~~l~ERa~~~-------------~~GSIT~i~tv~~~~dD~~  314 (473)
T 1sky_E          248 LLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEMGQLQERITST-------------AKGSITSIQAIYVPADDYT  314 (473)
T ss_dssp             EEEEECTHHHHHHHHHHHHHHTCCCCGGGCCTTHHHHHHHHHTTSSCB-------------SSCEEEEEEECCCSTTCSS
T ss_pred             EEEeccHHHHHHHHHHHHhhcCCCCccccCCchhhhHHHHHHHHhcCC-------------CCCceEEEEEEEecCCCCC
Confidence            999999999999999999999999999999999999999999999863             2799999999999999999


Q ss_pred             CccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccc-cccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCH
Q psy210          432 SFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGA-AQYKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDI  508 (915)
Q Consensus       432 ~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~-~~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~  508 (915)
                      |||||++++|+||||+|||+||++||||||||+.|+||+|+. ...++|+++++++|+.|++|+|+++++++ | +++++
T Consensus       315 dpi~~~~~~i~dg~ivLsr~La~~g~yPAId~l~S~SR~~~~~~~~~~~~~~a~~lr~~la~y~e~~~li~i~g~~~ls~  394 (473)
T 1sky_E          315 DPAPATTFSHLDATTNLERKLAEMGIYPAVDPLVSTSRALAPEIVGEEHYQVARKVQQTLERYKELQDIIAILGMDELSD  394 (473)
T ss_dssp             SHHHHHHHTTCSEEEEBCTTHHHHTCSSCBCTTTCCBTTCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTCTT
T ss_pred             CcchHHHHhhcCceEEecHHHHhCCCCCccccccccccccchhcCCHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccCCH
Confidence            999999999999999999999999999999999999999966 45699999999999999999999999886 6 48999


Q ss_pred             HHHHHHHhHHHHHHHhhcCCC----------CCccHHHHHHHHHHHhcccccccchhh
Q psy210          509 VTKTQLYNGEKISLLMKQKPH----------ENYSIVELIIILLIIKNRFFFKIPIKQ  556 (915)
Q Consensus       509 ~~~~~L~~~~~i~~fL~Q~~~----------e~~s~ee~l~~L~ai~~G~Ld~vp~~e  556 (915)
                      +++++++++++|++||+|+.+          +..++++++..++.+..|-++.+|.+.
T Consensus       395 ~d~~~l~~~~~i~~fL~Q~~~~~~~~~~~~~~~~~~~~t~~~l~~i~~~~~~~~~~~~  452 (473)
T 1sky_E          395 EDKLVVHRARRIQFFLSQNFHVAEQFTGQPGSYVPVKETVRGFKEILEGKYDHLPEDR  452 (473)
T ss_dssp             HHHHHHHHHHHHHHHTCBCCTTTHHHHSCCCCCCCHHHHHHHHHHHHTTTTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHcCCchHhhhhhccCCccCCHHHHHHHHHHHhcccccCCCHHH
Confidence            999999999999999999965          678999999999999889999888654

>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=7.4e-85  Score=746.51  Aligned_cols=337  Identities=63%  Similarity=1.033  Sum_probs=328.5

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCC-CCCccCCCCCCc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSK-KKSPIHTLPPKF  656 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~-~~~pi~~~~p~~  656 (915)
                      .+.||+.+++++.+++++|+++.||++|++|++||+++++|||+++||||+|++|+|+|+.+++... ++||++..+|++
T Consensus        46 ~~~ev~~~~~~~~v~~~~~~~t~gl~~G~~V~~tg~~~~vpvg~~llGrv~d~lG~piD~~g~i~~~~~~~pi~~~~p~~  125 (473)
T 1sky_E           46 LTLEVALHLGDDTVRTIAMASTDGLIRGMEVIDTGAPISVPVGQVTLGRVFNVLGEPIDLEGDIPADARRDPIHRPAPKF  125 (473)
T ss_dssp             EEEEEEEEEETTEEEEEESSCCTTCCTTCEEEEEEEECEEECSGGGTTCEECTTSCBCSSSCCCCTTSCEEESCCCCCCG
T ss_pred             eEEEEeEEecCCcEEEEEecCccCCCCCCEEEEcCCcceeeccccceeeEEeecCCccCcccccCCCceeecccccCcch
Confidence            5788988899999999999999999999999999999999999999999999999999999888776 789999999999


Q ss_pred             cccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          657 SNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       657 ~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      ++|.+++++++||||+||.|+|++||||++|||++|+|||+|+.+++++++.++.+++||++||||.+|+++|++++.+.
T Consensus       126 ~~r~~~~e~l~TGir~ID~L~pi~kGq~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~V~~~iGerttev~el~~~l~~~  205 (473)
T 1sky_E          126 EELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKDS  205 (473)
T ss_dssp             GGBCCSCCEECCSCHHHHHHSCEETTCEEEEECCSSSCHHHHHHHHHHHHHHHTCCCEEEEEESSCHHHHHHHHHHHHHT
T ss_pred             hhhcccCccccccchHHHHHhhhccCCEEEEECCCCCCccHHHHHHHhhhhhccCcEEEEeeeccCchHHHHHHHHhhhc
Confidence            99999999999999999999999999999999999999999999999999877789999999999999999999999999


Q ss_pred             CccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH-CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHH
Q psy210          737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN-SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM  815 (915)
Q Consensus       737 ~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l  815 (915)
                      ++|+||++|++++|+||..|++++++++++||||+| +|+|||+++||+||||+|+||||+++||+|+++||||++|++|
T Consensus       206 ~~l~~tvvv~~~~~d~pg~r~~~~~~~ltiAEyFrd~~G~~VLl~~D~itR~a~A~reis~~~ge~P~~~GYp~~~~~~l  285 (473)
T 1sky_E          206 GVISKTAMVFGQMNEPPGARMRVALTGLTMAEYFRDEQGQDGLLFIDNIFRFTQAGSEVSALLGRMPSAIGYQPTLATEM  285 (473)
T ss_dssp             SGGGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHHSCCEEEEEEECTHHHHHHHHHHHHHHTCCCCGGGCCTTHHHHH
T ss_pred             CCcceeEEEEEcCCCCHHHHHHHHHHHHHHHHHHHHhcCCcEEEEeccHHHHHHHHHHHHhhcCCCCccccCCchhhhHH
Confidence            999999999999999999999999999999999999 8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHH
Q psy210          816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYK  895 (915)
Q Consensus       816 ~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~  895 (915)
                      ++||||+|+.++||||+++||++|+||++|||||++++||||||+|||+||++||||||||+.|+||+|++.+++++|++
T Consensus       286 ~~l~ERa~~~~~GSIT~i~tv~~~~dD~~dpi~~~~~~i~dg~ivLsr~La~~g~yPAId~l~S~SR~~~~~~~~~~~~~  365 (473)
T 1sky_E          286 GQLQERITSTAKGSITSIQAIYVPADDYTDPAPATTFSHLDATTNLERKLAEMGIYPAVDPLVSTSRALAPEIVGEEHYQ  365 (473)
T ss_dssp             HHHHTTSSCBSSCEEEEEEECCCSTTCSSSHHHHHHHTTCSEEEEBCTTHHHHTCSSCBCTTTCCBTTCCHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCceEEEEEEEecCCCCCCcchHHHHhhcCceEEecHHHHhCCCCCccccccccccccchhcCCHHHHH
Confidence            99999999989999999999999999999999999999999999999999999999999999999999977788999999


Q ss_pred             HHHHHHHHHHccHhhhhcc
Q psy210          896 VANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       896 ~~~~~r~~l~~~~e~~~~~  914 (915)
                      +++++|++|++|+|+++|.
T Consensus       366 ~a~~lr~~la~y~e~~~li  384 (473)
T 1sky_E          366 VARKVQQTLERYKELQDII  384 (473)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhHHHHHHHH
Confidence            9999999999999999963

>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=3.2e-85  Score=751.35  Aligned_cols=332  Identities=26%  Similarity=0.407  Sum_probs=306.9

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCC----CC----------CCCC
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNK----GE----------INSK  644 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~----~~----------~~~~  644 (915)
                      ..+| ..++++.+.+++|+++.||++|++|++||++++||+|+++||||+|++|+|||+.    ++          +...
T Consensus        36 ~gEV-i~~~~d~~~i~v~e~t~Gl~~G~~V~~tg~~l~V~vG~~lLGrV~DglG~PlD~~~~~~g~~~~~g~~~~~l~~~  114 (578)
T 3gqb_A           36 VGEI-IRLDGDTAFVQVYEDTSGLKVGEPVVSTGLPLAVELGPGMLNGIYDGIQRPLERIREKTGIYITRGVVVHALDRE  114 (578)
T ss_dssp             EEEE-EEEETTEEEEEESSCCTTCCTTCEEEEEEEESEEEESTTCTTCEECTTSCBHHHHHHHHCSBCCTTCCCCSSCSS
T ss_pred             EEEE-EEEcCCcEEEEEcCCCCCCCCCCEEEECCCCCEEEeCHHHhhhhhCcCCCcccccccccCccccccccCCCcCcc
Confidence            3444 6899999999999999999999999999999999999999999999999999986    21          1111


Q ss_pred             ----------------------------------------------------------------------CCCccCCCCC
Q psy210          645 ----------------------------------------------------------------------KKSPIHTLPP  654 (915)
Q Consensus       645 ----------------------------------------------------------------------~~~pi~~~~p  654 (915)
                                                                                            ++||++.+ +
T Consensus       115 ~~w~f~p~~~~g~~v~~G~i~g~v~e~~~ih~i~~pp~~~g~v~~i~~~G~~~v~~~i~~~~~g~~i~~~~~wPv~~~-~  193 (578)
T 3gqb_A          115 KKWAWTPMVKPGDEVRGGMVLGTVPEFGFTHKILVPPDVRGRVKEVKPAGEYTVEEPVVVLEDGTELKMYHTWPVRRA-R  193 (578)
T ss_dssp             SCEEEEECCCTTCEECTTCEEEEEEETTEEEEEECCTTCCEEEEEECCSEEECTTSCSEEETTCCEECSCEEEETTSC-C
T ss_pred             cccccccccccCccccccceeeeecccccceecccCCCcCceeEEeccCCcccccceeEEeecCccccccccccccCC-C
Confidence                                                                                  23444433 4


Q ss_pred             CccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhh
Q psy210          655 KFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK  734 (915)
Q Consensus       655 ~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~  734 (915)
                      ++.+|.+++++++||||+||+|+|||||||++|||++|+|||+|+++|+++.   +.+++||++||||++|++||+++|+
T Consensus       194 p~~~R~~~~epl~TGirvID~l~PigrGqr~~Ifg~~g~GKT~l~~~ia~~~---~~~v~V~~~iGER~~Ev~e~~~~~~  270 (578)
T 3gqb_A          194 PVQRKLDPNTPFLTGMRILDVLFPVAMGGTAAIPGPFGSGKSVTQQSLAKWS---NADVVVYVGSGERGNEMTDVLVEFP  270 (578)
T ss_dssp             CCSEEECSCSEECCSCHHHHTTSCEETTCEEEECCCTTSCHHHHHHHHHHHS---SCSEEEEEEEEECHHHHHHHHTTGG
T ss_pred             ChHHhccCCCcccccchhhhhcccccCCCEEeeeCCCCccHHHHHHHHHhcc---CCCEEEEEEecccHHHHHHHHHHHH
Confidence            5678999999999999999999999999999999999999999999999874   4689999999999999999999987


Q ss_pred             h-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCC
Q psy210          735 E-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGY  807 (915)
Q Consensus       735 ~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gy  807 (915)
                      +       +++|+||++|++|||+||.+|++++|+|+|+||||||+|+|||+++||+||||+|+||||+++||+|+++||
T Consensus       271 el~d~~~G~~~~~rtvvv~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR~A~A~rEis~~lge~P~~~GY  350 (578)
T 3gqb_A          271 ELTDPKTGGPLMHRTVLIANTSNMPVAAREASIYVGVTIAEYFRDQGFSVALMADSTSRWAEALREISSRLEEMPAEEGY  350 (578)
T ss_dssp             GCBCTTTSSBSGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHHTTCEEEECCSCHHHHHHHHHHHHHHTTCCCCSSSS
T ss_pred             hhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecChHHHHHHHHHHHHhccCCCccccC
Confidence            6       578999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cchhhHHHHHHHHHhcC-----CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCccc
Q psy210          808 QPTLAEEMGKLQERISS-----TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK  882 (915)
Q Consensus       808 p~~l~~~l~~l~ERag~-----~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR  882 (915)
                      |||+|++|++||||||+     .++||||++++|++|+||++|||++++++|+||||+|||+||++||||||||+.|+||
T Consensus       351 p~~l~s~l~~l~ERAg~~~~~~~~~GSIT~i~~v~~~gdD~tdPi~~~t~~i~dg~ivLsr~La~~g~yPAId~l~S~SR  430 (578)
T 3gqb_A          351 PPYLAARLAAFYERAGKVITLGGEEGAVTIVGAVSPPGGDMSEPVTQSTLRIVGAFWRLDASLAFRRHFPAINWNGSYSL  430 (578)
T ss_dssp             CTTHHHHHHHHHTTCEEEECTTSCEEEEEEEEECCCTTTCTTSHHHHHHHTTCSEECCBCHHHHHHTCSSCBCTTTCEES
T ss_pred             CchhhhHHHHHHHhhcCcccCCCCCcceEEEEEEEcCCCCCCCcchHHHhhhcCceEEECHHHHhCCCCCCcCcccchhh
Confidence            99999999999999986     3689999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCC------CCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          883 QLDP------YIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       883 ~~~~------~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +|+.      .+++++|++++++++++|++|+|+++|++
T Consensus       431 ~~~~v~~~~~~~~~~~h~~~a~~~~~~l~~~~el~~ii~  469 (578)
T 3gqb_A          431 FTSALDPWYRENVAEDYPELRDAISELLQREAGLQEIVQ  469 (578)
T ss_dssp             SHHHHHHHHHHHTCTTHHHHHHHHHHHHHHHHTTTTTTT
T ss_pred             ccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9962      35789999999999999999999999874

>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=3.6e-85  Score=753.61  Aligned_cols=331  Identities=25%  Similarity=0.404  Sum_probs=306.1

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCC----C-----------CCCC
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNK----G-----------EINS  643 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~----~-----------~~~~  643 (915)
                      ..|| ..++++.+.+++|+++.||++|++|++||++++||+|+++||||+|++|+|||+.    +           ++..
T Consensus        43 ~gEV-i~~~~d~a~i~v~e~t~Gl~~G~~V~~tG~~lsV~vG~~lLGrV~DglGrPlD~~~~~~g~~~~~~g~~~~~l~~  121 (600)
T 3vr4_A           43 IGEI-IEMRQDVASIQVYEETSGIGPGEPVRSTGEALSVELGPGIISQMFDGIQRPLDTFMEVTQSNFLGRGVQLPALDH  121 (600)
T ss_dssp             EEEE-EEEETTEEEEEESSCCTTCCTTCEEEECSSSSEEEESTTCTTCEECTTCCBHHHHHHHHCSSBCCTTCCCCSSCS
T ss_pred             EEEE-EEEcCCcEEEEEccCCCCCCCCCEEEECCCCCEEEeCHHHHhhhhCcCCCcccccccccCccccccCCcCCCCCc
Confidence            3444 6899999999999999999999999999999999999999999999999999986    3           1211


Q ss_pred             C-------------------------------------------------------------------------CCCccC
Q psy210          644 K-------------------------------------------------------------------------KKSPIH  650 (915)
Q Consensus       644 ~-------------------------------------------------------------------------~~~pi~  650 (915)
                      .                                                                         ++||++
T Consensus       122 ~~~w~f~p~~~~Gd~v~~g~i~g~v~e~~~i~h~im~pp~~~g~v~~i~~g~~~v~~~v~~i~~~~g~~~i~~~~~wpv~  201 (600)
T 3vr4_A          122 EKQWWFEATIEEGTEVSAGDIIGYVDETKIIQHKIMVPNGIKGTVQKIESGSFTIDDPICVIETEQGLKELTMMQKWPVR  201 (600)
T ss_dssp             SCCEEEEECSCTTCEECTTCEEEEEECSSSCEEEEECCTTCCEEEEEECCEEECTTSCCEEEEETTEEEEECSCEEEETT
T ss_pred             ccccccCcccccCCEecCCceEEEEecCCceeeeeecCCCCCceEEEecCCcceeceeEEEEeccCCccccccccccccc
Confidence            1                                                                         234443


Q ss_pred             CCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHH
Q psy210          651 TLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY  730 (915)
Q Consensus       651 ~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~  730 (915)
                      . ||+..+|.+++++|+||||+||+|+|||||||++|||++|+|||+|+++|+++.   +.+++||++||||++|++||+
T Consensus       202 ~-~~p~~~R~~~~epl~TGirvID~l~PigrGqr~~Ifgg~g~GKT~L~~~ia~~~---~~~v~V~~~iGER~~Ev~e~~  277 (600)
T 3vr4_A          202 R-GRPIKQKLNPDVPMITGQRVIDTFFPVTKGGAAAVPGPFGAGKTVVQHQIAKWS---DVDLVVYVGCGERGNEMTDVV  277 (600)
T ss_dssp             S-CCCCSEEECCCSBCCCCCHHHHHHSCCBTTCEEEEECCTTSCHHHHHHHHHHHS---SCSEEEEEEEEECHHHHHHHH
T ss_pred             C-CCchhhccCCCceecccchhhhccCCccCCCEEeeecCCCccHHHHHHHHHhcc---CCCEEEEEEecccHHHHHHHH
Confidence            3 455678999999999999999999999999999999999999999999999873   468999999999999999999


Q ss_pred             HHhhh-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCC
Q psy210          731 HEMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPS  803 (915)
Q Consensus       731 ~~~~~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~  803 (915)
                      ++|++       +++|+||++|++|||+||.+|++++|+|+|+||||||+|+|||+++||+||||+|+||||+++||+|+
T Consensus       278 ~~~~el~d~~~G~~~m~rtvvV~~tsd~p~~~R~~~~~~altiAEyfrd~G~dVLl~~Ds~tR~A~A~rEiS~~lge~P~  357 (600)
T 3vr4_A          278 NEFPELIDPNTGESLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVAIMADSTSRWAEALREMSGRLEEMPG  357 (600)
T ss_dssp             HHTTTCBCTTTCSBGGGGEEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHHHHHTTCCBC
T ss_pred             HHHHhhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhccCCCCc
Confidence            99876       67899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcchhhHHHHHHHHHhcC-------CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccC
Q psy210          804 AVGYQPTLAEEMGKLQERISS-------TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDP  876 (915)
Q Consensus       804 ~~gyp~~l~~~l~~l~ERag~-------~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv  876 (915)
                      ++|||||+|++|++||||||+       .++||||++++|++|+||++|||++++++|+||||+|||+||++||||||||
T Consensus       358 ~~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~tdPi~~~t~~i~dg~ivLsr~La~~giyPAId~  437 (600)
T 3vr4_A          358 DEGYPAYLGSRLAEYYERSGRVIALGSDQREGSITAISAVSPSGGDISEPVTQNTLRVVKVFWGLDSSLAQKRHFPSINW  437 (600)
T ss_dssp             GGGCBTTHHHHHHHHHTTSEEEECSSTTCCEEEEEEEEEECCSSSCTTSHHHHHHHTTCCEECCBCHHHHTTTCSSCBCT
T ss_pred             cccCCchhhhHHHHHHHhhccccccCCCCCCcceEEEEEEECCCCCCCCcchhhhhhhccEEEEEhhhHHhCCCCCccCc
Confidence            999999999999999999985       3689999999999999999999999999999999999999999999999999


Q ss_pred             CCCcccccCC------CCCCHHHHHHHHHHHHHHHccHhhhhcc
Q psy210          877 LESYSKQLDP------YIVGEEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       877 ~~S~SR~~~~------~~~~~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      +.|+||+|+.      .+++++|++++++++++|++|+|+++|+
T Consensus       438 l~S~SR~~~~l~~~~~~~~~~~h~~~a~~~~~~la~~~el~~ii  481 (600)
T 3vr4_A          438 IQSYSLYSTEVGRYMDQILQQDWSDMVTEGMRILQEEEQLNEIV  481 (600)
T ss_dssp             TTCEETTHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhhcccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999962      3468999999999999999999999986

>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=1.2e-85  Score=754.50  Aligned_cols=330  Identities=27%  Similarity=0.397  Sum_probs=269.4

Q ss_pred             hhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCC--------------CC---
Q psy210          581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEI--------------NS---  643 (915)
Q Consensus       581 ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~--------------~~---  643 (915)
                      ..+..|+++.+.+++|+++.||++|++|++||++++|++|++|||||+|++|+|||+.++.              ..   
T Consensus        38 geVi~l~~d~~~i~v~e~t~Gi~~G~~V~~tg~~lsV~vG~gLLGrV~DglgrPLd~~~~~~g~~~~~g~~~~~l~~~~~  117 (588)
T 3mfy_A           38 GEIIRLEGDKAVIQVYEETAGVRPGEPVVGTGASLSVELGPRLLTSIYDGIQRPLEVIREKTGDFIARGVTAPALPRDKK  117 (588)
T ss_dssp             -----------------------CCCCCSSSSSCCEEEESTTCTTCEEETTCCSSSSCCCCCSSSCCCCCCCCSSCSSCC
T ss_pred             EEEEEecCCeEEEEEccCCCCCCCCCEEEEcCCCCEEEeCHHHHhhccCCCCCcccCcccccccccccccccCccccccc
Confidence            3446999999999999999999999999999999999999999999999999999987431              10   


Q ss_pred             ------------------------------------------------------------------------CCCCccCC
Q psy210          644 ------------------------------------------------------------------------KKKSPIHT  651 (915)
Q Consensus       644 ------------------------------------------------------------------------~~~~pi~~  651 (915)
                                                                                              .++||++.
T Consensus       118 w~f~p~~~~gd~v~~G~i~g~v~e~~~~~~~imvpp~~~g~v~~i~~~g~~~v~~~i~~i~~~~g~~~~i~~~~~wpv~~  197 (588)
T 3mfy_A          118 WHFIPKAKVGDKVVGGDIIGEVPETSIIVHKIMVPPGIEGEIVEIAEEGDYTIEEVIAKVKTPSGEIKELKMYQRWPVRV  197 (588)
T ss_dssp             EEEEECCCTTCEECTTCEEEEEECSSSCEEEEECCTTCCEEEEEECCSEEECTTSEEEEEECTTCCEEEEESCEEEETTS
T ss_pred             cccccccccCcccccCceEEEEecccceeeeeecCCCCCceEEEeccCCcccccceEEEEecCCCccccccccccccccC
Confidence                                                                                    12345543


Q ss_pred             CCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHH
Q psy210          652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYH  731 (915)
Q Consensus       652 ~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~  731 (915)
                       |+++++|.++++|++||||+||+|+|||||||++|||++|+|||+|+++|+++.   +.+++||++||||++|++||++
T Consensus       198 -~~p~~~R~~~~epl~TGirvID~l~PigkGqr~~I~g~~g~GKT~L~~~ia~~~---~~~~~V~~~iGER~~Ev~e~~~  273 (588)
T 3mfy_A          198 -KRPYKEKLPPEVPLITGQRVIDTFFPQAKGGTAAIPGPAGSGKTVTQHQLAKWS---DAQVVIYIGCGERGNEMTDVLE  273 (588)
T ss_dssp             -CCCCSEEECSCSEECCSCHHHHHHSCEETTCEEEECSCCSHHHHHHHHHHHHHS---SCSEEEEEECCSSSSHHHHHHH
T ss_pred             -CCchhhhccCCcccccCcchhhccCCcccCCeEEeecCCCCCHHHHHHHHHhcc---CCCEEEEEEecccHHHHHHHHH
Confidence             345678999999999999999999999999999999999999999999998763   4689999999999999999999


Q ss_pred             Hhhh-------cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCC
Q psy210          732 EMKE-------SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSA  804 (915)
Q Consensus       732 ~~~~-------~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~  804 (915)
                      +|++       +++|+||++|++|||+||.+|++++|+|+|+||||||+|+|||+++||+||||+|+||||+++||+|++
T Consensus       274 ~~~el~d~~~g~~~m~rtvvV~~tsd~p~~~r~~~~~~a~tiAEyfrd~G~dVLl~~DsltR~A~A~rEis~~lge~P~~  353 (588)
T 3mfy_A          274 EFPKLKDPKTGKPLMERTVLIANTSNMPVAAREASIYTGITIAEYFRDMGYDVALMADSTSRWAEALREISGRLEEMPGE  353 (588)
T ss_dssp             HTTTCEETTTTEEGGGGEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECTTTCCCCC-------------
T ss_pred             HHHHhcccccccccccceEEEEECCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEeecchHHHHHHHHHHHHhccCCCcc
Confidence            9876       678999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCcchhhHHHHHHHHHhcC-------CCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCC
Q psy210          805 VGYQPTLAEEMGKLQERISS-------TKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPL  877 (915)
Q Consensus       805 ~gyp~~l~~~l~~l~ERag~-------~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~  877 (915)
                      +|||||++++|++||||||+       .++||||++++|++|+||++|||++++++|+||||+|||+||++||||||||+
T Consensus       354 ~GYp~~l~s~L~~l~ERAg~~~~~~~~~~~GSIT~i~~v~~~gdD~sdpi~~~~~~i~dg~i~Lsr~La~~g~yPAId~l  433 (588)
T 3mfy_A          354 EGYPAYLASKLAEFYERAGRVVTLGSDYRVGSVSVIGAVSPPGGDFSEPVVQNTLRVVKVFWALDADLARRRHFPAINWL  433 (588)
T ss_dssp             ---CCHHHHHHHHHHTTCEEEECSSSSCCEEEEEEEEECCCTTSCSSCSHHHHHHHHCSEECCBCHHHHHTTCSSCBCTT
T ss_pred             ccCCchhhhhhhHHHhccccccccCCCCCCcceEEEEEEECCCCCCCCcchHHHHHhccCeeecCHHHHhCCCCCCcCcc
Confidence            99999999999999999985       35899999999999999999999999999999999999999999999999999


Q ss_pred             CCcccccCC------CCCCHHHHHHHHHHHHHHHccHhhhhcc
Q psy210          878 ESYSKQLDP------YIVGEEHYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       878 ~S~SR~~~~------~~~~~~~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      .|+||+|++      .+++++|++++++++++|++|+|+++|+
T Consensus       434 ~S~SR~~~~i~~~~~~~~~~~h~~~a~~~~~~La~~~el~~ii  476 (588)
T 3mfy_A          434 TSYSLYVDAVKDWWHKNIDPEWKAMRDKAMALLQKESELQEIV  476 (588)
T ss_dssp             TCEETTHHHHHHHHHHHTCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhhhcccccchhhccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999964      2478999999999999999999999986

>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=2.4e-75  Score=645.58  Aligned_cols=361  Identities=18%  Similarity=0.218  Sum_probs=314.3

Q ss_pred             HHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhhhhhhccccceeee
Q psy210          514 LYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISINKVQQQIGENIVRT  593 (915)
Q Consensus       514 L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~ev~~~l~~~~v~l  593 (915)
                      +++.+.|.++|+......-.         ....|+|+.++.         =.+|||..+.+++....+++  ++.++++.
T Consensus        36 ~~k~~l~~~~~~~~~~~~~~---------~~~~g~le~~~~---------g~gflr~~~~~y~~~~~d~y--vs~~~ir~   95 (427)
T 3l0o_A           36 MRKRDLIFAILKAQTESTGY---------FFGEGVLEIHPE---------GFGFLRRIEDNLLPSNDDIY--ISPSQIRK   95 (427)
T ss_dssp             SCHHHHHHHHHHGGGSSSSE---------EEEEEEEEECTT---------SCEEEECGGGTTCCCSSCEE--ECHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhhcCc---------eeEEEEEEEcCC---------CceEeeCCccCCCCCCCCee--eCHHHHHh
Confidence            33556666666654322211         113477766542         23577777778888888888  88888886


Q ss_pred             ccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCC-Ccccccccc-ccccccce
Q psy210          594 IAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPP-KFSNQIFNN-NILETGIK  671 (915)
Q Consensus       594 ~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p-~~~~r~~~~-e~l~TGir  671 (915)
                      +      +|+.||.|....++.+-.-...-|+||.+++|++.+.     ...+.+++..+| +|.+|..+. ++++||+|
T Consensus        96 ~------~lr~gd~v~g~~r~~~~~e~~~~l~~v~~vng~~p~~-----~~~r~~fe~l~Pi~P~~R~~le~e~~~tGir  164 (427)
T 3l0o_A           96 F------NLNTGDIISGVIRKPKEGEKYFAMIKIEAINYRPVEA-----VNDRVNFDNLTPDYPRERFILETDPKIYSTR  164 (427)
T ss_dssp             T------TCCTTCEEEEEEECCCSSSCSEEEEEEEEETTEEC---------CCCCGGGSCEECCCSBCCCCCSTTCHHHH
T ss_pred             c------CCCCCCEEEEEEeCCCCCcccccceEEEecCCCChHH-----hccccccccCCCCCchhhccccccchhccch
Confidence            5      7999999999888877665566789999999988764     235566766655 788899998 99999999


Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCC
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMN  750 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d  750 (915)
                      +||+|+|||||||++||||+|+|||+|+++|++++.++|+++ |||++||||++||++|+++++       .+||++|+|
T Consensus       165 aID~l~PigrGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~V~~lIGER~~EV~d~~~~~~-------G~VV~atad  237 (427)
T 3l0o_A          165 LIDLFAPIGKGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIRIILLIDERPEEVTDIRESTN-------AIVIAAPFD  237 (427)
T ss_dssp             HHHHHSCCBTTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEEEEEECSCCHHHHSSSSSSCC-------SEEEECCTT
T ss_pred             hhhhcccccCCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEEEEEEeccCcchHHHHHHHhC-------CeEEEECCC
Confidence            999999999999999999999999999999999988878884 689999999999999999885       289999999


Q ss_pred             CChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcC-CCCCc
Q psy210          751 EPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISS-TKNGT  829 (915)
Q Consensus       751 ~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~-~~~GS  829 (915)
                      +||.+|+++|++|+++||||||+|+|||+++||+||||+|+||||+++||+|+ +||||++++.+++|+|||++ +++||
T Consensus       238 ep~~~r~~~a~~altiAEyfrd~G~dVLil~DslTR~A~A~rEvs~~~Ge~~s-~Gypp~~~~~~~~~~erA~~ie~~GS  316 (427)
T 3l0o_A          238 MPPDKQVKVAELTLEMAKRLVEFNYDVVILLDSLTRLARVYNIVVPPSGKLLT-GGVDPAALYKPKRFFGAARNTREGGS  316 (427)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHHSCCCSCCCS-SSCCSSCSHHHHHHHHTCEEESSSCE
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHHHhcCCCCC-CCcCchhhcchHHHHHhhcccCCCcc
Confidence            99999999999999999999999999999999999999999999999999999 59999999999999999997 47999


Q ss_pred             eeEEEEEEec-CCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccH
Q psy210          830 ITSVQAIYVP-ADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYK  908 (915)
Q Consensus       830 iT~i~~v~~~-~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~  908 (915)
                      ||+|+||+++ +||++|||+|++++++||||+|||+||++||||||||+.|+||+| +.+++++|+++++++|++|++|+
T Consensus       317 IT~i~tvlvetgdd~~dpI~d~~~~i~dg~IvLsR~La~~giyPAIDvl~S~SR~~-~~l~~~~h~~~a~~lr~~la~y~  395 (427)
T 3l0o_A          317 LTIIATALVETGSKMDEVIFEEFKGTGNMELVLSRQLANKRIFPAINLLLSGTRRE-ELLLDEETLKKVWLLRRMLSAMT  395 (427)
T ss_dssp             EEEEEEEECSSSCSHHHHHHHHTTTCCSEEEEBCHHHHTTTCSSCBCSTTCEETTG-GGTSCHHHHHHHHHHHHHHTTSC
T ss_pred             eeEEEEEEecCCCCcCCcchHHhcccCCceEEEeHHHHhCCCCCccCccccccccc-cccCCHHHHHHHHHHHHHHHhcc
Confidence            9999999999 899999999999999999999999999999999999999999998 58899999999999999999999


Q ss_pred             hhhhcc
Q psy210          909 ELKDTS  914 (915)
Q Consensus       909 e~~~~~  914 (915)
                      +++++.
T Consensus       396 e~e~l~  401 (427)
T 3l0o_A          396 EEEGLT  401 (427)
T ss_dssp             HHHHHH
T ss_pred             hHHHHH
Confidence            999875

>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=4e-73  Score=629.36  Aligned_cols=374  Identities=16%  Similarity=0.235  Sum_probs=301.9

Q ss_pred             hccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhhHHHHHHHHHHHHhhhcccccchhh
Q psy210          501 KFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQIELFEINIIKYFRIINLKNNISIN  580 (915)
Q Consensus       501 ~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~ev~~f~~~Li~~Lr~~~~~lv~~i~  580 (915)
                      .++.++.-+.-..+++.+.|.++|+......-.         ....|+|+.++.         =.+|||....+++....
T Consensus        19 ~~a~~~~~~~~~~~~k~~l~~~~~~~~~~~~~~---------~~~~g~le~~~~---------g~gflr~~~~~~~~~~~   80 (422)
T 3ice_A           19 TLGENMGLENLARMRKQDIIFAILKQHAKSGED---------IFGDGVLEILQD---------GFGFLRSADSSYLAGPD   80 (422)
T ss_dssp             --------------CHHHHHHHHHHHHHHTTCC---------CEEEEEEEECTT---------SCEEEECGGGTTCCCTT
T ss_pred             HHHHHcCCCCccccCHHHHHHHHHHHHHhcCCc---------eEEEEEEEEcCC---------CceEeeCCCcCCCCCCC
Confidence            333344444444456666666666542111100         123477766542         13577877778888888


Q ss_pred             hhhhccccceeeeccccCccCcccCCeEEeCCCcccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCcc-cc
Q psy210          581 KVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKPILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFS-NQ  659 (915)
Q Consensus       581 ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~-~r  659 (915)
                      +++  ++.++++.+      +|+.||.|...-++.+-.-...-|-+|-..+|.+++     ....+..++...|.++ +|
T Consensus        81 d~y--vs~~~ir~~------~lr~gd~v~g~~r~~~~~ER~faLl~v~~vn~~~pe-----~~~~ri~Fe~ltp~yP~er  147 (422)
T 3ice_A           81 DIY--VSPSQIRRF------NLRTGDTISGKIRPPKEGERYFALLKVNEVNFDKPE-----NARNKILFENLTPLHANSR  147 (422)
T ss_dssp             CEE--BCHHHHHHH------TCCTTCEEEEEEECCCSSCCSEEEEEEEEESSSCHH-----HHTTSCCTTTSCEESCCSB
T ss_pred             Cee--eCHHHHHhc------CCCCCCEEEEEEeCCCccchHHHHhccCcccCCChh-----hhcCCceeccccccCCCCc
Confidence            888  888888866      799999999877665533332233355555554432     1223445555544333 45


Q ss_pred             cccc----ccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEEEecCCCchHHHHHHHhh
Q psy210          660 IFNN----NILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFIGVGERSREGNDFYHEMK  734 (915)
Q Consensus       660 ~~~~----e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~~iGer~~ev~e~~~~~~  734 (915)
                      ..+.    ++++||||+||+++|++||||++|||++|+|||+|+++|++++.++|+++ |||++||||++||++|++++ 
T Consensus       148 ~~Le~~~~~~~~tGiraID~~~pi~rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIGER~~Ev~~~~~~~-  226 (422)
T 3ice_A          148 LRMERGNGSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLV-  226 (422)
T ss_dssp             CCCCCTTCCTTHHHHHHHHHHSCCBTTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEESSCHHHHHHHHTTC-
T ss_pred             cccccCCCCcccccceeeeeeeeecCCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEecCChHHHHHHHHHh-
Confidence            5555    69999999999999999999999999999999999999999998888885 88999999999999999887 


Q ss_pred             hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHH
Q psy210          735 ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEE  814 (915)
Q Consensus       735 ~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~  814 (915)
                            +++||++|+|+||.+|++++++|+++||||||+|+|||+++||+||||+||||+|+++||+|+ +||||++|++
T Consensus       227 ------~~~vV~atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A~A~revs~~~Ge~ps-~Gyp~~~~~~  299 (422)
T 3ice_A          227 ------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLT-GGVDANALHR  299 (422)
T ss_dssp             ------SSEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHHHHHHHHSCCSSCBCS-SSCBHHHHHH
T ss_pred             ------CeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHHHHHHHHHHhcCCCCC-CCcCHHHHhh
Confidence                  579999999999999999999999999999999999999999999999999999999999998 8999999999


Q ss_pred             HHHHHHHhcC-CCCCceeEEEEEEec-CCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHH
Q psy210          815 MGKLQERISS-TKNGTITSVQAIYVP-ADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEE  892 (915)
Q Consensus       815 l~~l~ERag~-~~~GSiT~i~~v~~~-~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~  892 (915)
                      +++|+|||++ .++||||+|+||++| +||++|||++++++|+||||+|||+||++||||||||+.|+||+| +.+++++
T Consensus       300 ~~rl~erA~~~~~~GSIT~i~tvlv~tgdd~~dpI~d~~~~i~dg~ivLsR~La~~giyPAIDvl~S~SR~~-~~~~~~~  378 (422)
T 3ice_A          300 PKRFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKE-ELLTTQE  378 (422)
T ss_dssp             HHHHHTTCEEESSSCEEEEEEEECCSSSCHHHHHHHHHHHHHCSEEEEBCHHHHHTTCSSCBCTTTCEESSG-GGSSCHH
T ss_pred             hHHHHHhccccCCCcceeEEEEEEecCCCcccchHHHHhcccCCceEEEcHHHHhcCCCCccCccccccccc-hhhCCHH
Confidence            9999999998 479999999999999 899999999999999999999999999999999999999999999 5889999


Q ss_pred             HHHHHHHHHHHHHccHhhhhcc
Q psy210          893 HYKVANEVKFYLQKYKELKDTS  914 (915)
Q Consensus       893 ~~~~~~~~r~~l~~~~e~~~~~  914 (915)
                      |+++++++|++|++|+|++++.
T Consensus       379 ~~~~a~~lr~~la~~~e~~~~~  400 (422)
T 3ice_A          379 ELQKMWILRKIIHPMGEIDAME  400 (422)
T ss_dssp             HHHHHHHHHHHHTTSCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCchHHHHH
Confidence            9999999999999999999874

>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=4.1e-70  Score=603.77  Aligned_cols=305  Identities=20%  Similarity=0.215  Sum_probs=276.9

Q ss_pred             ccccccCCCcccccCccceeccccccceeEeCCCceeecCCCcccccccccccc-cCCCCCcccccC-ccccccceeeec
Q psy210          173 DLKNLTQGQKCFCTEKIFEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEK-IAPGIMDRESVN-EPLLTGIKSIDS  250 (915)
Q Consensus       173 ~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~-~~~~~~~R~~~~-~~l~TGi~aiD~  250 (915)
                      -.-+++.||.|.+..++++-......|++|.+..|.+.+.     ...+...+. .|++|.+|..++ +|++||+|+||+
T Consensus        94 r~~~lr~gd~v~g~~r~~~~~e~~~~l~~v~~vng~~p~~-----~~~r~~fe~l~Pi~P~~R~~le~e~~~tGiraID~  168 (427)
T 3l0o_A           94 RKFNLNTGDIISGVIRKPKEGEKYFAMIKIEAINYRPVEA-----VNDRVNFDNLTPDYPRERFILETDPKIYSTRLIDL  168 (427)
T ss_dssp             HHTTCCTTCEEEEEEECCCSSSCSEEEEEEEEETTEEC---------CCCCGGGSCEECCCSBCCCCCSTTCHHHHHHHH
T ss_pred             HhcCCCCCCEEEEEEeCCCCCcccccceEEEecCCCChHH-----hccccccccCCCCCchhhccccccchhccchhhhh
Confidence            3457889999998777766655566888998888876654     222333444 456899999999 999999999999


Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCH
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSA  327 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~  327 (915)
                      |+|||||||++|||++|+|||+| +++|+++   ++.++.|||++||||++||++|+++++  |     ++|++++|+||
T Consensus       169 l~PigrGQR~lIfg~~g~GKT~L-l~~Ia~~i~~~~~dv~~V~~lIGER~~EV~d~~~~~~--G-----~VV~atadep~  240 (427)
T 3l0o_A          169 FAPIGKGQRGMIVAPPKAGKTTI-LKEIANGIAENHPDTIRIILLIDERPEEVTDIRESTN--A-----IVIAAPFDMPP  240 (427)
T ss_dssp             HSCCBTTCEEEEEECTTCCHHHH-HHHHHHHHHHHCTTSEEEEEECSCCHHHHSSSSSSCC--S-----EEEECCTTSCH
T ss_pred             cccccCCceEEEecCCCCChhHH-HHHHHHHHhhcCCCeEEEEEEeccCcchHHHHHHHhC--C-----eEEEECCCCCH
Confidence            99999999999999999999999 5888876   468999999999999999999999986  2     89999999999


Q ss_pred             HHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchh
Q psy210          328 AEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKK  407 (915)
Q Consensus       328 ~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~  407 (915)
                      .+|+++|++|+|+||||||+|+|||+++|||||||+|+||||+++||+|+ +||||++|+.+++++|||++++.      
T Consensus       241 ~~r~~~a~~altiAEyfrd~G~dVLil~DslTR~A~A~rEvs~~~Ge~~s-~Gypp~~~~~~~~~~erA~~ie~------  313 (427)
T 3l0o_A          241 DKQVKVAELTLEMAKRLVEFNYDVVILLDSLTRLARVYNIVVPPSGKLLT-GGVDPAALYKPKRFFGAARNTRE------  313 (427)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEEEEECHHHHHHHHHHHSCCCSCCCS-SSCCSSCSHHHHHHHHTCEEESS------
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCEEEecccchHHHHHHHHHHHhcCCCCC-CCcCchhhcchHHHHHhhcccCC------
Confidence            99999999999999999999999999999999999999999999999999 59999999999999999999853      


Q ss_pred             hhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHH
Q psy210          408 KIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDI  486 (915)
Q Consensus       408 ~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~l  486 (915)
                            +||||+++||+++ +||++|||||++++|+||||+|||+||++||||||||+.|+||+++.++.++|.++++++
T Consensus       314 ------~GSIT~i~tvlvetgdd~~dpI~d~~~~i~dg~IvLsR~La~~giyPAIDvl~S~SR~~~~l~~~~h~~~a~~l  387 (427)
T 3l0o_A          314 ------GGSLTIIATALVETGSKMDEVIFEEFKGTGNMELVLSRQLANKRIFPAINLLLSGTRREELLLDEETLKKVWLL  387 (427)
T ss_dssp             ------SCEEEEEEEEECSSSCSHHHHHHHHTTTCCSEEEEBCHHHHTTTCSSCBCSTTCEETTGGGTSCHHHHHHHHHH
T ss_pred             ------CcceeEEEEEEecCCCCcCCcchHHhcccCCceEEEeHHHHhCCCCCccCccccccccccccCCHHHHHHHHHH
Confidence                  7999999999999 899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhHHHHhhhhcc
Q psy210          487 RIMLAQYRELESFSKFS  503 (915)
Q Consensus       487 r~~la~~~e~e~l~~lG  503 (915)
                      |+.|++|++++++..+.
T Consensus       388 r~~la~y~e~e~l~~ll  404 (427)
T 3l0o_A          388 RRMLSAMTEEEGLTLIL  404 (427)
T ss_dssp             HHHHTTSCHHHHHHHHH
T ss_pred             HHHHHhcchHHHHHHHH
Confidence            99999999999998764

>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=3.3e-66  Score=574.13  Aligned_cols=256  Identities=16%  Similarity=0.191  Sum_probs=241.6

Q ss_pred             CCCCCcccccC----ccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh---hcCCCeEEEEEeeccchhhH
Q psy210          228 APGIMDRESVN----EPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN---QKNKNVICIYVCIGQKISSL  300 (915)
Q Consensus       228 ~~~~~~R~~~~----~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~---~~~~~~~~V~~~iGer~~ev  300 (915)
                      +..|.+|..++    +|++||||+||.++|+++|||++|||++|+|||+| +.+|++   +++.++.|||++||||++||
T Consensus       141 p~yP~er~~Le~~~~~~~~tGiraID~~~pi~rGQr~~IvG~sG~GKTtL-l~~Iar~i~~~~~~v~~I~~lIGER~~Ev  219 (422)
T 3ice_A          141 PLHANSRLRMERGNGSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTML-LQNIAQSIAYNHPDCVLMVLLIDERPEEV  219 (422)
T ss_dssp             EESCCSBCCCCCTTCCTTHHHHHHHHHHSCCBTTCEEEEECCSSSSHHHH-HHHHHHHHHHHCTTSEEEEEEESSCHHHH
T ss_pred             ccCCCCccccccCCCCcccccceeeeeeeeecCCcEEEEecCCCCChhHH-HHHHHHHHhhcCCCeeEEEEEecCChHHH
Confidence            34566777777    89999999999999999999999999999999999 455554   56789999999999999999


Q ss_pred             HHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCc
Q psy210          301 INVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREA  380 (915)
Q Consensus       301 ~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~g  380 (915)
                      ++|++.+       ++++|++++|+||.+|++++++|+++|||||++|+||||++|||||||+||||+|+++||||+ +|
T Consensus       220 ~~~~~~~-------~~~vV~atadep~~~r~~~a~~alt~AEyfrd~G~dVLil~DslTR~A~A~revs~~~Ge~ps-~G  291 (422)
T 3ice_A          220 TEMQRLV-------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLT-GG  291 (422)
T ss_dssp             HHHHTTC-------SSEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTSCEEEEEEECHHHHHHHHHHHSCCSSCBCS-SS
T ss_pred             HHHHHHh-------CeEEEEeCCCCCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEeCchHHHHHHHHHHHhcCCCCC-CC
Confidence            9999888       379999999999999999999999999999999999999999999999999999999999998 99


Q ss_pred             CCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEec-CCCCCCccccccccccCcEEEeehhhhhcCCCC
Q psy210          381 FPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETL-EGDVTSFIPTNVISITDGQIFLDTNLFNSNYRP  459 (915)
Q Consensus       381 yp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~-~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~P  459 (915)
                      ||+++|+.+++|+||||+++.            +||||++++|++| +||++|||||++++|+||||+|||+||++||||
T Consensus       292 yp~~~~~~~~rl~erA~~~~~------------~GSIT~i~tvlv~tgdd~~dpI~d~~~~i~dg~ivLsR~La~~giyP  359 (422)
T 3ice_A          292 VDANALHRPKRFFGAARNVEE------------GGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFP  359 (422)
T ss_dssp             CBHHHHHHHHHHHTTCEEESS------------SCEEEEEEEECCSSSCHHHHHHHHHHHHHCSEEEEBCHHHHHTTCSS
T ss_pred             cCHHHHhhhHHHHHhccccCC------------CcceeEEEEEEecCCCcccchHHHHhcccCCceEEEcHHHHhcCCCC
Confidence            999999999999999999753            7999999999999 999999999999999999999999999999999


Q ss_pred             eeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC
Q psy210          460 AINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS  504 (915)
Q Consensus       460 aId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~  504 (915)
                      ||||+.|+||++..++.++|.++++++|+.|++|++++++..+..
T Consensus       360 AIDvl~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~~~~~~ll~  404 (422)
T 3ice_A          360 AIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLIN  404 (422)
T ss_dssp             CBCTTTCEESSGGGSSCHHHHHHHHHHHHHHTTSCHHHHHHHHHH
T ss_pred             ccCccccccccchhhCCHHHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence            999999999999999999999999999999999999999987653

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=100.00  E-value=5.9e-61  Score=537.02  Aligned_cols=340  Identities=27%  Similarity=0.401  Sum_probs=323.7

Q ss_pred             cceeccccccceeEeCCCceeecCCC-cccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCC
Q psy210          189 IFEIPVGFELLGRIVNSKGEFIDNKK-KFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQ  267 (915)
Q Consensus       189 ~~~vpvg~~lLGrviD~lG~PiD~~~-~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g  267 (915)
                      ++.+|+|+++||||+|++|+|||+++ ++....++|++.++|++++|..+++++.||+++||.++|+++||+++|+|++|
T Consensus         2 ~~~~~vg~~~lGrv~~~~g~p~d~~~~~~~~~~~~~i~~~~~~~i~~~~l~~~~~tg~~ald~ll~i~~Gq~~gIiG~nG   81 (347)
T 2obl_A            2 SHKIRVGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVIDQPFILGVRAIDGLLTCGIGQRIGIFAGSG   81 (347)
T ss_dssp             CCEEEECGGGTTCEECTTSCBCSCCSSCCCCCEEEESCCCCSCSTTCCCCCSEECCSCHHHHHHSCEETTCEEEEEECTT
T ss_pred             CceeecCccccCCEECCCCCcCCCCCCCCCCCCcccccCCCCCCeeecccceecCCCCEEEEeeeeecCCCEEEEECCCC
Confidence            67899999999999999999999998 88877889999999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhc
Q psy210          268 TGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL  347 (915)
Q Consensus       268 ~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~  347 (915)
                      +||||| +.+|+++...+. .++.++|++.+|+.+++..+ +.+.+++++++++++++|+..|+.+++.++++||||+++
T Consensus        82 aGKTTL-l~~I~g~~~~~~-g~i~~~G~~~~ev~~~i~~~-~~~~~~~~v~~~~~~~~~~~~r~~~~~~~~~~ae~~~~~  158 (347)
T 2obl_A           82 VGKSTL-LGMICNGASADI-IVLALIGERGREVNEFLALL-PQSTLSKCVLVVTTSDRPALERMKAAFTATTIAEYFRDQ  158 (347)
T ss_dssp             SSHHHH-HHHHHHHSCCSE-EEEEEESCCHHHHHHHHTTS-CHHHHTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             CCHHHH-HHHHhcCCCCCE-EEEEEecccHHHHHHHHHhh-hhhhhhceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhc
Confidence            999999 899999988886 67889999999999988773 334678999999999999999999999999999999999


Q ss_pred             CCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecC
Q psy210          348 GQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLE  427 (915)
Q Consensus       348 g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~  427 (915)
                      |+||++++|++++|+.++|++++++++||.+.|||+++|+.+.+|+||+++.+             +||||++++|++++
T Consensus       159 ~~~vl~~ld~~~~lS~g~r~v~lal~~p~~t~Gldp~~~~~l~~ller~~~~~-------------~GsiT~~~tVl~~t  225 (347)
T 2obl_A          159 GKNVLLMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAGPAP-------------KGSITAIYTVLLES  225 (347)
T ss_dssp             TCEEEEEEETHHHHHHHHHHHHHHTTCCCCBTTBCHHHHHHHHHHHTTCEECS-------------SSEEEEEEEEECCS
T ss_pred             cccHHHHHhhHHHHHHHHHHHHHHcCCCCcccCCCHHHHHHHHHHHHHHhCCC-------------CCCeeeEEEEEEeC
Confidence            99999999999999999999999999999999999999999999999988621             69999999999999


Q ss_pred             CCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---
Q psy210          428 GDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---  504 (915)
Q Consensus       428 ~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---  504 (915)
                      +|+++|++|++..++||||+||+++++.++|||||++.|+||++..++.++|++++.++|+.|++|+|+++++++|.   
T Consensus       226 hdl~~~i~d~v~~i~dG~Ivl~~~l~~~~~~Paid~~~S~sr~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  305 (347)
T 2obl_A          226 DNVNDPIGDEVRSILDGHIVLTRELAEENHFPAIDIGLSASRVMHNVVTSEHLRAAAECKKLIATYKNPELLIRIGEYTM  305 (347)
T ss_dssp             SCCCCHHHHHHHHHCSEEEEBCHHHHTTTCSSCBCGGGCEETTHHHHSCHHHHHHHHHHHHHHHHCCCTHHHHTTTCCCC
T ss_pred             CCCCChhhhheEEeeCcEEEEeCCHHHcCCCCCcCccccccccccccCCHHHHHHHHHHHHHHHccHHHHHHHHhcCCcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999974   


Q ss_pred             CCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          505 DLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       505 ~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      ++|++++.+++++++|++||+|+.++++++++++..+|.+
T Consensus       306 ~~~~~~~~~~~~~~~~~~fl~Q~~~~~~~~~~~~~~~~~~  345 (347)
T 2obl_A          306 GQDPEADKAIKNRKLIQNFIQQSTKDISSYEKTIESLFKV  345 (347)
T ss_dssp             CSCHHHHHHHHTHHHHHHHHCCCTTCCCCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999965

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=100.00  E-value=1.7e-58  Score=531.83  Aligned_cols=403  Identities=22%  Similarity=0.300  Sum_probs=369.6

Q ss_pred             eEEEEeecChhhcccccccccCCCc---eEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCc-------cce
Q psy210          122 YNIEYDYFDPRCLNQTLNIKFANNT---VLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEK-------IFE  191 (915)
Q Consensus       122 ~~~~~~~~~p~~L~~~le~~~~~g~---~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~-------~~~  191 (915)
                      -.++-.+. ...+++.+++...+|.   .+.|+|.++++  +    .+.+++|+++.+++.|+.|.+||+       ++.
T Consensus        19 ~~~~~~~~-~~~~~e~~~~~~~~~~~~~~~~~ev~~~~~--~----~~~~~~~~~~~gl~~g~~v~~~~~~~~~~~~~~~   91 (438)
T 2dpy_A           19 LVLEATGL-QLPLGATCIIERQDGPETKEVESEVVGFNG--Q----RLFLMPLEEVEGILPGARVYARNGHGDGLQSGKQ   91 (438)
T ss_dssp             SSEEEESC-CCCSSCEEEEEECSTTSCEEEEEEEEECCT--T----CEEEEESSCCTTCCTTEEEEEC----------CE
T ss_pred             cEEEEEeC-CCCCCCEEEEecCCCCccccEEEEEEEEcC--C----EEEEEEccCCCCCCCCCEEEECCCccccccccEE
Confidence            34445555 4578999999764554   57899999987  3    348889999999999999999999       999


Q ss_pred             eccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChh
Q psy210          192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKT  271 (915)
Q Consensus       192 vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt  271 (915)
                      ++++++++||++|.+|+|+|+.+++.+..+++++.++|++++|..++.++.||++++|.++|+++||+++|+|++|+|||
T Consensus        92 v~~g~~~lgrv~~~lg~p~d~~~~~~~~~~~~i~~~~~~~l~~~~v~~~~~tg~~vld~vl~i~~Gq~~~IvG~sGsGKS  171 (438)
T 2dpy_A           92 LPLGPALLGRVLDGGGKPLDGLPAPDTLETGALITPPFNPLQRTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGVGKS  171 (438)
T ss_dssp             EECSGGGTTEEECTTCCBSSSSCCCCCSCEEESCCCCCCTTTSCCCCSBCCCSCHHHHHHSCCBTTCEEEEEECTTSSHH
T ss_pred             EEcchhhhhhhhhccCCccCCCCCccccccccccCCCCCceEEeccceecCCCceEEeeeEEecCCCEEEEECCCCCCHH
Confidence            99999999999999999999998887777789998888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcE
Q psy210          272 TIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDC  351 (915)
Q Consensus       272 ~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~V  351 (915)
                      || +.+|+++...+. .++.++|+|++++.++.+++.+.+.+.+++.+++++++++..++.+++.+++.||||++++++|
T Consensus       172 TL-l~~Iag~~~~~~-G~i~~~G~r~~ev~~~~~~~~~~~~l~r~i~~v~q~~~~~~~~~~v~~~~~~~ae~~~~~~~~v  249 (438)
T 2dpy_A          172 VL-LGMMARYTRADV-IVVGLIGERGREVKDFIENILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHV  249 (438)
T ss_dssp             HH-HHHHHHHSCCSE-EEEEEESCCHHHHHHHHHTTTHHHHHHTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEE
T ss_pred             HH-HHHHhcccCCCe-EEEEEeceecHHHHHHHHhhccccccCceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCCCH
Confidence            99 899999988876 5788999999999999877665556788999999999999999999999999999999999999


Q ss_pred             EEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCCC
Q psy210          352 LIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT  431 (915)
Q Consensus       352 lv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~~  431 (915)
                      +.++|++++|+.+++++++++++||...|||+++++.+.+++||+++.+   |        ++||||++++|+++++|++
T Consensus       250 ~~~ld~l~~lS~g~qrvslAl~~p~~t~glD~~~~~~l~~ll~r~~~~~---~--------~~GsiT~~~tVlv~tHdl~  318 (438)
T 2dpy_A          250 LLIMDSLTRYAMAQREIALAIGEPPATKGYPPSVFAKLPALVERAGNGI---H--------GGGSITAFYTVLTEGDDQQ  318 (438)
T ss_dssp             EEEEECHHHHHHHHHHHHHHTTCCCCSSSCCTTHHHHHHHHHTTCSCCS---T--------TSCEEEEEEEEECSSSCSC
T ss_pred             HHHHHhHHHHHHHHHHHHHHhCCCcccccCCHHHHHHHHHHHHHHHhcc---C--------CCCcccceeEEEEeCCCcc
Confidence            9999999999999999999999999999999999999999999988632   1        1599999999999999999


Q ss_pred             CccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccccHHHHHHHHHHHHHHHhhHHHHhhhhccC---CCCH
Q psy210          432 SFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQYKIVKKLSGDIRIMLAQYRELESFSKFSS---DLDI  508 (915)
Q Consensus       432 ~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~~~~~~~~a~~lr~~la~~~e~e~l~~lG~---~ld~  508 (915)
                      +|++|++.++.||||++++++++.++|||||++.|+||++...+.++|.+++.++|+.|++|+++++++++|.   ++|+
T Consensus       319 ~~iad~v~~l~dG~Ivl~~~~~~~~~~Paidv~~s~sR~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~d~  398 (438)
T 2dpy_A          319 DPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMTALITEQHYARVRLFKQLLSSFQRNRDLVSVGAYAKGSDP  398 (438)
T ss_dssp             CHHHHHHHHHSSEEEEECHHHHHTTCSSCEEEEEEEETTHHHHSCHHHHHHHHHHHHHHHHHHHGGGTSSSSCCCTTSCH
T ss_pred             chhhceEEEEeCcEEEEeCCHHHccCCCCcCCcccccccccccCCHHHHHHHHHHHHHHHhhHHHHHHHHhcCCcCCCCH
Confidence            9999999999999999999999999999999999999999889999999999999999999999999999974   8999


Q ss_pred             HHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHH
Q psy210          509 VTKTQLYNGEKISLLMKQKPHENYSIVELIIILLII  544 (915)
Q Consensus       509 ~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai  544 (915)
                      ++|+++.++++|++||+|+.++++++++++..+|.+
T Consensus       399 ~~~~~i~~~~~~~~fl~Q~~~~~~~~~~~~~~~~~~  434 (438)
T 2dpy_A          399 MLDKAITLWPQLEAFLQQGIFERADWEDSLQALDLI  434 (438)
T ss_dssp             HHHHHHTTHHHHHHHHCCCTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999965

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=100.00  E-value=7.3e-57  Score=503.90  Aligned_cols=297  Identities=29%  Similarity=0.445  Sum_probs=281.6

Q ss_pred             cccccCCCcccceEEcccCccCCCCC-CCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCC
Q psy210          614 PILTPVGDCTLGRILNVLGDPIDNKG-EINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAG  692 (915)
Q Consensus       614 ~~~v~vg~~lLGrV~d~~G~pid~~~-~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g  692 (915)
                      ++++|||+++||||+|++|+|+|+++ ++...++||++..+|++.++..+++++.||+++||.++||++||+++|+|++|
T Consensus         2 ~~~~~vg~~~lGrv~~~~g~p~d~~~~~~~~~~~~~i~~~~~~~i~~~~l~~~~~tg~~ald~ll~i~~Gq~~gIiG~nG   81 (347)
T 2obl_A            2 SHKIRVGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVIDQPFILGVRAIDGLLTCGIGQRIGIFAGSG   81 (347)
T ss_dssp             CCEEEECGGGTTCEECTTSCBCSCCSSCCCCCEEEESCCCCSCSTTCCCCCSEECCSCHHHHHHSCEETTCEEEEEECTT
T ss_pred             CceeecCccccCCEECCCCCcCCCCCCCCCCCCcccccCCCCCCeeecccceecCCCCEEEEeeeeecCCCEEEEECCCC
Confidence            67899999999999999999999998 88777889999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHH
Q psy210          693 VGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRN  772 (915)
Q Consensus       693 ~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~  772 (915)
                      +|||||+.+|+...   ++++.++.++|||++|+++++.. .+.+.+++++++++++++|+..|+.+++.++++||||++
T Consensus        82 aGKTTLl~~I~g~~---~~~~g~i~~~G~~~~ev~~~i~~-~~~~~~~~~v~~~~~~~~~~~~r~~~~~~~~~~ae~~~~  157 (347)
T 2obl_A           82 VGKSTLLGMICNGA---SADIIVLALIGERGREVNEFLAL-LPQSTLSKCVLVVTTSDRPALERMKAAFTATTIAEYFRD  157 (347)
T ss_dssp             SSHHHHHHHHHHHS---CCSEEEEEEESCCHHHHHHHHTT-SCHHHHTTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHhcCC---CCCEEEEEEecccHHHHHHHHHh-hhhhhhhceEEEEECCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999875   36888999999999999998876 333468899999999999999999999999999999999


Q ss_pred             CCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCcccccc
Q psy210          773 SGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTF  852 (915)
Q Consensus       773 ~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~  852 (915)
                      +|+||++++|+++||++|+||+++++++||.+.||||++++.+.+|+||+++.++||||+++||+++++|+++|++|.++
T Consensus       158 ~~~~vl~~ld~~~~lS~g~r~v~lal~~p~~t~Gldp~~~~~l~~ller~~~~~~GsiT~~~tVl~~thdl~~~i~d~v~  237 (347)
T 2obl_A          158 QGKNVLLMMDSVTRYARAARDVGLASGEPDVRGGFPPSVFSSLPKLLERAGPAPKGSITAIYTVLLESDNVNDPIGDEVR  237 (347)
T ss_dssp             TTCEEEEEEETHHHHHHHHHHHHHHTTCCCCBTTBCHHHHHHHHHHHTTCEECSSSEEEEEEEEECCSSCCCCHHHHHHH
T ss_pred             ccccHHHHHhhHHHHHHHHHHHHHHcCCCCcccCCCHHHHHHHHHHHHHHhCCCCCCeeeEEEEEEeCCCCCChhhhheE
Confidence            99999999999999999999999999999999999999999999999999875679999999999999999999999999


Q ss_pred             cccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCCCHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          853 THLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       853 ~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      .+.||||+||+++++.++||||||+.|+||+|+ .+++++|+++++++|++|++|+|++++.+
T Consensus       238 ~i~dG~Ivl~~~l~~~~~~Paid~~~S~sr~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  299 (347)
T 2obl_A          238 SILDGHIVLTRELAEENHFPAIDIGLSASRVMH-NVVTSEHLRAAAECKKLIATYKNPELLIR  299 (347)
T ss_dssp             HHCSEEEEBCHHHHTTTCSSCBCGGGCEETTHH-HHSCHHHHHHHHHHHHHHHHCCCTHHHHT
T ss_pred             EeeCcEEEEeCCHHHcCCCCCcCcccccccccc-ccCCHHHHHHHHHHHHHHHccHHHHHHHH
Confidence            999999999999999999999999999999995 58999999999999999999999999864

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=100.00  E-value=2.9e-54  Score=496.68  Aligned_cols=332  Identities=28%  Similarity=0.438  Sum_probs=310.3

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCC-------cccccCCCcccceEEcccCccCCCCCCCCCCCCCccCC
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGK-------PILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHT  651 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~-------~~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~  651 (915)
                      ..+|. +|+++.+++++|+++.||++|+.|..||+       ++++++|+++||||+|++|+|+|+.+++....+||++.
T Consensus        48 ~~ev~-~~~~~~~~~~~~~~~~gl~~g~~v~~~~~~~~~~~~~~~v~~g~~~lgrv~~~lg~p~d~~~~~~~~~~~~i~~  126 (438)
T 2dpy_A           48 ESEVV-GFNGQRLFLMPLEEVEGILPGARVYARNGHGDGLQSGKQLPLGPALLGRVLDGGGKPLDGLPAPDTLETGALIT  126 (438)
T ss_dssp             EEEEE-ECCTTCEEEEESSCCTTCCTTEEEEEC----------CEEECSGGGTTEEECTTCCBSSSSCCCCCSCEEESCC
T ss_pred             EEEEE-EEcCCEEEEEEccCCCCCCCCCEEEECCCccccccccEEEEcchhhhhhhhhccCCccCCCCCccccccccccC
Confidence            45564 79999999999999999999999999999       99999999999999999999999988887777789998


Q ss_pred             CCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHH
Q psy210          652 LPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYH  731 (915)
Q Consensus       652 ~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~  731 (915)
                      .+|++.++..++.++.||+++||.++|+++||+++|+|++|+|||||+.+|++..   +++..++.++|+|++|++++.+
T Consensus       127 ~~~~~l~~~~v~~~~~tg~~vld~vl~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~---~~~~G~i~~~G~r~~ev~~~~~  203 (438)
T 2dpy_A          127 PPFNPLQRTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARYT---RADVIVVGLIGERGREVKDFIE  203 (438)
T ss_dssp             CCCCTTTSCCCCSBCCCSCHHHHHHSCCBTTCEEEEEECTTSSHHHHHHHHHHHS---CCSEEEEEEESCCHHHHHHHHH
T ss_pred             CCCCceEEeccceecCCCceEEeeeEEecCCCEEEEECCCCCCHHHHHHHHhccc---CCCeEEEEEeceecHHHHHHHH
Confidence            8889999999999999999999999999999999999999999999999999875   3678899999999999999988


Q ss_pred             HhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchh
Q psy210          732 EMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTL  811 (915)
Q Consensus       732 ~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l  811 (915)
                      ++.+.+.+++++.+++++++|+..|+.+++.+++.||||++++++|+.++|+++||+.++|++++++++||.+.|||+++
T Consensus       204 ~~~~~~~l~r~i~~v~q~~~~~~~~~~v~~~~~~~ae~~~~~~~~v~~~ld~l~~lS~g~qrvslAl~~p~~t~glD~~~  283 (438)
T 2dpy_A          204 NILGPDGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPPATKGYPPSV  283 (438)
T ss_dssp             TTTHHHHHHTEEEEEECTTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEEECHHHHHHHHHHHHHHTTCCCCSSSCCTTH
T ss_pred             hhccccccCceEEEEECCCCCHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHhHHHHHHHHHHHHHHhCCCcccccCCHHH
Confidence            76655667899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCC--CCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccCCCCC
Q psy210          812 AEEMGKLQERISST--KNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLDPYIV  889 (915)
Q Consensus       812 ~~~l~~l~ERag~~--~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~~~~~  889 (915)
                      ++.+.+++||+++.  ++||||+++||+++++|+++|++|+++.+.||+|++|+++++.++||||||+.|+||.++ .++
T Consensus       284 ~~~l~~ll~r~~~~~~~~GsiT~~~tVlv~tHdl~~~iad~v~~l~dG~Ivl~~~~~~~~~~Paidv~~s~sR~~~-~~~  362 (438)
T 2dpy_A          284 FAKLPALVERAGNGIHGGGSITAFYTVLTEGDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISRAMT-ALI  362 (438)
T ss_dssp             HHHHHHHHTTCSCCSTTSCEEEEEEEEECSSSCSCCHHHHHHHHHSSEEEEECHHHHHTTCSSCEEEEEEEETTHH-HHS
T ss_pred             HHHHHHHHHHHHhccCCCCcccceeEEEEeCCCccchhhceEEEEeCcEEEEeCCHHHccCCCCcCCccccccccc-ccC
Confidence            99999999999875  469999999999999999999999999999999999999999999999999999999985 578


Q ss_pred             CHHHHHHHHHHHHHHHccHhhhhccC
Q psy210          890 GEEHYKVANEVKFYLQKYKELKDTST  915 (915)
Q Consensus       890 ~~~~~~~~~~~r~~l~~~~e~~~~~~  915 (915)
                      +++|+++++++|++|++|+|++++.+
T Consensus       363 ~~~~~~~~~~l~~~l~~~~~~~~~~~  388 (438)
T 2dpy_A          363 TEQHYARVRLFKQLLSSFQRNRDLVS  388 (438)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHGGGTSS
T ss_pred             CHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999999999999999999864

>2zxi_A TRNA uridine 5-carboxymethylaminomethyl modificat MNMG; modification, 5-carboxymethylaminomethyl uridine, WOBB uridine, FAD; HET: FAD; 2.30A {Aquifex aeolicus} PDB: 2zxh_A* 2e57_A*

Probab=100.00  E-value=1.9e-42  Score=410.36  Aligned_cols=244  Identities=32%  Similarity=0.434  Sum_probs=195.9

Q ss_pred             cccccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeeccee
Q psy210           43 NSLLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAY  122 (915)
Q Consensus        43 ~~l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g~  122 (915)
                      ..++...|-+.|||||||||||++||++|++|++||||||++++++|+|||||+|||++|++++|+|||||||+|+||||
T Consensus       289 ~~~~~g~i~~~Gprycpsie~k~~rf~dk~~h~i~lepEg~~~~~~y~~G~stslp~~~Q~~~~~~ipGle~a~~~r~Gy  368 (637)
T 2zxi_A          289 TALYGGLIKGIGPRYCPSIEDKIVKFPDKERHQIFLEPEGLDTIEIYPNGLSTSLPEEVQWEMYRSIPGLENVVLIRPAY  368 (637)
T ss_dssp             -------------CCCCSHHHHHHHCTTCSCCEEEEEECCSSCCEEEEETCCCCSCHHHHHHHHTTSTTCTTCCEEECCE
T ss_pred             ccccCccccccCCccCcchhhhhcccCCcccceeeeccccccCceeeecCCCCcCCHHHHHHHHhhCcCcccceEecccc
Confidence            34667778899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeE
Q psy210          123 NIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRI  202 (915)
Q Consensus       123 ~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrv  202 (915)
                      +||||||||++|+++||+|..+|+|+|||||||+||+||++||++|+++...... .       .+++.+++.++|+|.+
T Consensus       369 ~ieyd~i~p~~l~~tLe~k~~~gLf~AGqinGt~GyeEAaaqGl~AG~nAa~~~~-~-------~~~~~~~r~~ayig~l  440 (637)
T 2zxi_A          369 AIEYDVVPPTELYPTLETKKIRGLFHAGNFNGTTGYEEAAGQGIVAGINAALRAF-G-------KEPIYLRRDESYIGVM  440 (637)
T ss_dssp             EEEEEECCGGGBCTTSBBSSSBTEEECGGGGTBCSHHHHHHHHHHHHHHHHHHHT-T-------CCCCCCCTTTCHHHHH
T ss_pred             ccccceEchhhcCccccccCCCCEEEeeecCCcchHHHHHHHHHHHHHHHHHHhc-C-------CCCCCCChhheehhhH
Confidence            9999999999999999999999999999999999999999999999996644333 1       3578889999999999


Q ss_pred             eCCCceeecCCCccccc--ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          203 VNSKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       203 iD~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      +|++-    .++..+||  ++++.|+   +++.|++         +|..+|+|+|+  ++|++++..             
T Consensus       441 iddl~----t~g~~epyrm~tsrae~---rl~lr~d---------nad~rl~~~~~--~~g~~~~~~-------------  489 (637)
T 2zxi_A          441 IDDLT----TKGVTEPYRLFTSRSEY---RLYIRQD---------NAILRLAKLGR--ELGLLSEEQ-------------  489 (637)
T ss_dssp             HHHHH----HHCCSSCBCGGGCCCTT---TTTSCST---------THHHHHHHHHH--HHTSSCHHH-------------
T ss_pred             HHHHh----hcCCCchhhhcccHHHH---HHHhccC---------ChhhhhHHHHH--HhCCCCHHH-------------
Confidence            99985    46666776  6888898   9999999         99999999998  345777644             


Q ss_pred             hcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCc
Q psy210          281 QKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQD  350 (915)
Q Consensus       281 ~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~  350 (915)
                               |..+-+|.+.+.+.++.|++..+-..   +  .  .       . ..+++..|.++ ++.+
T Consensus       490 ---------~~~~~~~~~~~~~~~~~l~~~~~~~~---~--~--~-------~-~~~~~~~~~l~-~~~~  534 (637)
T 2zxi_A          490 ---------YKLVKELEREIEKWKEFYKSERVSVA---V--G--G-------D-TRSYSVATLMT-MNYT  534 (637)
T ss_dssp             ---------HHHHHHHHHHHHHHHHHHTTCEEEEE---E--T--T-------E-EEEEEHHHHTT-TTCC
T ss_pred             ---------HHHHHHHHHHHHHHHHHHhccCccCC---C--C--C-------C-CCcCCHHHHhC-CCCC
Confidence                     33455677788888888876332111   0  0  0       1 24567777877 7777

>3ces_A MNMG, tRNA uridine 5-carboxymethylaminomethyl modificat GIDA, GIDA; tRNA modification, FAD binding domain, structural genomics; 2.41A {Escherichia coli} PDB: 3cp2_A 3g05_A

Probab=100.00  E-value=1.6e-41  Score=403.99  Aligned_cols=217  Identities=36%  Similarity=0.570  Sum_probs=179.1

Q ss_pred             cccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeecceeEE
Q psy210           45 LLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNI  124 (915)
Q Consensus        45 l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g~~~  124 (915)
                      +++..+-+.|||||||||||++||++|++|++||||||++++++|+|||||+|||++|++++|+|||||||+|+||||+|
T Consensus       286 ~~~g~i~~~Gprycpsie~k~~rf~~k~~~~i~lepeg~~~~~~y~~G~st~lp~~~q~~~~~~ipGle~a~i~r~Gy~i  365 (651)
T 3ces_A          286 MYAGVIEGVGPRYCPSIEDKVMRFADRNQHQIFLEPEGLTSNEIYPNGISTSLPFDVQMQIVRSMQGMENAKIVRPGYAI  365 (651)
T ss_dssp             --------------CCHHHHHHHSCSSSCCEEEEEESCTTCCEEEEETCCCCSCHHHHHHHHHTSTTCTTCCEEECCEEE
T ss_pred             cccccccccCCcccccccccccccCCCccceeEeccccccCCeeeecCCCCCCCHHHHHHHHhhCCCccceEEEecccee
Confidence            56667778999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeC
Q psy210          125 EYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVN  204 (915)
Q Consensus       125 ~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD  204 (915)
                      |||||||++|+++||+|..+|+|||||||||+||+||++||++|+++...... .       .+++.+++.++|+|.++|
T Consensus       366 eyd~i~p~~L~~tle~k~~~gLf~AGqinGttGYeEAaaqGl~AG~nAa~~~~-~-------~~~~~~~r~~ayiG~lid  437 (651)
T 3ces_A          366 EYDFFDPRDLKPTLESKFIQGLFFAGQINGTTGYEEAAAQGLLAGLNAARLSA-D-------KEGWAPARSQAYLGVLVD  437 (651)
T ss_dssp             EEEEECGGGBCTTSBBSSSBTEEECSGGGTCCCHHHHHHHHHHHHHHHHHHHT-T-------CCCCCCCTTTCHHHHHHH
T ss_pred             ccCccchhhcCccccccCCCCeEEEEEecCCcChHHHHHHHHHHHHHHHHHhc-C-------CCCCCCChhhhhhhhHHH
Confidence            99999999999999999999999999999999999999999999986554322 1       257888999999999999


Q ss_pred             CCceeecCCCccccc--ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          205 SKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       205 ~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      ++-    .++..+||  ++++.|+   +++.|++         +|.-+|+|+|+  ++|++++..               
T Consensus       438 dl~----t~g~~epyrm~tsrae~---rl~lr~d---------nad~rl~~~~~--~~gl~~~~~---------------  484 (651)
T 3ces_A          438 DLC----TLGTKEPYRMFTSRAEY---RLMLRED---------NADLRLTEIGR--ELGLVDDER---------------  484 (651)
T ss_dssp             HHH----HHSSCCCGGGHHHHHTT---CSTTCGG---------GHHHHHHHHHH--HHTCCCHHH---------------
T ss_pred             HHH----HhcccchHHhhhhHHHH---HHHhccc---------chhhhchHhHh--HhCCCCHHH---------------
Confidence            984    45666776  6788898   9999999         99999999998  344777644               


Q ss_pred             CCCeEEEEEeeccchhhHHHHHHHHhc
Q psy210          283 NKNVICIYVCIGQKISSLINVINKLKY  309 (915)
Q Consensus       283 ~~~~~~V~~~iGer~~ev~~~~~~l~~  309 (915)
                             |..+-+|.+.+.+.++.|++
T Consensus       485 -------~~~~~~~~~~~~~~~~~l~~  504 (651)
T 3ces_A          485 -------WARFNEKLENIERERQRLKS  504 (651)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHT
T ss_pred             -------HHHHHHHHHHHHHHHHHHhc
Confidence                   33444567777777777765

>3g5s_A Methylenetetrahydrofolate--tRNA-(uracil-5-)- methyltransferase TRMFO; tRNA methyltransferase FAD folate, FAD, flavoprotein; HET: MSE FAD GSH; 1.05A {Thermus thermophilus} PDB: 3g5q_A* 3g5r_A*

Probab=100.00  E-value=5.3e-38  Score=349.87  Aligned_cols=142  Identities=30%  Similarity=0.420  Sum_probs=128.0

Q ss_pred             ccChhh------hhhcCCC-------------CCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeee
Q psy210           58 CPSIED------KIYKFPN-------------TKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSII  118 (915)
Q Consensus        58 ~~si~~------k~~~~~~-------------~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~  118 (915)
                      ||||||      |++||.+             +++|+|||||||+++++||+|||||+|||++|+++||+|||||||+|+
T Consensus       223 CpsIE~~a~rg~k~~rF~p~kp~gl~d~~~~~~p~a~v~LepE~~~~~~~y~~GfsTsLp~~~Q~~~~r~IpGLE~a~~~  302 (443)
T 3g5s_A          223 CVPVEELARRGYQTLLFGPMKPVGLVDPRTGKEPFAVVQLRQEDKAGRMWSLVGFQTGLKWPEQKRLIQMIPGLENAEIV  302 (443)
T ss_dssp             CCCHHHHHHTCTTHHHHTTTCCTTCCBTTTTBCCSEEEEEEECSTTSCEEEETTCCCCBCHHHHHHHHTTSTTCTTCCEE
T ss_pred             CcCHHHHhhcCCceeecCCCccccCCCcccCCccceEEEEeecCCCCCEEeCCceecCCCHHHHHHHHhcCcChhhCeee
Confidence            999999      8899953             455699999999999999999999999999999999999999999999


Q ss_pred             cceeEEEEeecC-hhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccc
Q psy210          119 RFAYNIEYDYFD-PRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFE  197 (915)
Q Consensus       119 r~g~~~~~~~~~-p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~  197 (915)
                      ||||+||||||| |++|+++||+|..+|+|+||||+||+||+||++||++|+++......         |+++.+++.++
T Consensus       303 r~G~~~ey~~i~sP~~L~~tle~k~~~~Lf~AGqi~G~~Gy~eAaa~Gl~AG~naa~~~~---------g~~p~~l~r~~  373 (443)
T 3g5s_A          303 RYGVMHRNTYLNAPRLLGETLEFREAEGLYAAGVLAGVEGYLESAATGFLAGLNAARKAL---------GLPPVAPPEES  373 (443)
T ss_dssp             ECCEEEEEEEECHHHHBCTTSEETTEEEEEECGGGGTBCSHHHHHHHHHHHHHHHHHHHT---------TCCCCCCCTTS
T ss_pred             eCcEeecCceecChhHhChhceecCCCCEEECccccccHHHHHHHHhHHHHHHHHHHHhc---------CCCCCCCChhh
Confidence            999999999999 99999999999999999999999999999999999999986655433         44444444469


Q ss_pred             cceeEeCCCce
Q psy210          198 LLGRIVNSKGE  208 (915)
Q Consensus       198 lLGrviD~lG~  208 (915)
                      |+|.++|++-.
T Consensus       374 yiGvLiddl~~  384 (443)
T 3g5s_A          374 MLGGLVRYLAT  384 (443)
T ss_dssp             HHHHHHHHHHH
T ss_pred             hhhHHHHHhhc
Confidence            99999999954

>3cp8_A TRNA uridine 5-carboxymethylaminomethyl modification enzyme GIDA; rossmann fold, FAD-binding domain, dinucleotide-binding motif; HET: FAD; 3.20A {Chlorobium tepidum}

Probab=100.00  E-value=6.2e-38  Score=373.00  Aligned_cols=218  Identities=33%  Similarity=0.501  Sum_probs=181.5

Q ss_pred             cccceeeccCcccccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhcCccceeeecceeEE
Q psy210           45 LLNKTFLITGPRYCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKITGLNYSSIIRFAYNI  124 (915)
Q Consensus        45 l~~~mIig~g~~~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ipgl~~a~~~r~g~~~  124 (915)
                      ++...+-|.|||||||||||++||++|++||+||||||++++++|+|||||+|||++|++++++|||||||+|+||||+|
T Consensus       280 ~~~g~isG~G~RycPsIedki~rf~d~~~~~~~lepe~~~~~~~~~~g~st~l~~~~q~~~~~~i~gle~a~~~~~G~~~  359 (641)
T 3cp8_A          280 LFTGKVQGVGPRYCPSIEDKISRFPDKSSHHIFLEPEGTDTVEMYVNGFSTSLPEDIQIAGLRSIPGLEEAKMIRPGYAI  359 (641)
T ss_dssp             TCCC---------CCCSHHHHHHCCSCSCCEEEEEESSTTCCEEEEETCCCCSCHHHHHHHHTTSTTCTTCCEEECCEEE
T ss_pred             CCCCcccCcCCccCcchhhhheeccCCCcceEEEecCCCCCCceecCCccccccHHHHHHHHhcCcchhhceEecceeee
Confidence            45666788999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeecChhhcccccccccCCCceEeeEeeccchhHHHhhcccchhhccccccccCCCcccccCccceeccccccceeEeC
Q psy210          125 EYDYFDPRCLNQTLNIKFANNTVLSGQINGTTGYEEAAAQGFVAVLIDDLKNLTQGQKCFCTEKIFEIPVGFELLGRIVN  204 (915)
Q Consensus       125 ~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~Gy~ea~a~Gv~a~i~~~~~gl~~G~~V~~tg~~~~vpvg~~lLGrviD  204 (915)
                      ||||+||++|+++||+|..+|+|+||||+|++||+||+++|++|+.+...... .       .+++.+++.++|+|.++|
T Consensus       360 ~y~~i~p~~l~~tle~k~~~gLf~AGqi~g~~Gy~eA~a~G~~AG~naa~~~~-~-------~~~~~~~r~~~y~g~l~~  431 (641)
T 3cp8_A          360 EYDFFHPWQIRSTMETRPVENLFFAGQINGTSGYEEAAAQGLMAGINAVRKIL-G-------KELIVLGRDQAYIGVLID  431 (641)
T ss_dssp             EEEEECGGGBCTTSBBSSSBTEEECSGGGTBCCHHHHHHHHHHHHHHHHHHHH-T-------CCCCCCCTTTCHHHHHHH
T ss_pred             cceEECHHHcCCcccccCcCCEEEEEeecCCccHHHHHHHHHHHHHHHHHHhc-C-------CCCCCCChhhhHHHHHHH
Confidence            99999999999999999999999999999999999999999999986543222 1       357888999999999999


Q ss_pred             CCceeecCCCccccc--ccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          205 SKGEFIDNKKKFLIK--NRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       205 ~lG~PiD~~~~~~~~--~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      ++-    +++..+||  ++++.|+   +++.|++         +|...|+|+|+  ..|++.+..               
T Consensus       432 ~l~----~~g~~epyrm~tsrae~---rl~lr~d---------na~~~~~~~~~--~~gl~~~~~---------------  478 (641)
T 3cp8_A          432 DLI----TKETKEPYRMFTSSAEH---RLILRHD---------NADLRLRKIGY--DCNLVSSDD---------------  478 (641)
T ss_dssp             HHH----HCCCSSCBCTTTCCCSC---CGGGCGG---------GHHHHHHHHHH--HTTCSCHHH---------------
T ss_pred             HHH----hcCccchhhhccchHhh---hhhhccc---------CcccCCCcccc--ccCCCCHHH---------------
Confidence            985    45555665  6788888   9999999         99999999998  344777644               


Q ss_pred             CCCeEEEEEeeccchhhHHHHHHHHhcc
Q psy210          283 NKNVICIYVCIGQKISSLINVINKLKYY  310 (915)
Q Consensus       283 ~~~~~~V~~~iGer~~ev~~~~~~l~~~  310 (915)
                             |..+-+|.+.+.+.++.|++.
T Consensus       479 -------~~~~~~~~~~~~~~~~~l~~~  499 (641)
T 3cp8_A          479 -------LHRTESIIKRVQHCLEVMKTA  499 (641)
T ss_dssp             -------HHHHHHHHHHHHHHHHHHHHC
T ss_pred             -------HHHHHHHHHHHHHHHHHHhcC
Confidence                   334445667777777777653

>1wu0_A ATP synthase C chain; ATPase, membrane protein, hydrogen ION transport, hydrolase; NMR {Bacillus SP}

Probab=98.86  E-value=4.7e-10  Score=96.23  Aligned_cols=56  Identities=34%  Similarity=0.586  Sum_probs=51.7

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      +++.+++++++|++++|+|+|+|+++++++++++||||+.++++++||++.+..+.
T Consensus         2 ~~~~igagl~~Gla~igagig~G~~~~~~~~~~arqPe~~~~l~~~~ii~~al~Ea   57 (72)
T 1wu0_A            2 SLGVLAAAIAVGLGALGAGIGNGLIVSRTIEGIARQPELRPVLQTTMFIGVALVEA   57 (72)
T ss_dssp             CSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTTTTHHHHHHHHHHHHHTH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHHhhhHHHHHHHHHHHHHH
Confidence            36789999999999999999999999999999999999999999999998776554

>2x2v_A ATP synthase subunit C; membrane protein, ION transport, ATP synthesis, transmembran CF(0), membrane, transport, C-ring rotor; HET: FME DPV; 2.50A {Bacillus pseudofirmus OF4}

Probab=98.83  E-value=3.8e-10  Score=95.98  Aligned_cols=53  Identities=28%  Similarity=0.409  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            6 LFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         6 ~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      ++++++++|++++|+|+|+|+++++++++++||||+.+++++++|++.+..+.
T Consensus         3 ~igagl~~Gla~igagig~G~~~~~~i~~~arqPe~~~~l~~~~ii~~al~Ea   55 (69)
T 2x2v_A            3 FLGAAIAAGLAAVAGAIAVAIIVKATIEGTTRQPELRGTLQTLMFIGVPLAEA   55 (69)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHHHhhHHHHHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999998776554

>4f4s_A ATP synthase subunit 9, mitochondrial; C10 ring, F1FO ATP synthase, oligomycin, membr protein-antibiotic complex; HET: FME EFO; 1.90A {Saccharomyces cerevisiae} PDB: 2wpd_J* 2xok_K* 3u2y_K* 3u32_K* 3ud0_K* 3zry_J* 3u2f_K*

Probab=98.83  E-value=1.9e-10  Score=98.17  Aligned_cols=60  Identities=20%  Similarity=0.345  Sum_probs=51.9

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhh
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIED   63 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~   63 (915)
                      ..++|++|++. ++++|+|+|+|+++++++++++||||+++++++++|+|.+..+.-.|-.
T Consensus         6 aak~IGaGlA~-ig~~G~giGiG~vfg~~i~~~aRnP~~~~~l~~~~ilG~Al~Ea~glf~   65 (76)
T 4f4s_A            6 AAKYIGAGIST-IGLLGAGIGIAIVFAALINGVSRNPSIKDTVFPMAILGFALSEATGLFC   65 (76)
T ss_dssp             HHHHHHHHHTT-TTHHHHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHcchHHHhHHHHHHHHHHHHhcChhHHHhHHHHHHHHHHHHHHHHHHH
Confidence            35788888886 8889999999999999999999999999999999999887766544433

>1a91_A F1FO ATPase subunit C; membrane protein, hydrogen ION transport; NMR {Escherichia coli} SCOP: f.17.1.1 PDB: 1c0v_A 1c17_A 1c99_A 1qo1_K 1aty_A 1l6t_A 1ijp_A

Probab=98.80  E-value=1e-09  Score=95.76  Aligned_cols=55  Identities=47%  Similarity=0.777  Sum_probs=50.0

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      +..+++++++|++++|+|+|+|+++++++++++||||+.+++++++|++.+.-+.
T Consensus         8 m~~~~a~l~~Gla~igagig~G~v~~~~i~~~arqPe~~~~l~~~~ii~~al~Ea   62 (79)
T 1a91_A            8 LLYMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLLRTQFFIVMGLVDA   62 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSCSSSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHHHhhHHHHHHHHHHHHHH
Confidence            3468899999999999999999999999999999999999999999998765544

>2xqu_A C15_RING, ATP synthase C chain; membrane protein, F1FO-ATP synthase rotor, ION (PROT translocation; HET: FME CVM; 1.84A {Arthrospira platensis} PDB: 2xqs_A* 2xqt_A* 2wie_A* 2w5j_A

Probab=98.75  E-value=8.7e-10  Score=96.96  Aligned_cols=58  Identities=33%  Similarity=0.519  Sum_probs=52.2

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      ++.+++|+++|++++|+|+|+|+++++++++++||||+.++++++||++.+..+.-.|
T Consensus         9 ~~~igagl~~Gla~igagig~G~~~~~~i~a~arqPe~~~~l~~~~ii~~al~Ea~ai   66 (82)
T 2xqu_A            9 ASVIAAALAVGIGSIGPGLGQGQAAGQAVEGIARQPEAEGKIRGTLLLSLAFMEALTI   66 (82)
T ss_dssp             HHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHhhhHHHHHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999999999999999999998776554333

>2xnd_J ATP synthase lipid-binding protein, mitochondrial; ATP phosphorylase (H+ transporting), ATP synthesis, F1FO ATP synthase, hydrolase, ION transport; HET: ANP; 3.50A {Bos taurus}

Probab=98.66  E-value=1.7e-09  Score=92.63  Aligned_cols=55  Identities=22%  Similarity=0.350  Sum_probs=49.6

Q ss_pred             chhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccc
Q psy210            3 NIPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYC   58 (915)
Q Consensus         3 ~~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~   58 (915)
                      .++.+++|+++ ++++|+|+|+|+++++++++++||||+.++++++|+++.+.-+.
T Consensus         4 ~~~~igaGLa~-l~~~gagig~G~~~~~~i~~~arqPe~~~~l~~~~~i~~al~Ea   58 (72)
T 2xnd_J            4 AAKFIGAGAAT-VGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEA   58 (72)
T ss_dssp             TTTTTTTTGGG-GGGHHHHHHHHHHHHHHHHHSSSCSCCCCCCSSTTHHHHHHHHH
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhCcHHHHhHHHHHHHHHHHHHH
Confidence            46778999998 99999999999999999999999999999999999998765544

>2wgm_A ATP synthase subunit C, sodium ION specific; F1FO-ATP synthase rotor, sodium-motive force, cell inner membrane, CF(0), membrane, transport; HET: F09; 2.35A {Ilyobacter tartaricus} PDB: 1yce_A*

Probab=98.62  E-value=3.5e-09  Score=94.42  Aligned_cols=57  Identities=32%  Similarity=0.501  Sum_probs=50.6

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccCh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSI   61 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si   61 (915)
                      ++.+++|+++ ++++|+|+|+|++++++++++|||||++++++++||++.+..+.-.|
T Consensus        13 ~~~igaGla~-la~iGagig~G~v~~~ai~a~arqPe~~~~l~~~~ii~~al~Ea~ai   69 (89)
T 2wgm_A           13 ASAVGAGTAM-IAGIGPGVGQGYAAGKAVESVARQPEAKGDIISTMVLGQAVAESTGI   69 (89)
T ss_dssp             HHHHHHHHHG-GGGHHHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhCchHhhhHHHHHHHHHHHHHHHHH
Confidence            5678888888 99999999999999999999999999999999999998776555433

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.20  E-value=1.4e-05  Score=105.35  Aligned_cols=109  Identities=17%  Similarity=0.287  Sum_probs=80.1

Q ss_pred             Cccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.|||..+|.++-   +-+|..+++.|++|||||+||++.+.+....+-.|+|.-..+..+++..     ...|. +
T Consensus      1059 ~~~i~TGi~~Ld~~lg~ggi~~g~~vll~G~~GtGKT~la~~~~~ea~k~Ge~~~Fit~ee~~~~L~a-----~~~G~dl 1133 (2050)
T 3cmu_A         1059 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIYA-----RKLGVDI 1133 (2050)
T ss_dssp             CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHHH-----HHTTCCT
T ss_pred             cccccCCcHHHHHHhccCCcCCCcEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEEccccHHHHHH-----HHcCCCh
Confidence            4567899999999884   6679999999999999999998888876655767899999998887772     22233 3


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      ++-.+ . ..+        ....+..+.+.+++.+.--+||+|+++-+
T Consensus      1134 ~~l~~-~-~pd--------~~e~~~~i~~~l~~~~~~dlvVIDsl~~L 1171 (2050)
T 3cmu_A         1134 DNLLC-S-QPD--------TGEQALEICDALARSGAVDVIVVDSVAAL 1171 (2050)
T ss_dssp             TTCEE-E-CCS--------SHHHHHHHHHHHHHHTCCSEEEESCGGGC
T ss_pred             hHhee-e-cCc--------chHHHHHHHHHHHHhCCCCEEEECCcccc
Confidence            33222 2 211        11355677788887776668999999866

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=98.03  E-value=1.2e-05  Score=105.91  Aligned_cols=115  Identities=19%  Similarity=0.279  Sum_probs=80.7

Q ss_pred             ccCccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC
Q psy210          236 SVNEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC  312 (915)
Q Consensus       236 ~~~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~  312 (915)
                      +..+.+.||+..+|.++.   +-+|.-..|.|++|+|||++|++.+.+....+-.|+|.-..+..++..  .+.+   +.
T Consensus        10 ~~~~~i~TGi~~LD~lLg~GGip~G~vtlI~G~pGsGKT~lalq~a~~~~~~Ge~vlYI~tEes~~~~r--a~~l---G~   84 (2050)
T 3cmu_A           10 MDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY--ARKL---GV   84 (2050)
T ss_dssp             --CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEECTTSCCCHHH--HHHT---TC
T ss_pred             cCCCeeccCcHHHHHHHhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHhhccCCceEEEEccCcchhhH--Hhhh---cc
Confidence            334568899999999875   557999999999999999999999888655566689999988877765  2333   22


Q ss_pred             -cceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHH
Q psy210          313 -MDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAY  365 (915)
Q Consensus       313 -~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~  365 (915)
                       +++.. +.. .+  ..+      ..+.+.+++.+.+.--+||+||++-+....
T Consensus        85 dl~~i~-v~~-p~--~~e------~ll~il~~L~~~~~~~lVVIDSISaL~~~~  128 (2050)
T 3cmu_A           85 DIDNLL-CSQ-PD--TGE------QALEICDALARSGAVDVIVVDSVAALTPKA  128 (2050)
T ss_dssp             CTTTCE-EEC-CS--SHH------HHHHHHHHHHHHTCCSEEEESCGGGCCCHH
T ss_pred             Ccccce-ecC-CC--cHH------HHHHHHHHHHhccCCcEEEEcChHHhhhhc
Confidence             34433 222 11  122      234566677766656689999999876543

>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=98.01  E-value=5.1e-06  Score=108.26  Aligned_cols=113  Identities=19%  Similarity=0.296  Sum_probs=77.4

Q ss_pred             cCccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-
Q psy210          237 VNEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-  312 (915)
Q Consensus       237 ~~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-  312 (915)
                      ..+.+.||+..+|.++.   +-+|+-+.|+|++|+|||+||++...+....+-.|+|.-..+..++..  .+.+   +. 
T Consensus        11 ~~~~isTGi~~LD~lL~~GGi~~G~i~lI~G~pGsGKT~LAlqla~~~~~~G~~vlYI~te~~~~~l~--~~~l---g~d   85 (1706)
T 3cmw_A           11 DVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY--ARKL---GVD   85 (1706)
T ss_dssp             -CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHH--HHHT---TCC
T ss_pred             cCcccccCcHHHHHHhhcCCcCCCeEEEEECCCCCCHHHHHHHHHHHHhhCCCceEEEEecCccHHHH--HHhh---ccC
Confidence            34568899999999975   667999999999999999999888777544455688998888776664  2333   22 


Q ss_pred             cceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          313 MDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       313 ~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      +++-.+ ...   ...+      ....+.+.+.+.+..-+||+|+++-+...
T Consensus        86 l~~i~i-~~p---~t~e------~l~~ll~~L~~~~~~~LVVIDSLt~L~~~  127 (1706)
T 3cmw_A           86 IDNLLC-SQP---DTGE------QALEICDALARSGAVDVIVVDSVAALTPK  127 (1706)
T ss_dssp             GGGCEE-ECC---SSHH------HHHHHHHHHHHHTCCSEEEESCSTTCCCH
T ss_pred             ccceee-ecc---CcHH------HHHHHHHHHHhccCCCEEEEcchhhhccc
Confidence            233222 211   1122      23445566665566669999999988754

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=97.79  E-value=0.00015  Score=75.41  Aligned_cols=65  Identities=32%  Similarity=0.407  Sum_probs=52.2

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHH
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGND  728 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e  728 (915)
                      +-+.||+..+|-++.  +-+|+=+.|.|+||+|||+|+.+++.+...+....++|....+..+++.+
T Consensus        10 ~ri~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~~~~~~~   76 (251)
T 2zts_A           10 RRVKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRR   76 (251)
T ss_dssp             CEECCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHH
T ss_pred             CeecCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCCHHHHHH
Confidence            448999999999987  88999999999999999999999988754443445677766666665544

>2bl2_A V-type sodium ATP synthase subunit K; V-type ATPase, K-ring, membrane rotor, sodium transporter, H ION transport, hydrolase, transmembrane; HET: LHG UMQ; 2.1A {Enterococcus hirae} PDB: 2cyd_A* 2db4_A* 3aou_A*

Probab=97.78  E-value=6.4e-06  Score=80.96  Aligned_cols=49  Identities=14%  Similarity=0.332  Sum_probs=43.2

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcc
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPR   56 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~   56 (915)
                      .+.+++|+++|++++|+|+|+|++++++++++|||||+.++    ++++.+..
T Consensus        90 ~~~igagl~~Gla~lgagigiG~v~~~~i~a~arqPe~~~~----~ii~~a~~  138 (156)
T 2bl2_A           90 LNFLGASLPIAFTGLFSGIAQGKVAAAGIQILAKKPEHATK----GIIFAAMV  138 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGHHH----HHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHH----HHHHHHHH
Confidence            56799999999999999999999999999999999999988    56654443

>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=97.34  E-value=0.00018  Score=78.77  Aligned_cols=109  Identities=14%  Similarity=0.242  Sum_probs=73.6

Q ss_pred             ccccccceeeecccc------ccccceeeeecCCCCChhHHHHHHHHhhcC--CCeEEEEEeeccchhhHHHHHHHHhcc
Q psy210          239 EPLLTGIKSIDSMIP------IGKGQRELIIGDRQTGKTTIAIDTIINQKN--KNVICIYVCIGQKISSLINVINKLKYY  310 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p------igrGqr~~I~g~~g~GKt~l~l~~i~~~~~--~~~~~V~~~iGer~~ev~~~~~~l~~~  310 (915)
                      +.+.||+..+|.++.      +.+| .+.|+|++|+|||+|+++.+++...  .+-.|+|.--.+..+..     ..+.-
T Consensus         5 ~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~-----ra~~l   78 (333)
T 3io5_A            5 DVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA-----YLRSM   78 (333)
T ss_dssp             -CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH-----HHHHT
T ss_pred             CEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH-----HHHHh
Confidence            356799999999988      6679 9999999999999999999887432  35678897766655432     23333


Q ss_pred             CC-cceEEEEEecCCCCHHHhhhhhhhhhhhHHHH--HhcCCcEEEEeccchhHH
Q psy210          311 NC-MDYTVVVAATAADSAAEQYISPYTGCTIGEYF--RDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       311 ~~-~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~--r~~g~~Vlv~~Ddltr~a  362 (915)
                      |+ +++ ++++.. +  ..++     .++.+++.+  .+.+.--|||+||++.+.
T Consensus        79 Gvd~d~-llv~~~-~--~~E~-----~~l~i~~~l~~i~~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A           79 GVDPER-VIHTPV-Q--SLEQ-----LRIDMVNQLDAIERGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             TCCGGG-EEEEEC-S--BHHH-----HHHHHHHHHHTCCTTCCEEEEEECSTTCB
T ss_pred             CCCHHH-eEEEcC-C--CHHH-----HHHHHHHHHHHhhccCceEEEEecccccc
Confidence            54 333 333322 1  2333     124455555  245667899999999875

>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=97.26  E-value=0.00039  Score=76.10  Aligned_cols=110  Identities=15%  Similarity=0.260  Sum_probs=71.9

Q ss_pred             ccccccceeeecccc------cccCCeeeeccCCCCChhhHHHHHHHHHHhcC-CcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          664 NILETGIKVIDLLCP------FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH-KGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       664 e~l~TGir~ID~l~p------igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~-~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      +.+.||+..+|.++.      +.+| ++.|+|+||+|||+|+.+++.+..++. ...++|+---+..+..  ..+.+   
T Consensus         5 ~risTGi~~LD~~LGg~~~GGl~~G-iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId~E~s~~~~--ra~~l---   78 (333)
T 3io5_A            5 DVVRTKIPMMNIALSGEITGGMQSG-LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPA--YLRSM---   78 (333)
T ss_dssp             -CBCCSCHHHHHHHHSSTTCCBCSE-EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEESSCCCCHH--HHHHT---
T ss_pred             CEecCCCHHHHHHhCCCCCCCCcCC-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEeccchhhHH--HHHHh---
Confidence            468999999999988      8899 999999999999999999998876542 3567776433333322  23333   


Q ss_pred             Cc-cccEEEEEEcCCCChHhHHHHHHHHHHHHHHH--HHCCCcEEEEecchhhHH
Q psy210          737 NV-LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEF--RNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       737 ~~-~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f--~~~g~~Vl~~~Ds~tr~a  788 (915)
                      |+ .++ ++++. .+  ..++.     ++.+++.+  ...+.--+|++||++-+.
T Consensus        79 Gvd~d~-llv~~-~~--~~E~~-----~l~i~~~l~~i~~~~~~lvVIDSI~aL~  124 (333)
T 3io5_A           79 GVDPER-VIHTP-VQ--SLEQL-----RIDMVNQLDAIERGEKVVVFIDSLGNLA  124 (333)
T ss_dssp             TCCGGG-EEEEE-CS--BHHHH-----HHHHHHHHHTCCTTCCEEEEEECSTTCB
T ss_pred             CCCHHH-eEEEc-CC--CHHHH-----HHHHHHHHHHhhccCceEEEEecccccc
Confidence            32 233 34332 22  12222     24455554  345777889999999765

>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=97.17  E-value=0.00098  Score=68.96  Aligned_cols=44  Identities=27%  Similarity=0.252  Sum_probs=39.7

Q ss_pred             ccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          664 NILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       664 e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+.||+..+|-++  -+-+|+-++|.|++|+|||+|+.+++.+..
T Consensus         4 ~~i~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~   49 (243)
T 1n0w_A            4 IQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQ   49 (243)
T ss_dssp             CEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             eEecCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHHh
Confidence            46899999999998  588999999999999999999999998643

>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=96.95  E-value=0.00067  Score=69.13  Aligned_cols=39  Identities=31%  Similarity=0.346  Sum_probs=36.9

Q ss_pred             ccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHH
Q psy210          666 LETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       666 l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +.||+..+|-++.  +-+|+-++|.|++|+|||+|+.+++.
T Consensus         2 i~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A            2 LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             BCCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999985  99999999999999999999999997

>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=96.94  E-value=0.0012  Score=73.51  Aligned_cols=110  Identities=22%  Similarity=0.368  Sum_probs=70.9

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-  738 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+|+.+++.+.... ...++|+-..+..+..  ..+.+   |. 
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~-g~~vlyi~~E~~~~~~--~a~~l---G~~  112 (349)
T 2zr9_A           39 ISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAA-GGIAAFIDAEHALDPE--YAKKL---GVD  112 (349)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT-TCCEEEEESSCCCCHH--HHHHT---TCC
T ss_pred             CCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhC-CCeEEEEECCCCcCHH--HHHHc---CCC
Confidence            4568999999999876   5699999999999999999999999887653 2345665443333322  22222   22 


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      .++ +.+.. .+  ..++      .+.+++.+..+++--+|++||++.+.
T Consensus       113 ~~~-l~i~~-~~--~~e~------~l~~~~~l~~~~~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          113 TDS-LLVSQ-PD--TGEQ------ALEIADMLVRSGALDIIVIDSVAALV  152 (349)
T ss_dssp             GGG-CEEEC-CS--SHHH------HHHHHHHHHTTTCCSEEEEECGGGCC
T ss_pred             HHH-eEEec-CC--CHHH------HHHHHHHHHhcCCCCEEEEcChHhhc
Confidence            222 22332 11  2222      34566766666555577889999764

>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=96.92  E-value=0.0011  Score=74.04  Aligned_cols=110  Identities=25%  Similarity=0.376  Sum_probs=69.3

Q ss_pred             ccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccc
Q psy210          664 NILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLD  740 (915)
Q Consensus       664 e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~  740 (915)
                      +.+.||+..+|-++.   +.+|.=+.|+|++|+|||||+.+++.+..... ..++|+- +|...... ..+.+   ++..
T Consensus        40 ~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~g-g~VlyId-~E~s~~~~-ra~rl---gv~~  113 (356)
T 3hr8_A           40 EVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMG-GVAAFID-AEHALDPV-YAKNL---GVDL  113 (356)
T ss_dssp             CEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTT-CCEEEEE-SSCCCCHH-HHHHH---TCCG
T ss_pred             ceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEe-cccccchH-HHHHc---CCch
Confidence            568999999999987   77999999999999999999999999876532 3355653 33322211 23333   2221


Q ss_pred             cEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          741 KVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       741 ~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      ..+.+...  .+ .      .-.+.+++.+...+.--++++||++.+.
T Consensus       114 ~~l~i~~~--~~-~------e~~l~~~~~l~~~~~~dlvVIDSi~~l~  152 (356)
T 3hr8_A          114 KSLLISQP--DH-G------EQALEIVDELVRSGVVDLIVVDSVAALV  152 (356)
T ss_dssp             GGCEEECC--SS-H------HHHHHHHHHHHHTSCCSEEEEECTTTCC
T ss_pred             hhhhhhhc--cC-H------HHHHHHHHHHhhhcCCCeEEehHhhhhc
Confidence            22222221  11 1      2234556666655444467779998765

>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=96.92  E-value=0.0015  Score=71.81  Aligned_cols=120  Identities=19%  Similarity=0.207  Sum_probs=73.3

Q ss_pred             cccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcC-----CcEEEEEEecCC---CchHHHHHHH
Q psy210          663 NNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH-----KGCSVFIGVGER---SREGNDFYHE  732 (915)
Q Consensus       663 ~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~-----~~~~v~~~iGer---~~ev~e~~~~  732 (915)
                      .+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+....+     ..-++|+- .|.   ++.+.+..+.
T Consensus        86 ~~~i~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~-~e~~~~~~~l~~~~~~  164 (324)
T 2z43_A           86 VKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYID-TEGTFRWERIENMAKA  164 (324)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEE-SSSCCCHHHHHHHHHH
T ss_pred             CCcccCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEE-CCCCCCHHHHHHHHHH
Confidence            457899999999997  588999999999999999999999998764321     23455553 343   3445444433


Q ss_pred             hhh--cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHh
Q psy210          733 MKE--SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       733 ~~~--~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A  790 (915)
                      +.-  ..++++ +.+....+   .++..   ..+..++.+..+ +.--+|++||++.+.++
T Consensus       165 ~g~~~~~~~~~-l~~~~~~~---~~~~~---~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~  218 (324)
T 2z43_A          165 LGLDIDNVMNN-IYYIRAIN---TDHQI---AIVDDLQELVSKDPSIKLIVVDSVTSHFRA  218 (324)
T ss_dssp             TTCCHHHHHHT-EEEEECCS---HHHHH---HHHHHHHHHHHHCTTEEEEEETTTTHHHHH
T ss_pred             hCCCHHHHhcc-EEEEeCCC---HHHHH---HHHHHHHHHHHhccCCCEEEEeCcHHHhhh
Confidence            311  111223 23333221   12211   123333333333 55568889999988765

>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=96.90  E-value=0.0055  Score=69.44  Aligned_cols=45  Identities=29%  Similarity=0.237  Sum_probs=40.0

Q ss_pred             cccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          663 NNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       663 ~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ...+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+..
T Consensus       157 ~~~i~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~  203 (400)
T 3lda_A          157 LICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQ  203 (400)
T ss_dssp             SCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CCccccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhc
Confidence            357899999999987  688999999999999999999999887654

>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=96.83  E-value=0.0016  Score=66.77  Aligned_cols=44  Identities=27%  Similarity=0.279  Sum_probs=39.1

Q ss_pred             ccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          664 NILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       664 e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+.||+..+|-++  -+-+|+-++|+|++|+|||||+..++....
T Consensus         5 ~~i~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A            5 GRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             CEECCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CccCCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46889999999776  688999999999999999999999987543

>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=96.83  E-value=0.00069  Score=75.58  Aligned_cols=110  Identities=20%  Similarity=0.276  Sum_probs=68.1

Q ss_pred             ccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcce
Q psy210          239 EPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDY  315 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~  315 (915)
                      +.+.||+..+|.++.   +-+|.-+.|+|++|+|||+|+++++.+....+-.|+|.-..+..+..  ..+++   ++...
T Consensus        40 ~~i~TG~~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId~E~s~~~~--ra~rl---gv~~~  114 (356)
T 3hr8_A           40 EVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFIDAEHALDPV--YAKNL---GVDLK  114 (356)
T ss_dssp             CEECCSCHHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH--HHHHH---TCCGG
T ss_pred             ceecCCCHHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEecccccchH--HHHHc---CCchh
Confidence            457899999999988   55799999999999999999888777643333345676544433322  22333   33212


Q ss_pred             EEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          316 TVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       316 tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      .+.+...  . ..+      ..+.+++.+.+.+..-++|+|+++.+.
T Consensus       115 ~l~i~~~--~-~~e------~~l~~~~~l~~~~~~dlvVIDSi~~l~  152 (356)
T 3hr8_A          115 SLLISQP--D-HGE------QALEIVDELVRSGVVDLIVVDSVAALV  152 (356)
T ss_dssp             GCEEECC--S-SHH------HHHHHHHHHHHTSCCSEEEEECTTTCC
T ss_pred             hhhhhhc--c-CHH------HHHHHHHHHhhhcCCCeEEehHhhhhc
Confidence            2222211  1 122      334556665544444477789998765

>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=96.77  E-value=0.0023  Score=70.33  Aligned_cols=117  Identities=17%  Similarity=0.195  Sum_probs=72.8

Q ss_pred             Cccccccceeeeccc--cccccceeeeecCCCCChhHHHHHHHHhhcCC------CeEEEEEeeccc--hhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMI--PIGKGQRELIIGDRQTGKTTIAIDTIINQKNK------NVICIYVCIGQK--ISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~--pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~------~~~~V~~~iGer--~~ev~~~~~~l  307 (915)
                      ...+.||+..+|.++  -+-+|+-+.|+|++|+|||+++++...+....      +-.|+|.-....  .+.+.+..+.+
T Consensus        86 ~~~i~TG~~~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~~~~~~gg~~~~vlyi~~e~~~~~~~l~~~~~~~  165 (324)
T 2z43_A           86 VKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVYIDTEGTFRWERIENMAKAL  165 (324)
T ss_dssp             CCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSCEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             CCcccCCchhHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            457889999999998  46679999999999999999988887763222      456778776654  45555544433


Q ss_pred             hccCC-----cceEEEEEecCCCCHHHhhhhhhhhhhhHH-HHHhcCCcEEEEeccchhHHHH
Q psy210          308 KYYNC-----MDYTVVVAATAADSAAEQYISPYTGCTIGE-YFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       308 ~~~~~-----~~~tvvv~~~a~~~~~~r~~~~~~a~tiAE-y~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                         +.     +++ +.+... ..  .++..   ..+..++ .+++.+.--+||+|+++.+..+
T Consensus       166 ---g~~~~~~~~~-l~~~~~-~~--~~~~~---~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~  218 (324)
T 2z43_A          166 ---GLDIDNVMNN-IYYIRA-IN--TDHQI---AIVDDLQELVSKDPSIKLIVVDSVTSHFRA  218 (324)
T ss_dssp             ---TCCHHHHHHT-EEEEEC-CS--HHHHH---HHHHHHHHHHHHCTTEEEEEETTTTHHHHH
T ss_pred             ---CCCHHHHhcc-EEEEeC-CC--HHHHH---HHHHHHHHHHHhccCCCEEEEeCcHHHhhh
Confidence               22     122 222221 11  11111   1222333 3334244558999999998754

>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=96.75  E-value=0.0012  Score=73.49  Aligned_cols=110  Identities=21%  Similarity=0.298  Sum_probs=70.7

Q ss_pred             Cccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+|+++.+.+....+-.|+|.-..+..+..  ..   +..|. .
T Consensus        39 ~~~i~TG~~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~~E~~~~~~--~a---~~lG~~~  113 (349)
T 2zr9_A           39 ISVIPTGSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFIDAEHALDPE--YA---KKLGVDT  113 (349)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH--HH---HHTTCCG
T ss_pred             CCccccCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCCcCHH--HH---HHcCCCH
Confidence            3568899999999987   34699999999999999999988877643334446677666544432  12   22233 2


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      ++ +.+...   ...++      .+.+++.+...+.--+||+|+++.+.
T Consensus       114 ~~-l~i~~~---~~~e~------~l~~~~~l~~~~~~~lIVIDsl~~l~  152 (349)
T 2zr9_A          114 DS-LLVSQP---DTGEQ------ALEIADMLVRSGALDIIVIDSVAALV  152 (349)
T ss_dssp             GG-CEEECC---SSHHH------HHHHHHHHHTTTCCSEEEEECGGGCC
T ss_pred             HH-eEEecC---CCHHH------HHHHHHHHHhcCCCCEEEEcChHhhc
Confidence            33 222221   11222      34566666644444488999999765

>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=0.001  Score=67.66  Aligned_cols=52  Identities=33%  Similarity=0.410  Sum_probs=40.6

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeecc
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQ  295 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGe  295 (915)
                      +.||+..+|.++.  +-+|+-++|.|++|+|||+++.+... ..  +-.++|....+
T Consensus         2 i~tG~~~LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~-~~--~~~v~~i~~~~   55 (220)
T 2cvh_A            2 LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL-LS--GKKVAYVDTEG   55 (220)
T ss_dssp             BCCSCHHHHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH-HH--CSEEEEEESSC
T ss_pred             cccCcHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH-Hc--CCcEEEEECCC
Confidence            5799999999986  88899999999999999999765555 22  23456665544

>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=96.70  E-value=0.0045  Score=68.58  Aligned_cols=120  Identities=23%  Similarity=0.192  Sum_probs=72.4

Q ss_pred             cccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhc-----CCcEEEEEEecCC---CchHHHHHHH
Q psy210          663 NNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----HKGCSVFIGVGER---SREGNDFYHE  732 (915)
Q Consensus       663 ~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----~~~~~v~~~iGer---~~ev~e~~~~  732 (915)
                      .+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+....     ...-++|+- .|.   ++.+.+..+.
T Consensus       101 ~~~i~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~-~E~~~~~~~l~~~~~~  179 (343)
T 1v5w_A          101 VFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID-TENTFRPDRLRDIADR  179 (343)
T ss_dssp             CCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEE-SSSCCCHHHHHHHHHH
T ss_pred             cceeecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEE-CCCCCCHHHHHHHHHH
Confidence            467899999999998  58899999999999999999999999875431     123455553 343   3344444333


Q ss_pred             hhh--cCccccEEEEEEcCCCChHhHHHHHHHHHHHH-HHHHHC-CCcEEEEecchhhHHHh
Q psy210          733 MKE--SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA-EEFRNS-GKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       733 ~~~--~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~A-e~f~~~-g~~Vl~~~Ds~tr~a~A  790 (915)
                      +.-  +.++++ +.+....+   .++...   .+..+ +.++.. +.--+|++||++.+..+
T Consensus       180 ~g~~~~~~l~~-l~~~~~~~---~e~~~~---ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~  234 (343)
T 1v5w_A          180 FNVDHDAVLDN-VLYARAYT---SEHQME---LLDYVAAKFHEEAGIFKLLIIDSIMALFRV  234 (343)
T ss_dssp             TTCCHHHHHHT-EEEEECCS---TTHHHH---HHHHHHHHHHHSCSSEEEEEEETSGGGHHH
T ss_pred             cCCCHHHHHhc-eeEeecCC---HHHHHH---HHHHHHHHHHhcCCCccEEEEechHHHHHH
Confidence            211  112234 23333222   112111   12223 344442 45558889999998765

>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=96.67  E-value=0.0025  Score=71.09  Aligned_cols=111  Identities=20%  Similarity=0.319  Sum_probs=69.5

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCcc
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVL  739 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~  739 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+|+.+++.+..... .-++|+-.-+..+..  ..+.+.-.  .
T Consensus        41 ~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g-~~vlyid~E~s~~~~--~a~~~g~~--~  115 (356)
T 1u94_A           41 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREG-KTCAFIDAEHALDPI--YARKLGVD--I  115 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTT-CCEEEEESSCCCCHH--HHHHTTCC--G
T ss_pred             CCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCC-CeEEEEeCCCCccHH--HHHHcCCC--h
Confidence            4568999999999987   77999999999999999999999999876532 334555332222222  12223111  2


Q ss_pred             ccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          740 DKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       740 ~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      ++ +.+. ..+  ..++      .+.+++.+..++.--+|++||++.+.
T Consensus       116 ~~-l~i~-~~~--~~e~------~~~~~~~l~~~~~~~lVVIDsl~~l~  154 (356)
T 1u94_A          116 DN-LLCS-QPD--TGEQ------ALEICDALARSGAVDVIVVDSVAALT  154 (356)
T ss_dssp             GG-CEEE-CCS--SHHH------HHHHHHHHHHHTCCSEEEEECGGGCC
T ss_pred             hh-eeee-CCC--CHHH------HHHHHHHHHhccCCCEEEEcCHHHhc
Confidence            23 2222 211  2222      34556666554443467889999765

>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=96.62  E-value=0.0041  Score=63.56  Aligned_cols=41  Identities=27%  Similarity=0.390  Sum_probs=34.8

Q ss_pred             ccccccceeeeccc--cccccceeeeecCCCCChhHHHHHHHHh
Q psy210          239 EPLLTGIKSIDSMI--PIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       239 ~~l~TGi~aiD~l~--pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      +.+.||+..+|.++  -+-+|+.++|+|++|+||||| +.+|+.
T Consensus         5 ~~i~tG~~~LD~~l~ggi~~G~~~~l~G~nGsGKSTl-l~~l~g   47 (231)
T 4a74_A            5 GRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQL-AHTLAV   47 (231)
T ss_dssp             CEECCSCHHHHHHTTSSEESSEEEEEEESTTSSHHHH-HHHHHH
T ss_pred             CccCCCChhHHhHhcCCCCCCcEEEEECCCCCCHHHH-HHHHHH
Confidence            46889999999877  566799999999999999999 555554

>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=96.62  E-value=0.0027  Score=71.14  Aligned_cols=110  Identities=22%  Similarity=0.331  Sum_probs=71.6

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-  738 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+|+.+++.+.... ..-++|+-.-+..+..  ..+.+   ++ 
T Consensus        52 ~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~-g~~vlyi~~E~s~~~~--~a~~~---g~d  125 (366)
T 1xp8_A           52 VQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKA-GGTCAFIDAEHALDPV--YARAL---GVN  125 (366)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT-TCCEEEEESSCCCCHH--HHHHT---TCC
T ss_pred             CceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHC-CCeEEEEECCCChhHH--HHHHc---CCC
Confidence            4578999999999987   6699999999999999999999999987653 2345666544433333  12222   22 


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      .++ +.+. ..+  ..+      -.+.+++.+...+.--+||+||++.+.
T Consensus       126 ~~~-l~i~-~~~--~~e------~~l~~l~~l~~~~~~~lVVIDsl~~l~  165 (366)
T 1xp8_A          126 TDE-LLVS-QPD--NGE------QALEIMELLVRSGAIDVVVVDSVAALT  165 (366)
T ss_dssp             GGG-CEEE-CCS--SHH------HHHHHHHHHHTTTCCSEEEEECTTTCC
T ss_pred             HHH-ceee-cCC--cHH------HHHHHHHHHHhcCCCCEEEEeChHHhc
Confidence            222 2232 222  122      234566777665544467889999764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.59  E-value=0.0012  Score=67.44  Aligned_cols=63  Identities=25%  Similarity=0.277  Sum_probs=47.6

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHH
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGN  727 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~  727 (915)
                      +.+.||++.+|-++.  +-+|+-++|.|++|+|||||+.+++......... ++|....+..+++.
T Consensus         3 ~~i~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~-v~~~~~~~~~~~~~   67 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDP-CIYVTTEESRDSII   67 (235)
T ss_dssp             CEECCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCC-EEEEESSSCHHHHH
T ss_pred             ccccCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCe-EEEEEcccCHHHHH
Confidence            457899999999985  8899999999999999999999999776543333 44544444333433

>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=96.57  E-value=0.0017  Score=72.40  Aligned_cols=110  Identities=20%  Similarity=0.337  Sum_probs=69.7

Q ss_pred             Cccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+||++.+.+....+..|+|.-..+..+...  .+.+   +. +
T Consensus        41 ~~~i~TG~~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid~E~s~~~~~--a~~~---g~~~  115 (356)
T 1u94_A           41 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY--ARKL---GVDI  115 (356)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHH--HHHT---TCCG
T ss_pred             CCcccCCCHHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCCccHHH--HHHc---CCCh
Confidence            4578899999999987   557999999999999999999888776433333466766655443321  2222   33 2


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      ++ +.+.. .+  ..+      ....+++.+.+.+.--+||+|+++.+.
T Consensus       116 ~~-l~i~~-~~--~~e------~~~~~~~~l~~~~~~~lVVIDsl~~l~  154 (356)
T 1u94_A          116 DN-LLCSQ-PD--TGE------QALEICDALARSGAVDVIVVDSVAALT  154 (356)
T ss_dssp             GG-CEEEC-CS--SHH------HHHHHHHHHHHHTCCSEEEEECGGGCC
T ss_pred             hh-eeeeC-CC--CHH------HHHHHHHHHHhccCCCEEEEcCHHHhc
Confidence            22 22221 11  122      234556666543333478999999775

>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=96.54  E-value=0.0046  Score=68.45  Aligned_cols=120  Identities=17%  Similarity=0.190  Sum_probs=71.5

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcC------CCeEEEEEeeccc--hhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKN------KNVICIYVCIGQK--ISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~------~~~~~V~~~iGer--~~ev~~~~~~l  307 (915)
                      .+.+.||+..+|.++.  +-+|+-+.|+|++|+|||+++++...+...      .+-.|+|.-....  .+.+.+..+.+
T Consensus       101 ~~~i~TG~~~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~~~~~~~gg~~~~vlyi~~E~~~~~~~l~~~~~~~  180 (343)
T 1v5w_A          101 VFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDRLRDIADRF  180 (343)
T ss_dssp             CCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHHHHHHHHHT
T ss_pred             cceeecCChhHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcccccCCCCCeEEEEECCCCCCHHHHHHHHHHc
Confidence            4568899999999984  667999999999999999998887776321      2445777776653  44444444433


Q ss_pred             hcc--CCcceEEEEEecCCCCHHHhhhhhhhhh-hhHHHHHhc-CCcEEEEeccchhHHHH
Q psy210          308 KYY--NCMDYTVVVAATAADSAAEQYISPYTGC-TIGEYFRDL-GQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       308 ~~~--~~~~~tvvv~~~a~~~~~~r~~~~~~a~-tiAEy~r~~-g~~Vlv~~Ddltr~a~A  364 (915)
                      .-.  .++++ +.+....+   .++..   ..+ .+.+.+++. +.--+||+|+++.+..+
T Consensus       181 g~~~~~~l~~-l~~~~~~~---~e~~~---~ll~~l~~~i~~~~~~~~lvVIDsl~~l~~~  234 (343)
T 1v5w_A          181 NVDHDAVLDN-VLYARAYT---SEHQM---ELLDYVAAKFHEEAGIFKLLIIDSIMALFRV  234 (343)
T ss_dssp             TCCHHHHHHT-EEEEECCS---TTHHH---HHHHHHHHHHHHSCSSEEEEEEETSGGGHHH
T ss_pred             CCCHHHHHhc-eeEeecCC---HHHHH---HHHHHHHHHHHhcCCCccEEEEechHHHHHH
Confidence            110  01133 22222211   11111   111 222344441 44458999999998754

>3v76_A Flavoprotein; structural genomics, PSI-biology, NEW YORK structural genomi research consortium, nysgrc; HET: FDA; 2.51A {Sinorhizobium meliloti}

Probab=96.53  E-value=0.0002  Score=81.60  Aligned_cols=95  Identities=14%  Similarity=0.129  Sum_probs=77.2

Q ss_pred             cccChhhhhhcCCCCCcceeEEeecCCCCceEEecccccCCCHHHHHHHHHHhc--------------------------
Q psy210           57 YCPSIEDKIYKFPNTKNHQIFLEPEGYYSRELYLNGLSTSLSLENQKKLIKKIT--------------------------  110 (915)
Q Consensus        57 ~~~si~~k~~~~~~~~~~~~~l~~e~~~~~~~~~~G~~t~l~~~~q~~~~~~ip--------------------------  110 (915)
                      +.+..+.+|.-||+...++++.+........-+.+.++..||...+..+++..+                          
T Consensus       270 ~~~~~~~~id~~p~~~~~~~~~~~~~~~~~~~~~~~l~~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~  349 (417)
T 3v76_A          270 WREGEEIVLRLMPDIDIASILKGMRRANGRQAVQTALADILPRRLAQFFADEAKLTGRMLADLSDKTIDALASSIQVWAV  349 (417)
T ss_dssp             CCTTCCEEEEESTTSCHHHHHHHHHHHTCSSBHHHHHTTTSCHHHHHHHHHHTTCTTCBGGGCCHHHHHHHHHHHHSEEE
T ss_pred             hhCCCEEEEECCCCCCHHHHHHHHHHhchhhhHHHHHHHHhhHHHHHHHHHhcCCCCCchhhCCHHHHHHHHHHhcCCEE
Confidence            345566778888998888877676666667777788999999999999988754                          


Q ss_pred             ------CccceeeecceeEEEEeecChhhcccccccccCCCceEeeEeeccch
Q psy210          111 ------GLNYSSIIRFAYNIEYDYFDPRCLNQTLNIKFANNTVLSGQINGTTG  157 (915)
Q Consensus       111 ------gl~~a~~~r~g~~~~~~~~~p~~L~~~le~~~~~g~~~aGQI~Gt~G  157 (915)
                            |+++|++.+.|  +.++.|||    .|+|.|..||+||+|+|..++|
T Consensus       350 ~~~g~~~~~~a~vt~GG--V~~~ei~~----~tmesk~~~gLy~aGE~lD~~~  396 (417)
T 3v76_A          350 KPAGSEGYRTAEVTLGG--VDTRALDS----RTMQAKEVPGLYFVGECVDVTG  396 (417)
T ss_dssp             CCCEECCTTTCSEEEEE--ECGGGBCT----TTCBBTTSTTEEECGGGBSEEE
T ss_pred             EecccCCcceEEEeCCC--CccccCCh----hhccccCCCCeEEEEEeEeccc
Confidence                  99999999988  67777777    7899999999999996666654

>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=96.43  E-value=0.0021  Score=72.06  Aligned_cols=110  Identities=19%  Similarity=0.290  Sum_probs=70.9

Q ss_pred             Cccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+||++.+.+....+-.|+|.-.....+...  .+.   .++ +
T Consensus        52 ~~~i~TG~~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~~E~s~~~~~--a~~---~g~d~  126 (366)
T 1xp8_A           52 VQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPVY--ARA---LGVNT  126 (366)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHH--HHH---TTCCG
T ss_pred             CceecCCCHHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEECCCChhHHH--HHH---cCCCH
Confidence            4578899999999987   446999999999999999999888776433333467777766554431  222   233 2


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      ++ +.+... +  ..+      ..+.+++.+.+.+.--+||+|+++.+.
T Consensus       127 ~~-l~i~~~-~--~~e------~~l~~l~~l~~~~~~~lVVIDsl~~l~  165 (366)
T 1xp8_A          127 DE-LLVSQP-D--NGE------QALEIMELLVRSGAIDVVVVDSVAALT  165 (366)
T ss_dssp             GG-CEEECC-S--SHH------HHHHHHHHHHTTTCCSEEEEECTTTCC
T ss_pred             HH-ceeecC-C--cHH------HHHHHHHHHHhcCCCCEEEEeChHHhc
Confidence            22 222221 1  122      234556666644434478899999764

>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=96.37  E-value=0.0064  Score=62.72  Aligned_cols=42  Identities=29%  Similarity=0.441  Sum_probs=35.8

Q ss_pred             ccccccceeeeccc--cccccceeeeecCCCCChhHHHHHHHHh
Q psy210          239 EPLLTGIKSIDSMI--PIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       239 ~~l~TGi~aiD~l~--pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      +.+.||+..+|.++  -+-+|+-++|.|++|+|||+|+.....+
T Consensus         4 ~~i~tG~~~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A            4 IQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             CEECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEecCCChHHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            46889999999998  4678999999999999999996555543

>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=96.30  E-value=0.0098  Score=64.92  Aligned_cols=120  Identities=17%  Similarity=0.183  Sum_probs=73.0

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc------------CCC----eEEEEEeeccc--h
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK------------NKN----VICIYVCIGQK--I  297 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~------------~~~----~~~V~~~iGer--~  297 (915)
                      ...+.||+..+|.++.  +-+|+-+.|.|++|+|||++|++...+..            ..+    -.|+|.-..+.  .
T Consensus        77 ~~~i~TG~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~~e~~~~~  156 (322)
T 2i1q_A           77 VWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRP  156 (322)
T ss_dssp             CCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCH
T ss_pred             CCeecCCChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEECCCCCCH
Confidence            4568899999999984  56799999999999999999988876521            112    56788877765  5


Q ss_pred             hhHHHHHHHHhcc--CCcceEEEEEecCCCCHHHhhhhhhhhhh-hHHHHHhcCCcEEEEeccchhHHHH
Q psy210          298 SSLINVINKLKYY--NCMDYTVVVAATAADSAAEQYISPYTGCT-IGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       298 ~ev~~~~~~l~~~--~~~~~tvvv~~~a~~~~~~r~~~~~~a~t-iAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      +.+.+..+.+.-.  .++++ +.+... ..  .++..   ..+. +.+.+++.+.--+||+|+++.+..+
T Consensus       157 ~~l~~~~~~~g~~~~~~~~~-l~~~~~-~~--~~~~~---~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~  219 (322)
T 2i1q_A          157 ERIMQMAEHAGIDGQTVLDN-TFVARA-YN--SDMQM---LFAEKIEDLIQEGNNIKLVVIDSLTSTFRN  219 (322)
T ss_dssp             HHHHHHHHHHTCCHHHHHHT-EEEEEC-SS--HHHHH---HHHHTHHHHHHTTCEEEEEEEECSSHHHHH
T ss_pred             HHHHHHHHHcCCCHHHHhcC-EEEEeC-CC--HHHHH---HHHHHHHHHHhhccCccEEEEECcHHHHHH
Confidence            5555555444110  00123 222221 11  11111   1122 3334444144458999999998754

>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=96.26  E-value=0.0096  Score=65.00  Aligned_cols=120  Identities=18%  Similarity=0.094  Sum_probs=72.1

Q ss_pred             cccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhc-----------CC----cEEEEEEecCC---
Q psy210          663 NNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE-----------HK----GCSVFIGVGER---  722 (915)
Q Consensus       663 ~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~-----------~~----~~~v~~~iGer---  722 (915)
                      .+.+.||+..+|-++  -+-+|+-+.|+|++|+|||+|+.+++.+....           ..    .-++|+- .|.   
T Consensus        77 ~~~i~TG~~~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~~l~~~~~~~~~~~~~gg~~~~~v~yi~-~e~~~~  155 (322)
T 2i1q_A           77 VWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYID-TEGTFR  155 (322)
T ss_dssp             CCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEE-SSSCCC
T ss_pred             CCeecCCChhHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHhccccccccccccccCCCCCceEEEEE-CCCCCC
Confidence            346889999999998  57789999999999999999999999874321           11    3445553 443   


Q ss_pred             CchHHHHHHHhhh--cCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-CCcEEEEecchhhHHHh
Q psy210          723 SREGNDFYHEMKE--SNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-GKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       723 ~~ev~e~~~~~~~--~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-g~~Vl~~~Ds~tr~a~A  790 (915)
                      ++.+.+..+.+.-  +.++++ +.+....+   .++..   ..+...+.+..+ +.--+|++||++.+..+
T Consensus       156 ~~~l~~~~~~~g~~~~~~~~~-l~~~~~~~---~~~~~---~~l~~l~~~~~~~~~~~lvVIDsl~~l~~~  219 (322)
T 2i1q_A          156 PERIMQMAEHAGIDGQTVLDN-TFVARAYN---SDMQM---LFAEKIEDLIQEGNNIKLVVIDSLTSTFRN  219 (322)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHT-EEEEECSS---HHHHH---HHHHTHHHHHHTTCEEEEEEEECSSHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHhcC-EEEEeCCC---HHHHH---HHHHHHHHHHhhccCccEEEEECcHHHHHH
Confidence            3455554443311  111233 23333221   12211   122333334444 45558899999988754

>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=96.23  E-value=0.005  Score=68.46  Aligned_cols=120  Identities=20%  Similarity=0.236  Sum_probs=72.5

Q ss_pred             cccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhc--C---CcEEEEEEecCC---CchHHHHHHH
Q psy210          663 NNILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE--H---KGCSVFIGVGER---SREGNDFYHE  732 (915)
Q Consensus       663 ~e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~--~---~~~~v~~~iGer---~~ev~e~~~~  732 (915)
                      .+.+.||+..+|-++  -+-+|+-++|+|++|+|||||+.+++.+....  .   .+-+||+ -+|.   ++.+..+.+.
T Consensus       110 ~~~isTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i-~~e~~~~~~~i~~i~q~  188 (349)
T 1pzn_A          110 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWI-DTENTFRPERIREIAQN  188 (349)
T ss_dssp             CCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEE-ESSSCCCHHHHHHHHHT
T ss_pred             CCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEE-eCCCCCCHHHHHHHHHH
Confidence            456899999999985  67799999999999999999999999876321  1   1344665 3343   2334433332


Q ss_pred             hh--hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHC-----CCcEEEEecchhhHHHh
Q psy210          733 MK--ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNS-----GKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       733 ~~--~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~-----g~~Vl~~~Ds~tr~a~A  790 (915)
                      +.  ...++++- .+....+  +...    ...+..+..+..+     ..-=+||+||+|-.-++
T Consensus       189 ~~~~~~~v~~ni-~~~~~~~--~~~~----~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~ld~  246 (349)
T 1pzn_A          189 RGLDPDEVLKHI-YVARAFN--SNHQ----MLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRS  246 (349)
T ss_dssp             TTCCHHHHGGGE-EEEECCS--HHHH----HHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHH
T ss_pred             cCCCHHHHhhCE-EEEecCC--hHHH----HHHHHHHHHHHHHhccccCCCCEEEEeCchHhhhh
Confidence            21  11234443 3333221  1111    1233445555543     55668889999986655

>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=96.21  E-value=0.011  Score=63.47  Aligned_cols=46  Identities=20%  Similarity=0.086  Sum_probs=39.6

Q ss_pred             ccccc-cceeeeccc-ccccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          664 NILET-GIKVIDLLC-PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       664 e~l~T-Gir~ID~l~-pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      .-+.| |+.++|-++ .+-+|+-++|.|++|+|||||+.+|+.+....
T Consensus        15 ~~i~t~g~~~Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~~ia~~~~~~   62 (296)
T 1cr0_A           15 VGLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTA   62 (296)
T ss_dssp             CCBCCCSCTTHHHHHCSBCTTCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCcccCCHHHHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            34778 998888665 68899999999999999999999999987654

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=96.13  E-value=0.015  Score=63.46  Aligned_cols=54  Identities=11%  Similarity=0.167  Sum_probs=43.6

Q ss_pred             ccccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEE
Q psy210          664 NILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIG  718 (915)
Q Consensus       664 e~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~  718 (915)
                      +.+.||+..+|-++- +-+|+-+.|.|+||+|||+|+.+++.+.+.++ .-++|..
T Consensus        49 ~~i~TG~~~LD~~lgGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g-~~vl~~s  103 (315)
T 3bh0_A           49 TGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDND-DVVNLHS  103 (315)
T ss_dssp             CSBCCSCHHHHHHHSSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTT-CEEEEEE
T ss_pred             CCccCChHHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcC-CeEEEEE
Confidence            468899999998864 77999999999999999999999999887543 2334443

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=96.12  E-value=0.0031  Score=65.31  Aligned_cols=63  Identities=25%  Similarity=0.389  Sum_probs=50.1

Q ss_pred             ccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEeeccchhhHHHH
Q psy210          241 LLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIGQKISSLINV  303 (915)
Q Consensus       241 l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~iGer~~ev~~~  303 (915)
                      +.||+..+|.++.  +-+|+=+.|.|++|+|||++|++.+.+. .+.+-.|+|....+..+++.+-
T Consensus        12 i~TGi~~LD~~l~GGl~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s~E~~~~~~~~~   77 (251)
T 2zts_A           12 VKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARDLRRE   77 (251)
T ss_dssp             ECCSCTTTGGGTTTSEETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHH
T ss_pred             ecCCcHHHHHhhcCCCCCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeecccCCHHHHHHH
Confidence            6799999999997  7789999999999999999999987763 2323346788888777655443

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.08  E-value=0.0032  Score=64.30  Aligned_cols=64  Identities=31%  Similarity=0.435  Sum_probs=44.7

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHH
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLIN  302 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~  302 (915)
                      +.+.||+..+|.++.  +-+|+-++|.|++|+|||||+..........+..++|.......+++.+
T Consensus         3 ~~i~tg~~~Ld~~~~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~~~~~~~~~~~   68 (235)
T 2w0m_A            3 SRLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTTEESRDSIIR   68 (235)
T ss_dssp             CEECCSCHHHHGGGTTSEETTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEESSSCHHHHHH
T ss_pred             ccccCCchHHHHHhcCCCcCCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEEcccCHHHHHH
Confidence            357899999999985  7789999999999999999964443332222223556665555444443

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.03  E-value=0.0031  Score=65.21  Aligned_cols=64  Identities=23%  Similarity=0.305  Sum_probs=47.6

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHH
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLIN  302 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~  302 (915)
                      +.+.||+..+|.++.  +-+|+-++|.|++|+|||+++++.+.+....+-.++|....+..+++.+
T Consensus         3 ~~i~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~~e~~~~~~~~   68 (247)
T 2dr3_A            3 RRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALEEHPVQVRQ   68 (247)
T ss_dssp             CEECCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEESSSCHHHHHH
T ss_pred             ccccCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEccCCHHHHHH
Confidence            357899999999864  5569999999999999999988776664333334667776665544433

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.93  E-value=0.004  Score=64.37  Aligned_cols=62  Identities=21%  Similarity=0.271  Sum_probs=46.9

Q ss_pred             ccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchH
Q psy210          664 NILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREG  726 (915)
Q Consensus       664 e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev  726 (915)
                      +.+.||++.+|-++  -+-+|+-++|.|++|+|||+|+.+++.+..... .-++|+..-+..+++
T Consensus         3 ~~i~tG~~~LD~~l~gGl~~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~-~~v~~~~~e~~~~~~   66 (247)
T 2dr3_A            3 RRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMG-EPGIYVALEEHPVQV   66 (247)
T ss_dssp             CEECCCCTTHHHHTTTSEETTCEEEEEECTTSSHHHHHHHHHHHHHHTT-CCEEEEESSSCHHHH
T ss_pred             ccccCCchhHHHHcCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhcC-CeEEEEEccCCHHHH
Confidence            45789999999885  477999999999999999999999988776532 334555544433333

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=95.91  E-value=0.022  Score=62.14  Aligned_cols=64  Identities=17%  Similarity=0.194  Sum_probs=49.0

Q ss_pred             ccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHH
Q psy210          239 EPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLIN  302 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~  302 (915)
                      +.+.||+..+|.++- +-+|+-+.|.|.+|+|||+++++...+....+-.|+|....+..+++..
T Consensus        49 ~~i~TG~~~LD~~lgGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~slE~s~~~l~~  113 (315)
T 3bh0_A           49 TGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGKKENIK  113 (315)
T ss_dssp             CSBCCSCHHHHHHHSSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEESSSCHHHHHH
T ss_pred             CCccCChHHHHhhcCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEECCCCHHHHHH
Confidence            467899999999873 4469999999999999999998877665444445677777766655443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=95.88  E-value=0.016  Score=66.51  Aligned_cols=46  Identities=24%  Similarity=0.345  Sum_probs=40.5

Q ss_pred             ccccccceeeeccc-ccccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          664 NILETGIKVIDLLC-PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       664 e~l~TGir~ID~l~-pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      ..+.||+..+|-++ -+-+|+-+.|.|+||+|||+|+.+++.+.+..
T Consensus       184 ~~i~tG~~~LD~~~gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~  230 (454)
T 2r6a_A          184 TGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATK  230 (454)
T ss_dssp             CSBCCSCHHHHHHHSSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHH
T ss_pred             CCCCCCcHHHHhhcCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            45889999999887 37799999999999999999999999988753

>2bl2_A V-type sodium ATP synthase subunit K; V-type ATPase, K-ring, membrane rotor, sodium transporter, H ION transport, hydrolase, transmembrane; HET: LHG UMQ; 2.1A {Enterococcus hirae} PDB: 2cyd_A* 2db4_A* 3aou_A*

Probab=95.78  E-value=0.0068  Score=59.47  Aligned_cols=55  Identities=16%  Similarity=0.223  Sum_probs=44.4

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIE   62 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~   62 (915)
                      +..++++++++++++|+++|+|.++++++.+++||||...+    +++..+....-.|-
T Consensus        14 ~~~lGa~la~~ls~iGaa~G~~~aG~a~~g~~~~~P~~~~k----~li~~~l~e~~~IY   68 (156)
T 2bl2_A           14 FAVLAMATATIFSGIGSAKGVGMTGEAAAALTTSQPEKFGQ----ALILQLLPGTQGLY   68 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCGGGHHH----HHHHHHGGGHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHHHHH----HHHHHHHHHHHHHH
Confidence            46789999999999999999999999999999999998855    55544444433333

>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=0.016  Score=65.55  Aligned_cols=57  Identities=21%  Similarity=0.360  Sum_probs=42.8

Q ss_pred             Cccccccceeeeccc--cccccceeeeecCCCCChhHHHHHHHHhhcC------CCeEEEEEeec
Q psy210          238 NEPLLTGIKSIDSMI--PIGKGQRELIIGDRQTGKTTIAIDTIINQKN------KNVICIYVCIG  294 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~--pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~------~~~~~V~~~iG  294 (915)
                      ...+.||+..+|.++  -+-+|+-+.|+|++|+|||+|+++.+.+...      .+-.++|.--.
T Consensus       157 ~~~i~TG~~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~~~~p~~~Gg~~~~viyid~E  221 (400)
T 3lda_A          157 LICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTE  221 (400)
T ss_dssp             SCEECCSCHHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESS
T ss_pred             CCccccCChhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHHhccCcccCCCCCcEEEEeCC
Confidence            457899999999998  4667999999999999999997766544321      23446665443

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=95.50  E-value=0.023  Score=60.50  Aligned_cols=198  Identities=8%  Similarity=-0.069  Sum_probs=108.8

Q ss_pred             cccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHh-------hh
Q psy210          665 ILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM-------KE  735 (915)
Q Consensus       665 ~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~-------~~  735 (915)
                      .+.|||.-+|-++-  +-+|--++|.|+||+|||+|+.+++.+-.++ .+-++|+...|.+.++..-.+.+       .+
T Consensus         2 ~i~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~~~-Ge~~~~~~~~e~~~~l~~~~~~~G~dl~~~~~   80 (260)
T 3bs4_A            2 SLSWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKLKS-DNLVGMFSISYPLQLIIRILSRFGVDVIKYLE   80 (260)
T ss_dssp             CBCCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHHHT-TCEEEEEECSSCHHHHHHHHHHTTCCHHHHHH
T ss_pred             cCccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHHHC-CCcEEEEEEeCCHHHHHHHHHHcCCCHHHHhh
Confidence            36799999888864  5588899999999999999999998865543 57899999999888876544433       12


Q ss_pred             cCccccEEEE----------------EEcC-CCChHhH---HHHHHHHHHHHHHHHH--CCCcEEEEecchhhHHHhhhh
Q psy210          736 SNVLDKVSLI----------------YGQM-NEPSGNR---LRVALTGLSIAEEFRN--SGKDVLLFIDNIYRFTLAGTE  793 (915)
Q Consensus       736 ~~~~~~~~vv----------------~~t~-d~~~~~r---~~~~~~a~~~Ae~f~~--~g~~Vl~~~Ds~tr~a~A~re  793 (915)
                      +|   +-.++                +..+ +-.+.+-   ++...-...-||...+  ..++|++++|++.-+..+..+
T Consensus        81 ~g---~l~i~d~~~~~~~~~~~~~~v~~~~~e~d~~~l~~~i~~iv~~~~~~~~i~~~~~~~rvv~vidsldsl~~~~~~  157 (260)
T 3bs4_A           81 NH---RLAIVDTFGSFHGIKATMPGVWYLEGMLSSETLPIKYAKAVEDHKKVWMDLNLFEGRELYGFAISMSGYLEVFTP  157 (260)
T ss_dssp             TT---SEEEECHHHHHHTC---CTTEECCCSCCCTTTHHHHHHHHHHHHHHHHHHTTCSTTCCEEEEEETGGGGGGTSCH
T ss_pred             CC---cEEEEEcccccccccccccceecccccCCHHHHHHHHHHHHHhhccccchhhccCCceEEEEEeecchHHHHhCh
Confidence            22   11222                1111 2223222   3332222111333445  248888888888766544311


Q ss_pred             hhhhcCCCCCCCCCcchhhHHHHH-HHHHhcCCCCCceeEEEEEEecCCCCCCCcccccccccCcEEEeeHHHHhcCCCc
Q psy210          794 VSAMLGRTPSAVGYQPTLAEEMGK-LQERISSTKNGTITSVQAIYVPADDLTDPSPSTTFTHLDSTIVLSRQIAELGIYP  872 (915)
Q Consensus       794 is~~~ge~p~~~gyp~~l~~~l~~-l~ERag~~~~GSiT~i~~v~~~~~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~P  872 (915)
                               ..  +-..+...++. ..+..-+.+.|..|. .+..   +..+...+..+.++.||-|.|.....+.+..=
T Consensus       158 ---------~~--~~~~~~~ll~~~~~~~~~~~~~~~tti-l~~~---~~~~~~~~~~l~~laD~VI~lr~~e~~g~~rR  222 (260)
T 3bs4_A          158 ---------EE--TLRYLETSAEVRYGHPAYKKYPRGTNF-WLWE---GVKDKRVLLSVYRRADYVLKTRSSLGENGIKR  222 (260)
T ss_dssp             ---------HH--HHHHHHHHHHHHHHCHHHHSSCCCEEE-EEEE---SCSCHHHHHHHHHHCSEEEEEEEEEETTEEEE
T ss_pred             ---------hh--HHHHHHHHHHhhhhHHHHhccCCcEEE-EEEC---CCcccccccceEEEeeEEEEEEEEecCCceEE
Confidence                     00  01111222222 000011112454444 3333   23333344556677899999977655544445


Q ss_pred             cccCCCCcc
Q psy210          873 AIDPLESYS  881 (915)
Q Consensus       873 AIdv~~S~S  881 (915)
                      ++-|+++-.
T Consensus       223 ~L~V~K~Rg  231 (260)
T 3bs4_A          223 ELLVIKTPK  231 (260)
T ss_dssp             EEEEEECCC
T ss_pred             EEEEEECCC
Confidence            566666543

>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=95.42  E-value=0.017  Score=64.12  Aligned_cols=120  Identities=20%  Similarity=0.158  Sum_probs=67.9

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc-C--C---CeEEEEEeeccc--hhhHHHHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK-N--K---NVICIYVCIGQK--ISSLINVINKL  307 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~-~--~---~~~~V~~~iGer--~~ev~~~~~~l  307 (915)
                      .+.+.||+..+|.++.  +-+|+-+.|+|++|+|||+|++....... .  .   +-.|||.---+.  .+.+..+.+.+
T Consensus       110 ~~~isTG~~~LD~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~~~~~~~Gg~~G~vi~i~~e~~~~~~~i~~i~q~~  189 (349)
T 1pzn_A          110 IGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQNR  189 (349)
T ss_dssp             CCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHHHHHHTT
T ss_pred             CCeecCCCHHHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhccchhcCCCCCeEEEEeCCCCCCHHHHHHHHHHc
Confidence            4567899999999864  55799999999999999999766555431 1  1   235666643332  23344333322


Q ss_pred             h--ccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhc-----CCcEEEEeccchhHHHH
Q psy210          308 K--YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDL-----GQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       308 ~--~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~-----g~~Vlv~~Ddltr~a~A  364 (915)
                      .  ...++++-.+ ... ..+ ..+    ...+..+..+...     ..-=+||+|++|..-++
T Consensus       190 ~~~~~~v~~ni~~-~~~-~~~-~~~----~~~l~~~~~~~~~lS~G~~~~~llIlDs~ta~ld~  246 (349)
T 1pzn_A          190 GLDPDEVLKHIYV-ARA-FNS-NHQ----MLLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRS  246 (349)
T ss_dssp             TCCHHHHGGGEEE-EEC-CSH-HHH----HHHHHHHHHHHHHSSSSSSCEEEEEEETSSTTHHH
T ss_pred             CCCHHHHhhCEEE-Eec-CCh-HHH----HHHHHHHHHHHHHhccccCCCCEEEEeCchHhhhh
Confidence            1  0112333322 221 111 111    1223344444432     44568999999987655

>3bs4_A Uncharacterized protein PH0321; structural genomics, unknown function, PSI-2, protein struct initiative; 1.60A {Pyrococcus horikoshii}

Probab=95.28  E-value=0.019  Score=61.23  Aligned_cols=66  Identities=12%  Similarity=0.099  Sum_probs=54.1

Q ss_pred             ccccceeeecccccc--ccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHH
Q psy210          241 LLTGIKSIDSMIPIG--KGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINK  306 (915)
Q Consensus       241 l~TGi~aiD~l~pig--rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~  306 (915)
                      +.|||..+|.++.=|  +|--++|.|++++|||+++++.+.+....+=.|+|....|..+++..-.+.
T Consensus         3 i~tGi~~LD~~l~GGl~~gs~~li~g~p~~~~~~l~~qfl~~g~~~Ge~~~~~~~~e~~~~l~~~~~~   70 (260)
T 3bs4_A            3 LSWEIEELDREIGKIKKHSLILIHEEDASSRGKDILFYILSRKLKSDNLVGMFSISYPLQLIIRILSR   70 (260)
T ss_dssp             BCCSSHHHHHHHCCBCTTCEEEEEECSGGGCHHHHHHHHHHHHHHTTCEEEEEECSSCHHHHHHHHHH
T ss_pred             CccCcHHHHHHhCCCCCCCcEEEEEeCCCccHHHHHHHHHHHHHHCCCcEEEEEEeCCHHHHHHHHHH
Confidence            579999999997644  598899999999999999999998876556679999999988776654443

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=95.26  E-value=0.037  Score=63.35  Aligned_cols=59  Identities=20%  Similarity=0.138  Sum_probs=44.0

Q ss_pred             ccccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCC
Q psy210          664 NILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERS  723 (915)
Q Consensus       664 e~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~  723 (915)
                      ..+.||+..+|-++- +-+|+-+.|.|+||+|||+|+.+++.+.+..+..-++|. -.|-+
T Consensus       181 ~~i~tG~~~LD~~lgGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~-slE~~  240 (444)
T 2q6t_A          181 AGVRTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIY-SLEMP  240 (444)
T ss_dssp             --CCCSCHHHHHHHCCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE-ESSSC
T ss_pred             CcccCCCHhhhhhcCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEE-ECCCC
Confidence            457899999998873 669999999999999999999999998875332223443 34444

>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=95.16  E-value=0.015  Score=76.26  Aligned_cols=110  Identities=20%  Similarity=0.329  Sum_probs=75.3

Q ss_pred             Cccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-c
Q psy210          238 NEPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-M  313 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~  313 (915)
                      .+.+.||+..+|.++.   +-+|.-+.|.|++|+|||+||++.+.+....+-.|+|.-..+..+...     .+..|+ +
T Consensus       361 ~~~isTGi~~LD~lLg~GGl~~G~lilI~G~pGsGKTtLaLq~a~~~~~~G~~vlyis~E~s~~~~~-----a~~lGvd~  435 (1706)
T 3cmw_A          361 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-----ARKLGVDI  435 (1706)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEECTTSCCCHHH-----HHHTTCCG
T ss_pred             CceeccCcHHHHHHhccCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEccCchHHHH-----HHHcCCCH
Confidence            4578999999999987   668999999999999999999999887544444678888887776652     223344 3


Q ss_pred             ceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          314 DYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       314 ~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      ++- .+.. . + ..++      .+.+++.+.+.+.--+||+|+++-+.
T Consensus       436 ~~L-~i~~-~-~-~~e~------~l~~l~~lv~~~~~~lVVIDSL~al~  474 (1706)
T 3cmw_A          436 DNL-LCSQ-P-D-TGEQ------ALEICDALARSGAVDVIVVDSVAALT  474 (1706)
T ss_dssp             GGC-EEEC-C-S-SHHH------HHHHHHHHHHHTCCSEEEESCSTTCC
T ss_pred             HHe-EEcC-C-C-CHHH------HHHHHHHHHHhcCCCEEEECCHHHhh
Confidence            332 2222 1 1 2333      34455655544444488999998664

>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=95.10  E-value=0.013  Score=64.25  Aligned_cols=44  Identities=18%  Similarity=0.056  Sum_probs=36.9

Q ss_pred             ccccccccceeeeccc-ccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          662 NNNILETGIKVIDLLC-PFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~-pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +...+.||+.-+|-++ -+-+|.-+.|.|+||+|||+|+.+++.+
T Consensus       102 i~~~i~TGi~~LD~lLGGi~~gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          102 LTGELVGCSPVVAEFGGHRYASGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             SSTTCCSBCCEEEEETTEEEESEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             hhhccccCcHHHHHHhCCCCCCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            3455779999999887 3447778899999999999999999876

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.07  E-value=0.036  Score=60.96  Aligned_cols=99  Identities=13%  Similarity=0.137  Sum_probs=54.8

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcC----CcE-EEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEH----KGC-SVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSG  754 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~----~~~-~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~  754 (915)
                      +.+.-+.|.|++|+|||+|+..+++......    .+. .+++-|..- ....+++..+.+.  +...   ......+..
T Consensus        42 ~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~~~~~~~l~~~--l~~~---~~~~~~~~~  115 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHR-ETPYRVASAIAEA--VGVR---VPFTGLSVG  115 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEETTTS-CSHHHHHHHHHHH--HSCC---CCSSCCCHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEECCcC-CCHHHHHHHHHHH--hCCC---CCCCCCCHH
Confidence            5678899999999999999999998764321    133 344444432 2333344433221  0000   000111111


Q ss_pred             hHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHh
Q psy210          755 NRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA  790 (915)
Q Consensus       755 ~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A  790 (915)
                      .      .--.+.+++...|+.++|++|++-++...
T Consensus       116 ~------~~~~l~~~l~~~~~~~vlilDEi~~l~~~  145 (387)
T 2v1u_A          116 E------VYERLVKRLSRLRGIYIIVLDEIDFLPKR  145 (387)
T ss_dssp             H------HHHHHHHHHTTSCSEEEEEEETTTHHHHS
T ss_pred             H------HHHHHHHHHhccCCeEEEEEccHhhhccc
Confidence            1      11123344555688999999999887653

>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=94.97  E-value=0.035  Score=64.51  Aligned_cols=61  Identities=15%  Similarity=-0.036  Sum_probs=45.2

Q ss_pred             cccc-cceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCch
Q psy210          665 ILET-GIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSRE  725 (915)
Q Consensus       665 ~l~T-Gir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~e  725 (915)
                      .+.| |+..+|-++- +-+|+=+.|.|+||+|||+|+.+++.+.+.++..-++|+..-+..++
T Consensus       223 ~i~t~G~~~LD~~lgGl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s~~~  285 (503)
T 1q57_A          223 GLLFSGCTGINDKTLGARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEE  285 (503)
T ss_dssp             CSCCSSCTTHHHHHCCCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSCHHH
T ss_pred             CccccchhhhhHhhcccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCCHHH
Confidence            4678 8888887763 66899999999999999999999999987643333455544443333

>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=94.70  E-value=0.053  Score=59.44  Aligned_cols=98  Identities=19%  Similarity=0.231  Sum_probs=55.8

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCC-c-EEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHK-G-CSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL  757 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~-~-~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~  757 (915)
                      .+++-+.|.|++|+|||+|+..+++....... + ..+++-+.+.. ...+++..+.+.  +...   ......+...  
T Consensus        43 ~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~i~~~--l~~~---~~~~~~~~~~--  114 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQID-TPYRVLADLLES--LDVK---VPFTGLSIAE--  114 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEEHHHHC-SHHHHHHHHTTT--TSCC---CCSSSCCHHH--
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEECCCCC-CHHHHHHHHHHH--hCCC---CCCCCCCHHH--
Confidence            56788999999999999999999987654321 2 34555544322 233445444321  1000   0001111111  


Q ss_pred             HHHHHHHHHHHHHHHCCCcEEEEecchhhHHH
Q psy210          758 RVALTGLSIAEEFRNSGKDVLLFIDNIYRFTL  789 (915)
Q Consensus       758 ~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~  789 (915)
                          .--.+.+++...++.++|++|++..+..
T Consensus       115 ----~~~~l~~~l~~~~~~~vlilDE~~~l~~  142 (386)
T 2qby_A          115 ----LYRRLVKAVRDYGSQVVIVLDEIDAFVK  142 (386)
T ss_dssp             ----HHHHHHHHHHTCCSCEEEEEETHHHHHH
T ss_pred             ----HHHHHHHHHhccCCeEEEEEcChhhhhc
Confidence                1112334555568899999999987654

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.60  E-value=0.081  Score=58.43  Aligned_cols=59  Identities=24%  Similarity=0.191  Sum_probs=46.5

Q ss_pred             ccccccceeeeccc-ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCc
Q psy210          664 NILETGIKVIDLLC-PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR  724 (915)
Q Consensus       664 e~l~TGir~ID~l~-pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~  724 (915)
                      .-+.||+..+|-++ -+-+|+=+.|.|+||+|||+|+.+++.+.+..  +..|...-.|-+.
T Consensus        27 ~gi~TG~~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~--g~~Vl~fSlEms~   86 (338)
T 4a1f_A           27 TGIPTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLSALND--DRGVAVFSLEMSA   86 (338)
T ss_dssp             CSBCCSCHHHHHHHCSBCTTCEEEEEECTTSCHHHHHHHHHHHHHHT--TCEEEEEESSSCH
T ss_pred             CcccCCChHHHHHhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHc--CCeEEEEeCCCCH
Confidence            45899999999876 48899999999999999999999999988763  3334444455543

>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=94.60  E-value=0.054  Score=62.91  Aligned_cols=63  Identities=10%  Similarity=0.054  Sum_probs=48.6

Q ss_pred             ccccc-cceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhcCC-CeEEEEEeeccchhhHH
Q psy210          239 EPLLT-GIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQKNK-NVICIYVCIGQKISSLI  301 (915)
Q Consensus       239 ~~l~T-Gi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~-~~~~V~~~iGer~~ev~  301 (915)
                      ..+.| |+..+|.++- +-+|+=+.|.|++|+|||+++++...+.... +..|+|....+..+++.
T Consensus       222 ~~i~t~G~~~LD~~lgGl~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s~E~s~~~l~  287 (503)
T 1q57_A          222 VGLLFSGCTGINDKTLGARGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAMLEESVEETA  287 (503)
T ss_dssp             TCSCCSSCTTHHHHHCCCCTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEESSSCHHHHH
T ss_pred             CCccccchhhhhHhhcccCCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEeccCCHHHHH
Confidence            36778 9999999874 4459999999999999999998887775433 44567777777665443

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=94.59  E-value=0.068  Score=59.04  Aligned_cols=63  Identities=17%  Similarity=0.269  Sum_probs=48.0

Q ss_pred             ccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHH
Q psy210          239 EPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLI  301 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~  301 (915)
                      .-+.||+..+|.++- +-+|+=+.|.|.+|+|||+++++...+....+..|.|....+..+++.
T Consensus        27 ~gi~TG~~~LD~~~gGl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fSlEms~~ql~   90 (338)
T 4a1f_A           27 TGIPTGFVQLDNYTSGFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFSLEMSAEQLA   90 (338)
T ss_dssp             CSBCCSCHHHHHHHCSBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEESSSCHHHHH
T ss_pred             CcccCCChHHHHHhcCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHH
Confidence            457799999999884 556999999999999999998887666543444566666666655543

>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=94.54  E-value=0.03  Score=59.71  Aligned_cols=47  Identities=21%  Similarity=0.282  Sum_probs=39.4

Q ss_pred             ccccccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          662 NNNILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      ..+.+.||+.-+|.++. +-+|+-++|+|++|+|||||+.+++..+..
T Consensus         9 ~~~~i~tg~~~ld~~lggl~~G~i~~i~G~~GsGKTtl~~~l~~~~~~   56 (279)
T 1nlf_A            9 ILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQIAG   56 (279)
T ss_dssp             HHHHHHSCCCCCCEEETTEETTSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             HHHHhcCCCCChheeECCccCCCEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            45668999988886654 559999999999999999999999987654

>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=94.45  E-value=0.16  Score=59.26  Aligned_cols=58  Identities=26%  Similarity=0.426  Sum_probs=42.2

Q ss_pred             ccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCC
Q psy210          664 NILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERS  723 (915)
Q Consensus       664 e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~  723 (915)
                      +.+.||+.-+|-++  .+-+|+-++|.|++|+|||||+.+++.....+ ..-++|. .+|..
T Consensus       261 ~~l~~g~~~ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~~-G~~vi~~-~~ee~  320 (525)
T 1tf7_A          261 VRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN-KERAILF-AYEES  320 (525)
T ss_dssp             CEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTT-TCCEEEE-ESSSC
T ss_pred             ceeecChHHHHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHhC-CCCEEEE-EEeCC
Confidence            34678876666543  78999999999999999999999999876543 2323443 44443

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=94.39  E-value=0.06  Score=61.77  Aligned_cols=62  Identities=18%  Similarity=0.256  Sum_probs=45.7

Q ss_pred             ccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhcC-CCeEEEEEeeccchhhH
Q psy210          239 EPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQKN-KNVICIYVCIGQKISSL  300 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~~-~~~~~V~~~iGer~~ev  300 (915)
                      .-+.||+..+|.++- +-+|+-+.|.|++|+|||+++++...+... .+..|+|....+..+++
T Consensus       184 ~~i~tG~~~LD~~~gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s~E~s~~~l  247 (454)
T 2r6a_A          184 TGIPTGFTELDRMTSGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFSLEMSAQQL  247 (454)
T ss_dssp             CSBCCSCHHHHHHHSSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEESSSCHHHH
T ss_pred             CCCCCCcHHHHhhcCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEECCCCHHHH
Confidence            467899999999983 456999999999999999998877666432 23335566665555443

>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=94.34  E-value=0.11  Score=57.04  Aligned_cols=92  Identities=20%  Similarity=0.236  Sum_probs=50.7

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTG  763 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a  763 (915)
                      -+.|.|++|+|||+|+..+++..........+++-|... ....++++.+.+.  +...   ......+...      .-
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~~~~~-~~~~~~~~~l~~~--l~~~---~~~~~~~~~~------~~  113 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIY-RNFTAIIGEIARS--LNIP---FPRRGLSRDE------FL  113 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTC-CSHHHHHHHHHHH--TTCC---CCSSCCCHHH------HH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEeCccC-CCHHHHHHHHHHH--hCcc---CCCCCCCHHH------HH
Confidence            799999999999999999988764321123455544433 3334455543221  1000   0001111111      11


Q ss_pred             HHHHHHHHHCCCcEEEEecchhhH
Q psy210          764 LSIAEEFRNSGKDVLLFIDNIYRF  787 (915)
Q Consensus       764 ~~~Ae~f~~~g~~Vl~~~Ds~tr~  787 (915)
                      -.+.+++...++.++|++|++..+
T Consensus       114 ~~l~~~l~~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A          114 ALLVEHLRERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             HHHHHHHhhcCCeEEEEEECcccc
Confidence            123345555688899999988764

>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=94.20  E-value=0.037  Score=54.60  Aligned_cols=29  Identities=28%  Similarity=0.392  Sum_probs=26.2

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+|+-++|+|++|+|||+|+..++....
T Consensus        35 ~~~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           35 PEEGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             GGGCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45799999999999999999999998775

>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=94.16  E-value=0.042  Score=58.55  Aligned_cols=46  Identities=15%  Similarity=0.305  Sum_probs=37.0

Q ss_pred             cccCccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHh
Q psy210          235 ESVNEPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       235 ~~~~~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      .+..+.+.||+..+|.++. +-+|+-++|.|++|+|||||++.....
T Consensus         7 ~~~~~~i~tg~~~ld~~lggl~~G~i~~i~G~~GsGKTtl~~~l~~~   53 (279)
T 1nlf_A            7 INILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQ   53 (279)
T ss_dssp             CCHHHHHHSCCCCCCEEETTEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCHHHHhcCCCCChheeECCccCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            4456678999999998875 225999999999999999997666543

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=93.93  E-value=0.1  Score=59.73  Aligned_cols=62  Identities=24%  Similarity=0.336  Sum_probs=45.4

Q ss_pred             ccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhc-CCCeEEEEEeeccchhhH
Q psy210          239 EPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQK-NKNVICIYVCIGQKISSL  300 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~-~~~~~~V~~~iGer~~ev  300 (915)
                      ..+.||+..+|.++. +-+|+-+.|.|++|+|||+++++...+.. ..+..|+|....+..+++
T Consensus       181 ~~i~tG~~~LD~~lgGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~slE~~~~~l  244 (444)
T 2q6t_A          181 AGVRTGFKELDQLIGTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYSLEMPAAQL  244 (444)
T ss_dssp             --CCCSCHHHHHHHCCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSSCHHHH
T ss_pred             CcccCCCHhhhhhcCCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEECCCCHHHH
Confidence            467899999999983 44699999999999999999988876643 234345676666555443

>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=93.89  E-value=0.13  Score=57.17  Aligned_cols=95  Identities=8%  Similarity=0.076  Sum_probs=54.4

Q ss_pred             cCCeeee--ccCCCCChhhHHHHHHHHHHhc----CCcE-EEEEEecCCCchHHHHHHHhhhc-CccccEEEEEEcCCCC
Q psy210          681 KGGKIGL--FGGAGVGKTVNMMELIRNIAIE----HKGC-SVFIGVGERSREGNDFYHEMKES-NVLDKVSLIYGQMNEP  752 (915)
Q Consensus       681 kGQr~~I--~~~~g~GKt~Ll~~i~~~~~~~----~~~~-~v~~~iGer~~ev~e~~~~~~~~-~~~~~~~vv~~t~d~~  752 (915)
                      .++-+.|  .|++|+|||+|+..+++.....    +.+. ++++-|.+. ....+++..+.+. +.-      ......+
T Consensus        49 ~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~l~~~------~~~~~~~  121 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNA-PNLYTILSLIVRQTGYP------IQVRGAP  121 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGC-CSHHHHHHHHHHHHTCC------CCCTTCC
T ss_pred             CCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEECCCC-CCHHHHHHHHHHHhCCC------CCCCCCC
Confidence            4566777  8999999999999999866431    1123 455655443 3344555554321 100      0000111


Q ss_pred             hHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          753 SGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       753 ~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      ..      ...-.+.+++...++.++|++|++-.+.
T Consensus       122 ~~------~~~~~l~~~l~~~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          122 AL------DILKALVDNLYVENHYLLVILDEFQSML  151 (412)
T ss_dssp             HH------HHHHHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             HH------HHHHHHHHHHHhcCCeEEEEEeCHHHHh
Confidence            11      1122344555556889999999998765

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=93.77  E-value=0.34  Score=53.01  Aligned_cols=45  Identities=16%  Similarity=0.058  Sum_probs=33.4

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCc
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR  724 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~  724 (915)
                      ..+|+.++|+|++|+||||++..++...+..... ++++.++-+..
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~k-Vllid~D~~r~  146 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYK-VLIAAADTFRA  146 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCC-EEEEECCCSCH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCe-EEEEeCCCcch
Confidence            4578899999999999999999999877654333 44455555443

>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=93.42  E-value=0.13  Score=56.41  Aligned_cols=44  Identities=11%  Similarity=0.063  Sum_probs=35.8

Q ss_pred             ccCccccccceeeecccccc--ccceeeeecCCCCChhHHHHHHHHh
Q psy210          236 SVNEPLLTGIKSIDSMIPIG--KGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       236 ~~~~~l~TGi~aiD~l~pig--rGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      .+...+.||+..+|.++ -|  +|.-+.|.|++|+|||+||++...+
T Consensus       101 ~i~~~i~TGi~~LD~lL-GGi~~gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          101 DLTGELVGCSPVVAEFG-GHRYASGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             CSSTTCCSBCCEEEEET-TEEEESEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             chhhccccCcHHHHHHh-CCCCCCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            45566789999999998 33  4777899999999999998776554

>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=93.41  E-value=0.031  Score=55.50  Aligned_cols=30  Identities=27%  Similarity=0.245  Sum_probs=24.8

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.++-+|+.++|+|++|+|||||+..++..
T Consensus         3 m~~i~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            3 MTDDLGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             ---CCTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             ccCCCCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            557889999999999999999999988753

>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=93.07  E-value=0.18  Score=55.95  Aligned_cols=93  Identities=15%  Similarity=0.098  Sum_probs=52.3

Q ss_pred             ccceeee--ecCCCCChhHHHHHHHHhhcC-------CCeEEEEEeeccchhhHHHHHHHHhc-cCCcceEEEEEecCCC
Q psy210          256 KGQRELI--IGDRQTGKTTIAIDTIINQKN-------KNVICIYVCIGQKISSLINVINKLKY-YNCMDYTVVVAATAAD  325 (915)
Q Consensus       256 rGqr~~I--~g~~g~GKt~l~l~~i~~~~~-------~~~~~V~~~iGer~~ev~~~~~~l~~-~~~~~~tvvv~~~a~~  325 (915)
                      .++.+.|  .|++|+|||+| +..+++...       .+..++|+-+.+.. ...++++.+.+ -+...      .....
T Consensus        49 ~~~~~li~i~G~~G~GKT~L-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~l~~~~------~~~~~  120 (412)
T 1w5s_A           49 SDVNMIYGSIGRVGIGKTTL-AKFTVKRVSEAAAKEGLTVKQAYVNAFNAP-NLYTILSLIVRQTGYPI------QVRGA  120 (412)
T ss_dssp             CCEEEEEECTTCCSSSHHHH-HHHHHHHHHHHHHHTTCCEEEEEEEGGGCC-SHHHHHHHHHHHHTCCC------CCTTC
T ss_pred             CCCEEEEeCcCcCCCCHHHH-HHHHHHHHHHHHhccCCceeEEEEECCCCC-CHHHHHHHHHHHhCCCC------CCCCC
Confidence            4566777  89999999999 455555421       25667787765432 33344444321 11100      00011


Q ss_pred             CHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          326 SAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       326 ~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      + ..+     ..-.+.+++...++.++|++||+-.+.
T Consensus       121 ~-~~~-----~~~~l~~~l~~~~~~~llvlDe~~~l~  151 (412)
T 1w5s_A          121 P-ALD-----ILKALVDNLYVENHYLLVILDEFQSML  151 (412)
T ss_dssp             C-HHH-----HHHHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             C-HHH-----HHHHHHHHHHhcCCeEEEEEeCHHHHh
Confidence            1 111     122344556566889999999998764

>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=93.01  E-value=0.17  Score=50.31  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=22.3

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ...+.|.|++|+|||+|+..+++...
T Consensus        38 ~~~~ll~G~~G~GKT~l~~~l~~~~~   63 (226)
T 2chg_A           38 IPHLLFSGPPGTGKTATAIALARDLF   63 (226)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHh
Confidence            34599999999999999999988764

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=92.89  E-value=0.31  Score=56.43  Aligned_cols=36  Identities=28%  Similarity=0.218  Sum_probs=29.6

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC  713 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~  713 (915)
                      .+.+|+-++|+|++|+|||||+..|+.........|
T Consensus       289 ~i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V  324 (503)
T 2yhs_A          289 EGKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSV  324 (503)
T ss_dssp             CSCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCE
T ss_pred             eccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeE
Confidence            467899999999999999999999998766443333

>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=92.76  E-value=0.75  Score=52.52  Aligned_cols=93  Identities=13%  Similarity=0.155  Sum_probs=52.5

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA  760 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~  760 (915)
                      ++..+.+.|++|+||||++..++...+..... ++++.++-......+-+..+.+..   ..-++.......|..-    
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~k-Vllv~~D~~R~aa~eqL~~~~~~~---gvpv~~~~~~~dp~~i----  170 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYK-VGVVCSDTWRPGAYHQLRQLLDRY---HIEVFGNPQEKDAIKL----  170 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCC-EEEEECCCSSTHHHHHHHHHHGGG---TCEEECCTTCCCHHHH----
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCe-EEEEeCCCcchhHHHHHHHHHHhc---CCcEEecCCCCCHHHH----
Confidence            45678999999999999999999988754333 344556654444444444443321   1112222222222221    


Q ss_pred             HHHHHHHHHHHHCCCcEEEEecch
Q psy210          761 LTGLSIAEEFRNSGKDVLLFIDNI  784 (915)
Q Consensus       761 ~~a~~~Ae~f~~~g~~Vl~~~Ds~  784 (915)
                        +-..-++++.+|+||+|+ |.-
T Consensus       171 --~~~al~~a~~~~~DvVII-DTa  191 (443)
T 3dm5_A          171 --AKEGVDYFKSKGVDIIIV-DTA  191 (443)
T ss_dssp             --HHHHHHHHHHTTCSEEEE-ECC
T ss_pred             --HHHHHHHHHhCCCCEEEE-ECC
Confidence              112235566778998765 643

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=92.72  E-value=0.049  Score=55.98  Aligned_cols=30  Identities=20%  Similarity=0.261  Sum_probs=24.0

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+||+|+|||||+..|+...
T Consensus        18 l~i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           18 GSMNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             ----CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eecCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            567799999999999999999999988753

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=92.72  E-value=0.15  Score=49.52  Aligned_cols=28  Identities=32%  Similarity=0.356  Sum_probs=24.4

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+.-+.|.|++|+|||+|+..+++...
T Consensus        41 ~~~~~~ll~G~~G~GKT~l~~~~~~~~~   68 (195)
T 1jbk_A           41 RTKNNPVLIGEPGVGKTAIVEGLAQRII   68 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHH
Confidence            4467799999999999999999998764

>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=0.051  Score=55.16  Aligned_cols=29  Identities=31%  Similarity=0.342  Sum_probs=23.9

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++-+|+-++|+|++|+|||||+..|+.-.
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            78899999999999999999999888654

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=92.68  E-value=0.24  Score=54.23  Aligned_cols=94  Identities=16%  Similarity=0.137  Sum_probs=53.7

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhc-------CCCeEEEEEeeccchhh---HHHHHHHHhccCCcceEEEEEecCC
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQK-------NKNVICIYVCIGQKISS---LINVINKLKYYNCMDYTVVVAATAA  324 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~-------~~~~~~V~~~iGer~~e---v~~~~~~l~~~~~~~~tvvv~~~a~  324 (915)
                      +.+..+.|.|++|+|||++ +..+++..       ..+..++|.-+......   ...+.+.+... .        ....
T Consensus        42 ~~~~~vll~G~~G~GKT~l-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~l~~~l~~~-~--------~~~~  111 (387)
T 2v1u_A           42 EKPSNALLYGLTGTGKTAV-ARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVR-V--------PFTG  111 (387)
T ss_dssp             CCCCCEEECBCTTSSHHHH-HHHHHHHHHHHHHHHTCCEEEEEEETTTSCSHHHHHHHHHHHHSCC-C--------CSSC
T ss_pred             CCCCcEEEECCCCCCHHHH-HHHHHHHHHHHHhccCCCeEEEEEECCcCCCHHHHHHHHHHHhCCC-C--------CCCC
Confidence            5577899999999999999 56666542       22566667765543322   23333334210 0        0001


Q ss_pred             CCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHH
Q psy210          325 DSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWA  364 (915)
Q Consensus       325 ~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A  364 (915)
                      .+.. .     .--.+.+++...+..+++++|++..+...
T Consensus       112 ~~~~-~-----~~~~l~~~l~~~~~~~vlilDEi~~l~~~  145 (387)
T 2v1u_A          112 LSVG-E-----VYERLVKRLSRLRGIYIIVLDEIDFLPKR  145 (387)
T ss_dssp             CCHH-H-----HHHHHHHHHTTSCSEEEEEEETTTHHHHS
T ss_pred             CCHH-H-----HHHHHHHHHhccCCeEEEEEccHhhhccc
Confidence            1111 1     11123345555788999999999988653

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=92.63  E-value=0.06  Score=54.22  Aligned_cols=41  Identities=17%  Similarity=0.096  Sum_probs=24.2

Q ss_pred             ccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          666 LETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       666 l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.++--+.+.+.+..+|+.++|.|++|+|||||+..++...
T Consensus        13 ~~~~~~~~~~~m~~~~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           13 LGTENLYFQSMMTGEPTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             ---------------CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cCchhhHHHhhhcCCCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            45555566777777899999999999999999999998754

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=92.61  E-value=0.057  Score=54.10  Aligned_cols=27  Identities=22%  Similarity=0.267  Sum_probs=23.8

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +-+|+-++|+||+|+|||||+..++..
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCcEEEEECcCCCCHHHHHHHHHhh
Confidence            457999999999999999999998865

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.60  E-value=0.068  Score=61.28  Aligned_cols=46  Identities=13%  Similarity=0.214  Sum_probs=40.6

Q ss_pred             ccccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          664 NILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       664 e~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      ..+.||+..+|-++. +-+|+-+.|.|+||+|||+|+.+++.+.+.+
T Consensus       178 ~gi~TG~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~  224 (444)
T 3bgw_A          178 TGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDN  224 (444)
T ss_dssp             CSBCCSCHHHHHHHSSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHT
T ss_pred             CCcCCCcHHHHhhcCCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHc
Confidence            457899999998774 7799999999999999999999999998764

>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=92.57  E-value=0.16  Score=54.94  Aligned_cols=28  Identities=21%  Similarity=0.185  Sum_probs=24.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      .+.-+.|.|++|+|||+|+..+++....
T Consensus        36 ~~~~lll~G~~GtGKT~la~~i~~~~~~   63 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHLLQAAGNEAKK   63 (324)
T ss_dssp             SCSSEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHHHH
Confidence            4677999999999999999999987654

>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=92.48  E-value=0.1  Score=59.56  Aligned_cols=36  Identities=19%  Similarity=0.370  Sum_probs=28.2

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcCCcE-EEEE
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-SVFI  717 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~-~v~~  717 (915)
                      +.-+.|.|++|+|||+|+..+++.+...+++. ++++
T Consensus       130 ~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v  166 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYI  166 (440)
T ss_dssp             SCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEE
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEe
Confidence            56799999999999999999998776554444 3444

>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=92.40  E-value=0.43  Score=52.37  Aligned_cols=89  Identities=17%  Similarity=0.172  Sum_probs=49.3

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhcC-C-CeEEEEEeeccchhhHHHHHHHHh-ccCCcceEEEEEecCCCCHHHhhhhhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQKN-K-NVICIYVCIGQKISSLINVINKLK-YYNCMDYTVVVAATAADSAAEQYISPY  335 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~~-~-~~~~V~~~iGer~~ev~~~~~~l~-~~~~~~~tvvv~~~a~~~~~~r~~~~~  335 (915)
                      .++|.|++|+|||++ +..+++... . +..++|.-+.... ....+++.+. .-+..      ......+. ..     
T Consensus        46 ~~li~G~~G~GKTtl-~~~l~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~l~~~l~~~------~~~~~~~~-~~-----  111 (389)
T 1fnn_A           46 RATLLGRPGTGKTVT-LRKLWELYKDKTTARFVYINGFIYR-NFTAIIGEIARSLNIP------FPRRGLSR-DE-----  111 (389)
T ss_dssp             EEEEECCTTSSHHHH-HHHHHHHHTTSCCCEEEEEETTTCC-SHHHHHHHHHHHTTCC------CCSSCCCH-HH-----
T ss_pred             eEEEECCCCCCHHHH-HHHHHHHHhhhcCeeEEEEeCccCC-CHHHHHHHHHHHhCcc------CCCCCCCH-HH-----
Confidence            799999999999999 567776532 2 4556677655433 2233333321 11110      00001111 11     


Q ss_pred             hhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          336 TGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       336 ~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      .--.+.+++...+..++|++|++...
T Consensus       112 ~~~~l~~~l~~~~~~~vlilDE~~~l  137 (389)
T 1fnn_A          112 FLALLVEHLRERDLYMFLVLDDAFNL  137 (389)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEETGGGS
T ss_pred             HHHHHHHHHhhcCCeEEEEEECcccc
Confidence            11123345556688899999998876

>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=92.33  E-value=0.4  Score=48.09  Aligned_cols=28  Identities=29%  Similarity=0.249  Sum_probs=25.5

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -+|+-+.|.|++|+|||||+..++....
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4689999999999999999999998765

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=92.33  E-value=0.16  Score=59.76  Aligned_cols=98  Identities=18%  Similarity=0.253  Sum_probs=52.1

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH---HhcCCcEEEEEEecCCCchHHHHHHHhhhc-CccccEEEEEEcCCCChHhH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI---AIEHKGCSVFIGVGERSREGNDFYHEMKES-NVLDKVSLIYGQMNEPSGNR  756 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~---~~~~~~~~v~~~iGer~~ev~e~~~~~~~~-~~~~~~~vv~~t~d~~~~~r  756 (915)
                      ..+-++|.|++|+|||+|+.++++..   ....++.+.++-+++....  ++...+.+- ..+...   ....+.++.. 
T Consensus       146 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~~~~~~~~--~~~~~l~~l~~~l~~~---~~~~~~~~~~-  219 (591)
T 1z6t_A          146 EPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKS--GLLMKLQNLCTRLDQD---ESFSQRLPLN-  219 (591)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEEEESCCHH--HHHHHHHHHHHHHCSS---CCSCSSCCCS-
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEECCCCchH--HHHHHHHHHHHHhccc---cccccCCCCC-
Confidence            45678999999999999999988642   2223455677767665322  233322210 000000   0000111110 


Q ss_pred             HHHHHHHHHHHHHHHHCCCcEEEEecchhh
Q psy210          757 LRVALTGLSIAEEFRNSGKDVLLFIDNIYR  786 (915)
Q Consensus       757 ~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr  786 (915)
                      .  ....-.+.+.+.+.++.+|||+||+..
T Consensus       220 ~--~~~~~~l~~~l~~~~~~~LLVLDdv~~  247 (591)
T 1z6t_A          220 I--EEAKDRLRILMLRKHPRSLLILDDVWD  247 (591)
T ss_dssp             H--HHHHHHHHHHHHHTCTTCEEEEEEECC
T ss_pred             H--HHHHHHHHHHHccCCCCeEEEEeCCCC
Confidence            0  011223445566667899999999953

>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=92.31  E-value=0.1  Score=61.32  Aligned_cols=52  Identities=17%  Similarity=0.208  Sum_probs=36.6

Q ss_pred             CeeeeccCCCCChhhHHHHHHH---HHHhcCCcEEEEEEecCCC-chHHHHHHHhh
Q psy210          683 GKIGLFGGAGVGKTVNMMELIR---NIAIEHKGCSVFIGVGERS-REGNDFYHEMK  734 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~---~~~~~~~~~~v~~~iGer~-~ev~e~~~~~~  734 (915)
                      .-++|.|..|+|||+|+..+++   .....+-+.++|+-+.+.. ..+.++.+.+.
T Consensus       153 ~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~vs~~~~~~~~~~~~~il  208 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDIL  208 (549)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEEECCCCCCCHHHHHHHHH
Confidence            5689999999999999999986   2223445788888777654 24455555543

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=92.29  E-value=0.07  Score=61.17  Aligned_cols=64  Identities=17%  Similarity=0.175  Sum_probs=49.1

Q ss_pred             Cccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHH
Q psy210          238 NEPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLI  301 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~  301 (915)
                      ..-+.||+..+|.++. +-+|+-+.|.|.+|+|||+++++...+....+..|+|....+..+++.
T Consensus       177 ~~gi~TG~~~LD~~lgGl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fSlEms~~ql~  241 (444)
T 3bgw_A          177 ITGVPSGFTELDRMTYGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHSLEMGKKENI  241 (444)
T ss_dssp             CCSBCCSCHHHHHHHSSBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEECSSSCTTHHH
T ss_pred             CCCcCCCcHHHHhhcCCCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEECCCCHHHHH
Confidence            3467899999999985 446999999999999999999888776543355566776666655444

>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=92.12  E-value=0.52  Score=49.57  Aligned_cols=25  Identities=20%  Similarity=0.066  Sum_probs=21.7

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ..-++|.|++|||||+|+..+++..
T Consensus        64 ~~~vLl~G~~GtGKT~la~~ia~~~   88 (272)
T 1d2n_A           64 LVSVLLEGPPHSGKTALAAKIAEES   88 (272)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHh
Confidence            4568999999999999999998864

>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=92.07  E-value=0.06  Score=56.23  Aligned_cols=34  Identities=15%  Similarity=0.219  Sum_probs=28.3

Q ss_pred             eee-cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          672 VID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       672 ~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +++ .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        20 ~L~~isl~i~~Ge~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           20 ALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eEEeeeEEEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            443 3468899999999999999999999887753

>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=92.06  E-value=0.18  Score=55.22  Aligned_cols=95  Identities=20%  Similarity=0.256  Sum_probs=52.9

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhcC---C-CeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHh
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQKN---K-NVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQ  330 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~~---~-~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r  330 (915)
                      ..++-++|.|++|+|||+| +..+++...   . +..++|.-+.... ....++..+.+.  +...   ......+.. .
T Consensus        43 ~~~~~vli~G~~G~GKTtl-~~~l~~~~~~~~~~~~~~~~i~~~~~~-~~~~~~~~i~~~--l~~~---~~~~~~~~~-~  114 (386)
T 2qby_A           43 EKPNNIFIYGLTGTGKTAV-VKFVLSKLHKKFLGKFKHVYINTRQID-TPYRVLADLLES--LDVK---VPFTGLSIA-E  114 (386)
T ss_dssp             CCCCCEEEEECTTSSHHHH-HHHHHHHHHHHTCSSCEEEEEEHHHHC-SHHHHHHHHTTT--TSCC---CCSSSCCHH-H
T ss_pred             CCCCeEEEECCCCCCHHHH-HHHHHHHHHHHhcCCceEEEEECCCCC-CHHHHHHHHHHH--hCCC---CCCCCCCHH-H
Confidence            4578899999999999999 566666421   1 4556677665433 333444443221  1000   000001111 1


Q ss_pred             hhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          331 YISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       331 ~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                           .--.+.+++...+..++|++|++....
T Consensus       115 -----~~~~l~~~l~~~~~~~vlilDE~~~l~  141 (386)
T 2qby_A          115 -----LYRRLVKAVRDYGSQVVIVLDEIDAFV  141 (386)
T ss_dssp             -----HHHHHHHHHHTCCSCEEEEEETHHHHH
T ss_pred             -----HHHHHHHHHhccCCeEEEEEcChhhhh
Confidence                 111233455566779999999998775

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=91.89  E-value=0.55  Score=45.35  Aligned_cols=29  Identities=31%  Similarity=0.302  Sum_probs=24.5

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      ..+.-+.|.|++|+|||+|+..+++....
T Consensus        41 ~~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           41 RTKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             SSSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            44667899999999999999999987643

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=91.85  E-value=0.072  Score=54.08  Aligned_cols=29  Identities=21%  Similarity=0.210  Sum_probs=26.0

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ..+|+.++|+|++|+|||||+..|+....
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            46899999999999999999999988664

>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=91.84  E-value=0.063  Score=58.50  Aligned_cols=33  Identities=21%  Similarity=0.210  Sum_probs=29.3

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.-+.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus       118 ~vsl~i~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          118 LWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             HHHHTCTTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cceEEecCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            344678999999999999999999999998866

>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=91.84  E-value=0.066  Score=55.99  Aligned_cols=32  Identities=19%  Similarity=0.440  Sum_probs=27.5

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        24 vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           24 ITFSIPEGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             eEEEECCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            34678899999999999999999998887543

>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=91.81  E-value=1  Score=51.29  Aligned_cols=39  Identities=21%  Similarity=0.049  Sum_probs=29.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEec
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVG  720 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iG  720 (915)
                      ++..+.++|++|+||||++..++...+.....+ .++.++
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kV-llv~~D  134 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKV-GLVAAD  134 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCE-EEEEEC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeE-EEEecC
Confidence            467789999999999999999999876543333 344444

>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=91.78  E-value=0.089  Score=56.36  Aligned_cols=41  Identities=20%  Similarity=0.279  Sum_probs=32.5

Q ss_pred             cccc-cceeeeccc-cccccceeeeecCCCCChhHHHHHHHHh
Q psy210          240 PLLT-GIKSIDSMI-PIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       240 ~l~T-Gi~aiD~l~-pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      -+.| |+.++|.++ .+-+|+-++|.|++|+|||||+......
T Consensus        16 ~i~t~g~~~Ld~i~~~l~~G~~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           16 GLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             CBCCCSCTTHHHHHCSBCTTCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcccCCHHHHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4668 998888776 4567999999999999999996544333

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=91.67  E-value=0.78  Score=49.53  Aligned_cols=49  Identities=18%  Similarity=0.040  Sum_probs=34.2

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFY  730 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~  730 (915)
                      +|..+++.|++|+||||++..++...+..... +.++..+-+.....+.+
T Consensus        97 ~~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~-v~l~~~D~~r~~a~~ql  145 (297)
T 1j8m_F           97 IPYVIMLVGVQGTGKTTTAGKLAYFYKKKGFK-VGLVGADVYRPAALEQL  145 (297)
T ss_dssp             SSEEEEEECSSCSSTTHHHHHHHHHHHHTTCC-EEEEECCCSSSHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCe-EEEEecCCCCHHHHHHH
Confidence            47888999999999999999999887654333 34455554444444333

>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=91.67  E-value=0.069  Score=56.26  Aligned_cols=32  Identities=25%  Similarity=0.389  Sum_probs=27.5

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        27 ~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           27 NINLSIKQGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            34467889999999999999999999887754

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=91.64  E-value=0.065  Score=55.54  Aligned_cols=31  Identities=23%  Similarity=0.324  Sum_probs=26.8

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+-
T Consensus        22 ~vsl~i~~Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           22 GISLSVKKGEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             EEEEEEETTCEEEEEECTTSCHHHHHHHHTT
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhc
Confidence            3446788999999999999999999988764

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=91.64  E-value=0.81  Score=50.17  Aligned_cols=41  Identities=22%  Similarity=0.139  Sum_probs=31.4

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE  721 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe  721 (915)
                      .+|+-++|+|++|+|||||+..++.........+ .+....-
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V-~l~g~D~  167 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSV-VIAASDT  167 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCE-EEEEECC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEE-EEEeecc
Confidence            5799999999999999999999998776543333 4444443

>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=91.58  E-value=0.084  Score=51.75  Aligned_cols=30  Identities=27%  Similarity=0.225  Sum_probs=27.3

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|.|+.|+|||||+..|+...
T Consensus        28 l~i~~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           28 LHTEKAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             HCCSSCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            467899999999999999999999999876

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=91.51  E-value=0.2  Score=57.42  Aligned_cols=24  Identities=29%  Similarity=0.354  Sum_probs=21.3

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .-+.|.|++|||||+|+..|++..
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~~   74 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARYA   74 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHh
Confidence            458999999999999999888765

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=91.50  E-value=0.72  Score=50.07  Aligned_cols=44  Identities=23%  Similarity=0.107  Sum_probs=32.5

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCC
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERS  723 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~  723 (915)
                      ..+|+-++|+|++|+||||++..++...+.+... +.++.++-+.
T Consensus       101 ~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~k-V~lv~~D~~r  144 (306)
T 1vma_A          101 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKS-VVLAAADTFR  144 (306)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCC-EEEEEECTTC
T ss_pred             CCCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCE-EEEEcccccc
Confidence            3467889999999999999999999887654333 4445555443

>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=91.39  E-value=0.09  Score=61.46  Aligned_cols=44  Identities=23%  Similarity=0.287  Sum_probs=36.7

Q ss_pred             ccccccceeeeccc--ccccCCeeeeccCCCCChhhHHHHHH-HHHH
Q psy210          664 NILETGIKVIDLLC--PFLKGGKIGLFGGAGVGKTVNMMELI-RNIA  707 (915)
Q Consensus       664 e~l~TGir~ID~l~--pigkGQr~~I~~~~g~GKt~Ll~~i~-~~~~  707 (915)
                      +.+.||+.++|.++  .+-+|+-.+|.|++|+|||||+..++ ..+.
T Consensus        19 ~~~~~g~~~Ld~i~~G~i~~Ge~~~l~G~nGsGKSTL~~~~ll~Gl~   65 (525)
T 1tf7_A           19 AKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGII   65 (525)
T ss_dssp             CEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             ccccCCchhHHHhcCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            45788999998664  68899999999999999999999964 4444

>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=91.38  E-value=0.075  Score=56.64  Aligned_cols=35  Identities=20%  Similarity=0.284  Sum_probs=29.1

Q ss_pred             eeeec-ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          671 KVIDL-LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       671 r~ID~-l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .+++. =+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        25 ~vL~~vsl~i~~Ge~~~liG~nGsGKSTLl~~l~Gl   60 (266)
T 4g1u_C           25 ALINDVSLHIASGEMVAIIGPNGAGKSTLLRLLTGY   60 (266)
T ss_dssp             EEEEEEEEEEETTCEEEEECCTTSCHHHHHHHHTSS
T ss_pred             eEEEeeEEEEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            44543 478899999999999999999999887753

>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=91.37  E-value=0.076  Score=56.92  Aligned_cols=32  Identities=22%  Similarity=0.382  Sum_probs=27.5

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        26 ~isl~i~~Ge~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           26 GINMNIKRGEVTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEEEETTSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHcC
Confidence            33468899999999999999999999887753

>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=91.36  E-value=0.091  Score=55.97  Aligned_cols=30  Identities=23%  Similarity=0.254  Sum_probs=26.6

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+-
T Consensus        39 vsl~i~~Ge~~~l~G~NGsGKSTLlk~l~G   68 (267)
T 2zu0_C           39 LSLDVHPGEVHAIMGPNGSGKSTLSATLAG   68 (267)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            346789999999999999999999988775

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=91.34  E-value=0.097  Score=52.34  Aligned_cols=29  Identities=31%  Similarity=0.258  Sum_probs=24.3

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.+|..++|.|++|+|||||+..++...
T Consensus         2 ~i~~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            2 DNEKGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             --CCCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            35689999999999999999999887643

>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=91.32  E-value=0.075  Score=54.81  Aligned_cols=30  Identities=23%  Similarity=0.383  Sum_probs=26.3

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        29 sl~i~~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           29 TMTIEKGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EEEEETTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            357889999999999999999999887653

>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=91.30  E-value=0.092  Score=55.31  Aligned_cols=30  Identities=27%  Similarity=0.211  Sum_probs=26.7

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+-
T Consensus        22 vsl~i~~Ge~~~l~G~nGsGKSTLlk~l~G   51 (250)
T 2d2e_A           22 VNLVVPKGEVHALMGPNGAGKSTLGKILAG   51 (250)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            346789999999999999999999988775

>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=91.29  E-value=0.082  Score=55.92  Aligned_cols=31  Identities=19%  Similarity=0.198  Sum_probs=27.1

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        26 vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl   56 (257)
T 1g6h_A           26 VSISVNKGDVTLIIGPNGSGKSTLINVITGF   56 (257)
T ss_dssp             ECCEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eEEEEeCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4467899999999999999999999888753

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=91.28  E-value=0.081  Score=56.22  Aligned_cols=31  Identities=19%  Similarity=0.218  Sum_probs=27.0

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        25 vsl~i~~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           25 VSLQARAGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4467889999999999999999999887753

>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=91.27  E-value=0.087  Score=58.68  Aligned_cols=35  Identities=26%  Similarity=0.322  Sum_probs=29.6

Q ss_pred             eee-ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          671 KVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       671 r~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .++ |.=+.+.+|+.++|+||+|+|||||+..|+--
T Consensus        18 ~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           18 PVLNDISLSLDPGEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEEEEEECTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEeeEEEEcCCCEEEEECCCCchHHHHHHHHhcC
Confidence            445 45568999999999999999999999988753

>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=91.22  E-value=0.083  Score=56.00  Aligned_cols=31  Identities=26%  Similarity=0.383  Sum_probs=26.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+.+|+.++|+|++|+|||||+..|+--
T Consensus        34 vsl~i~~Gei~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           34 ISFEIEEGEIFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCcEEEEECCCCCCHHHHHHHHhcC
Confidence            3467889999999999999999999887743

>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=91.21  E-value=0.083  Score=56.24  Aligned_cols=32  Identities=19%  Similarity=0.205  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        42 ~vsl~i~~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           42 GINVHIREGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeEEEEcCCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            34467889999999999999999999887753

>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=91.16  E-value=0.083  Score=54.89  Aligned_cols=33  Identities=24%  Similarity=0.466  Sum_probs=27.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        26 ~vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           26 DINFKIERGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            344578899999999999999999998887543

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=91.10  E-value=0.092  Score=53.04  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=22.2

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|+.++|+||+|+|||||+..+....
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            68999999999999999999998754

>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=0.087  Score=55.16  Aligned_cols=31  Identities=23%  Similarity=0.360  Sum_probs=26.8

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        25 vsl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           25 IDLKVPRGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3457889999999999999999999887753

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=91.04  E-value=0.088  Score=56.22  Aligned_cols=32  Identities=25%  Similarity=0.271  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        37 ~vsl~i~~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           37 GLTFTLYPGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eeEEEECCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            33467889999999999999999999887754

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=91.03  E-value=0.085  Score=56.63  Aligned_cols=32  Identities=31%  Similarity=0.321  Sum_probs=27.5

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        39 ~isl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           39 KISWQIAKGDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             EEEEEEETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeeEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34467889999999999999999999887753

>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=91.03  E-value=0.082  Score=55.43  Aligned_cols=31  Identities=23%  Similarity=0.174  Sum_probs=27.0

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        21 vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           21 ISFEAQPNSIIAFAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EEEEECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3357889999999999999999999988754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=91.01  E-value=0.09  Score=55.79  Aligned_cols=31  Identities=26%  Similarity=0.249  Sum_probs=27.0

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        39 vsl~i~~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           39 INFFIPSGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eEEEECCCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3457889999999999999999999888754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=90.95  E-value=0.17  Score=55.76  Aligned_cols=41  Identities=20%  Similarity=0.241  Sum_probs=32.2

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      +.+.+|+.++|+|++|+|||||+..++.........+.|..
T Consensus        50 ~~~~~g~~v~i~G~~GaGKSTLl~~l~g~~~~~~g~v~i~~   90 (337)
T 2qm8_A           50 PQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLA   90 (337)
T ss_dssp             GGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cccCCCeEEEEECCCCCCHHHHHHHHHHhhhhCCCEEEEEE
Confidence            46889999999999999999999999876654334454443

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=90.95  E-value=0.11  Score=51.43  Aligned_cols=26  Identities=27%  Similarity=0.327  Sum_probs=23.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|+-++|+||+|+|||||+..++...
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            58899999999999999999988753

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=90.94  E-value=0.11  Score=55.02  Aligned_cols=36  Identities=31%  Similarity=0.400  Sum_probs=30.3

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +++.++ +-+|+.++|+|++|+|||||+..++.....
T Consensus        16 vl~~i~-i~~g~~v~i~Gp~GsGKSTll~~l~g~~~~   51 (261)
T 2eyu_A           16 KVLELC-HRKMGLILVTGPTGSGKSTTIASMIDYINQ   51 (261)
T ss_dssp             HHHHGG-GCSSEEEEEECSTTCSHHHHHHHHHHHHHH
T ss_pred             HHHHHh-hCCCCEEEEECCCCccHHHHHHHHHHhCCC
Confidence            445555 889999999999999999999999886643

>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=0.09  Score=55.47  Aligned_cols=32  Identities=22%  Similarity=0.277  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        18 ~vsl~i~~Ge~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           18 PLSGEVRAGEILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEEEETTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeEEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            34467889999999999999999999887653

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=90.86  E-value=0.088  Score=54.21  Aligned_cols=28  Identities=25%  Similarity=0.211  Sum_probs=20.1

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHH-HH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELI-RN  705 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~-~~  705 (915)
                      .+-+|+-++|+||+|+|||||+..++ ..
T Consensus        23 ~v~~G~ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           23 LKSVGVILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             CEECCCEEEEECSCC----CHHHHHHC--
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999999988 54

>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=90.83  E-value=0.11  Score=58.40  Aligned_cols=35  Identities=20%  Similarity=0.240  Sum_probs=29.3

Q ss_pred             eee-ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          671 KVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       671 r~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .++ |.=+.+.+|+.++|+|++|+|||||+..|+--
T Consensus        17 ~~L~~vsl~i~~Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           17 VVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEeeeEEEECCCCEEEEEcCCCchHHHHHHHHHcC
Confidence            444 34468899999999999999999999988753

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=90.78  E-value=0.11  Score=57.87  Aligned_cols=31  Identities=26%  Similarity=0.425  Sum_probs=27.5

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-
T Consensus        33 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaG   63 (355)
T 1z47_A           33 GVSFQIREGEMVGLLGPSGSGKTTILRLIAG   63 (355)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             eeEEEECCCCEEEEECCCCCcHHHHHHHHhC
Confidence            4556788999999999999999999998875

>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=90.73  E-value=0.11  Score=57.83  Aligned_cols=31  Identities=26%  Similarity=0.435  Sum_probs=27.7

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaG   51 (359)
T 2yyz_A           21 GVSFEVKDGEFVALLGPSGCGKTTTLLMLAG   51 (359)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             eeEEEEcCCCEEEEEcCCCchHHHHHHHHHC
Confidence            4556788999999999999999999998875

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=90.72  E-value=0.096  Score=55.36  Aligned_cols=31  Identities=26%  Similarity=0.363  Sum_probs=26.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        24 isl~i~~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           24 LNFDLNKGDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             EEEEEETTCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             EEEEECCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3367889999999999999999999887753

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=90.69  E-value=0.1  Score=55.60  Aligned_cols=31  Identities=16%  Similarity=0.154  Sum_probs=27.0

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+--
T Consensus        26 vsl~i~~Ge~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           26 VSLVINEGECLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3467899999999999999999999887753

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=90.65  E-value=0.69  Score=50.55  Aligned_cols=90  Identities=8%  Similarity=0.007  Sum_probs=54.6

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcC-----CcEE-EEEEecCCC----chHHHHHHHhhhcCccccEEEEEEc
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH-----KGCS-VFIGVGERS----REGNDFYHEMKESNVLDKVSLIYGQ  748 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~-----~~~~-v~~~iGer~----~ev~e~~~~~~~~~~~~~~~vv~~t  748 (915)
                      -+++..+.|.|+||||||+++..+++.+....     +++. |++- |..-    .....+++.+..+.   .      +
T Consensus        42 ~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~IN-c~~~~t~~~~~~~I~~~L~g~~---~------~  111 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHID-ALELAGMDALYEKIWFAISKEN---L------C  111 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEE-TTCCC--HHHHHHHHHHHSCCC-----------
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEe-ccccCCHHHHHHHHHHHhcCCC---C------C
Confidence            46788899999999999999999999775322     1333 3343 3222    23444555553221   0      1


Q ss_pred             CCCChHhHHHHHHHHHHHHHHHHH----CCCcEEEEecchhhHH
Q psy210          749 MNEPSGNRLRVALTGLSIAEEFRN----SGKDVLLFIDNIYRFT  788 (915)
Q Consensus       749 ~d~~~~~r~~~~~~a~~~Ae~f~~----~g~~Vl~~~Ds~tr~a  788 (915)
                      ...+          .-.+-++|..    +++.+++++|.+-++.
T Consensus       112 ~~~~----------~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          112 GDIS----------LEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             CCCC----------HHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             chHH----------HHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            1111          1223455653    4778999999998876

>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=90.64  E-value=0.11  Score=58.04  Aligned_cols=31  Identities=26%  Similarity=0.357  Sum_probs=27.6

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-
T Consensus        29 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaG   59 (372)
T 1v43_A           29 KLNLTIKDGEFLVLLGPSGCGKTTTLRMIAG   59 (372)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             eeEEEECCCCEEEEECCCCChHHHHHHHHHc
Confidence            4456889999999999999999999998875

>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=90.64  E-value=0.17  Score=50.01  Aligned_cols=34  Identities=26%  Similarity=0.287  Sum_probs=25.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhcCCC
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKN  285 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~  285 (915)
                      |+++-+|+.++|+|++|+||||+ +..++.....+
T Consensus         3 m~~i~~g~~i~l~G~~GsGKSTl-~~~La~~~~~g   36 (191)
T 1zp6_A            3 MTDDLGGNILLLSGHPGSGKSTI-AEALANLPGVP   36 (191)
T ss_dssp             ---CCTTEEEEEEECTTSCHHHH-HHHHHTCSSSC
T ss_pred             ccCCCCCeEEEEECCCCCCHHHH-HHHHHhccCCC
Confidence            56788899999999999999999 67777663333

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=90.63  E-value=0.11  Score=57.80  Aligned_cols=32  Identities=19%  Similarity=0.330  Sum_probs=27.9

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+--
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           21 NINLKIKDGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eeEEEECCCCEEEEECCCCchHHHHHHHHhcC
Confidence            44567889999999999999999999988753

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=90.63  E-value=0.23  Score=47.93  Aligned_cols=28  Identities=21%  Similarity=0.319  Sum_probs=25.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +|+-++|+|++|+|||+|+..++.....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            8999999999999999999999987653

>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=90.53  E-value=0.12  Score=52.04  Aligned_cols=85  Identities=15%  Similarity=0.130  Sum_probs=46.4

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccc-hhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhh
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQK-ISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGC  338 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer-~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~  338 (915)
                      ++|.|++|+|||++|.+.. .. .  ..++|..-++. ..|..+-+...+.....                ++.+.....
T Consensus         2 ilV~Gg~~SGKS~~A~~la-~~-~--~~~~yiaT~~~~d~e~~~rI~~h~~~R~~----------------~w~tiE~p~   61 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALI-GD-A--PQVLYIATSQILDDEMAARIQHHKDGRPA----------------HWRTAECWR   61 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHH-CS-C--SSEEEEECCCC------CHHHHHHHTSCT----------------TEEEECCSS
T ss_pred             EEEECCCCCcHHHHHHHHH-hc-C--CCeEEEecCCCCCHHHHHHHHHHHhcCCC----------------CcEEEEcHh
Confidence            5799999999999975544 33 2  23578888775 33343333333222111                122222223


Q ss_pred             hhHHHHHhc--CCcEEEEeccchhHHHHH
Q psy210          339 TIGEYFRDL--GQDCLIIYDDLTKHAWAY  365 (915)
Q Consensus       339 tiAEy~r~~--g~~Vlv~~Ddltr~a~A~  365 (915)
                      .+++.+.+.  ..+ +|++|++|-|...+
T Consensus        62 ~l~~~l~~~~~~~~-~VLvDclt~wl~n~   89 (180)
T 1c9k_A           62 HLDTLITADLAPDD-AILLECITTMVTNL   89 (180)
T ss_dssp             CGGGTSCTTSCTTC-EEEEECHHHHHHHH
T ss_pred             hHHHHHHhhcccCC-eEEEcCHHHHHHHH
Confidence            344444332  124 79999999998654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=90.45  E-value=0.14  Score=51.39  Aligned_cols=29  Identities=28%  Similarity=0.147  Sum_probs=24.3

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.+|..+.|.|++|+||||++..++...
T Consensus        21 ~~~~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           21 QSNAMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             ---CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             ecCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            45689999999999999999999999765

>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=90.40  E-value=0.12  Score=57.84  Aligned_cols=32  Identities=22%  Similarity=0.304  Sum_probs=28.0

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+--
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           21 EMSLEVKDGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             eeEEEEcCCCEEEEECCCCcHHHHHHHHHHcC
Confidence            45568899999999999999999999988753

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=90.39  E-value=0.12  Score=53.99  Aligned_cols=30  Identities=20%  Similarity=0.319  Sum_probs=24.6

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+.+|..++|.||+|+|||||+..++...
T Consensus        20 l~i~~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           20 FQSMRPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             ---CCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            578899999999999999999999887643

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=90.38  E-value=0.62  Score=51.01  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=23.5

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |.-++|.|++|+|||+|+..+++.+.
T Consensus        70 ~~~vLl~GppGtGKT~la~~la~~l~   95 (368)
T 3uk6_A           70 GRAVLIAGQPGTGKTAIAMGMAQALG   95 (368)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            56899999999999999999998765

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=90.34  E-value=0.12  Score=53.08  Aligned_cols=34  Identities=26%  Similarity=0.191  Sum_probs=27.4

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC  713 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~  713 (915)
                      +-+|+.++|+|++|+|||||+..|+.- .-....+
T Consensus        19 i~~Ge~~~liG~nGsGKSTLl~~l~Gl-~p~~G~I   52 (208)
T 3b85_A           19 IDTNTIVFGLGPAGSGKTYLAMAKAVQ-ALQSKQV   52 (208)
T ss_dssp             HHHCSEEEEECCTTSSTTHHHHHHHHH-HHHTTSC
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhcC-CCcCCee
Confidence            478999999999999999999988865 4333333

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=90.30  E-value=0.1  Score=51.28  Aligned_cols=25  Identities=20%  Similarity=0.244  Sum_probs=22.9

Q ss_pred             cccccCCeeeeccCCCCChhhHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMME  701 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~  701 (915)
                      +.+.+|+-++|+|++|+|||||+..
T Consensus         4 l~i~~gei~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A            4 LTIPELSLVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEESSEEEEEECCTTSCHHHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHHHHH
Confidence            4678999999999999999999994

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=90.29  E-value=0.58  Score=45.14  Aligned_cols=26  Identities=23%  Similarity=0.479  Sum_probs=20.1

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhh
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+.-+.|.|++|+|||+++ ..+++.
T Consensus        41 ~~~~~~ll~G~~G~GKT~l~-~~~~~~   66 (195)
T 1jbk_A           41 RTKNNPVLIGEPGVGKTAIV-EGLAQR   66 (195)
T ss_dssp             SSSCEEEEECCTTSCHHHHH-HHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHH-HHHHHH
Confidence            34567899999999999994 555554

>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=90.19  E-value=0.12  Score=58.12  Aligned_cols=30  Identities=27%  Similarity=0.596  Sum_probs=26.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .=+.+-+|+.++|+|++|+|||||+.+|+.
T Consensus        40 vsl~i~~Ge~~~llGpsGsGKSTLLr~iaG   69 (390)
T 3gd7_A           40 ISFSISPGQRVGLLGRTGSGKSTLLSAFLR   69 (390)
T ss_dssp             EEEEECTTCEEEEEESTTSSHHHHHHHHHT
T ss_pred             eeEEEcCCCEEEEECCCCChHHHHHHHHhC
Confidence            335899999999999999999999998875

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=90.14  E-value=0.15  Score=51.43  Aligned_cols=26  Identities=27%  Similarity=0.314  Sum_probs=24.1

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |++++|+|++|+|||||+..++....
T Consensus         1 G~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHhhcc
Confidence            78999999999999999999998765

>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=90.08  E-value=0.086  Score=53.62  Aligned_cols=33  Identities=15%  Similarity=0.171  Sum_probs=24.0

Q ss_pred             eeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          248 IDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       248 iD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +..+.....++.+.|.|++|+|||+++ ..+++.
T Consensus        43 l~~~~~~~~~~~~ll~G~~G~GKT~la-~~l~~~   75 (242)
T 3bos_A           43 LKSAASGDGVQAIYLWGPVKSGRTHLI-HAACAR   75 (242)
T ss_dssp             HHHHHHTCSCSEEEEECSTTSSHHHHH-HHHHHH
T ss_pred             HHHHHhCCCCCeEEEECCCCCCHHHHH-HHHHHH
Confidence            333333346889999999999999994 566554

>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=90.02  E-value=0.1  Score=57.90  Aligned_cols=31  Identities=23%  Similarity=0.302  Sum_probs=27.4

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+.+|+.++|+|++|+|||||+..|+-
T Consensus        18 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaG   48 (348)
T 3d31_A           18 NLSLKVESGEYFVILGPTGAGKTLFLELIAG   48 (348)
T ss_dssp             EEEEEECTTCEEEEECCCTHHHHHHHHHHHT
T ss_pred             eeEEEEcCCCEEEEECCCCccHHHHHHHHHc
Confidence            4446789999999999999999999998875

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=90.00  E-value=0.24  Score=53.73  Aligned_cols=36  Identities=28%  Similarity=0.297  Sum_probs=29.4

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcE
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC  713 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~  713 (915)
                      .+.+|+-++|+|++|+|||||+..++.........+
T Consensus        96 ~~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V  131 (302)
T 3b9q_A           96 GFRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKV  131 (302)
T ss_dssp             CSSSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCE
T ss_pred             ccCCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeE
Confidence            366899999999999999999999998776543333

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=89.94  E-value=0.13  Score=51.89  Aligned_cols=28  Identities=36%  Similarity=0.398  Sum_probs=23.8

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .-+|..++|.|++|+|||||+..++...
T Consensus         3 ~~~~~~i~i~G~~GsGKSTl~~~l~~~~   30 (211)
T 3asz_A            3 APKPFVIGIAGGTASGKTTLAQALARTL   30 (211)
T ss_dssp             --CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999999988754

>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=89.86  E-value=0.26  Score=53.47  Aligned_cols=31  Identities=32%  Similarity=0.288  Sum_probs=27.0

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      -++|+.++|+|++|+|||||+..++......
T Consensus        99 ~~~g~vi~lvG~nGsGKTTll~~Lagll~~~  129 (304)
T 1rj9_A           99 EPKGRVVLVVGVNGVGKTTTIAKLGRYYQNL  129 (304)
T ss_dssp             CCSSSEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            3578999999999999999999999877644

>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=89.77  E-value=0.15  Score=56.91  Aligned_cols=35  Identities=20%  Similarity=0.336  Sum_probs=29.3

Q ss_pred             ceee-ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          670 IKVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       670 ir~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +.++ |.=+.+.+|+.++|+|++|+|||||+..|+.
T Consensus        41 ~~aL~~vsl~i~~Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           41 IQALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             EEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             eEEEEeeEEEEcCCCEEEEEcCCCchHHHHHHHHhc
Confidence            4455 4447899999999999999999999987765

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=89.63  E-value=0.49  Score=53.77  Aligned_cols=55  Identities=16%  Similarity=0.272  Sum_probs=35.2

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE---------EecCCCchHHHHHHHhhhcCccccEEEEEE
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI---------GVGERSREGNDFYHEMKESNVLDKVSLIYG  747 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~---------~iGer~~ev~e~~~~~~~~~~~~~~~vv~~  747 (915)
                      ++++||||||||.|+..+|..+.     +++|.         .+||..+-++++.+...+   ..-++++.-
T Consensus       219 vLLyGPPGTGKTlLAkAiA~e~~-----~~fi~v~~s~l~sk~vGesek~ir~lF~~Ar~---~aP~IIfiD  282 (437)
T 4b4t_I          219 VILYGAPGTGKTLLAKAVANQTS-----ATFLRIVGSELIQKYLGDGPRLCRQIFKVAGE---NAPSIVFID  282 (437)
T ss_dssp             EEEESSTTTTHHHHHHHHHHHHT-----CEEEEEESGGGCCSSSSHHHHHHHHHHHHHHH---TCSEEEEEE
T ss_pred             CceECCCCchHHHHHHHHHHHhC-----CCEEEEEHHHhhhccCchHHHHHHHHHHHHHh---cCCcEEEEe
Confidence            99999999999999999887653     23332         245444445554443332   335677754

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=89.58  E-value=1.3  Score=48.54  Aligned_cols=41  Identities=17%  Similarity=0.109  Sum_probs=31.8

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      ....+|..++|.|++|+|||||+..++.........+.|+.
T Consensus        51 ~~~~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~~~~v~v~~   91 (341)
T 2p67_A           51 PYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIA   91 (341)
T ss_dssp             GGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cccCCCEEEEEEcCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            34789999999999999999999999886654333454443

>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=89.49  E-value=0.13  Score=55.46  Aligned_cols=31  Identities=23%  Similarity=0.415  Sum_probs=26.9

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        57 isl~i~~Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           57 INFKIERGQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEECTTCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            3457889999999999999999999887754

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=89.46  E-value=1.3  Score=47.54  Aligned_cols=43  Identities=16%  Similarity=0.149  Sum_probs=32.1

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCc
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR  724 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~  724 (915)
                      +|+.++++|++|+||||++..++...+..... +.++..+-+..
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~-v~l~~~d~~~~  139 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRR-PLLVAADTQRP  139 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCC-EEEEECCSSCH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCe-EEEecCCcccH
Confidence            78899999999999999999999877654333 34444554443

>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=89.45  E-value=0.11  Score=56.70  Aligned_cols=32  Identities=25%  Similarity=0.417  Sum_probs=27.6

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus        73 isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           73 VSFTVMPGQTLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEEECTTCEEEEESSSCHHHHHHHHHHTTSS
T ss_pred             eeEEEcCCCEEEEECCCCchHHHHHHHHHcCC
Confidence            34688999999999999999999998887643

>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=89.45  E-value=0.24  Score=53.67  Aligned_cols=30  Identities=20%  Similarity=0.109  Sum_probs=25.6

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +..+|..++|.|++|+|||||+..++....
T Consensus        76 ~~~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           76 GQRIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            347899999999999999999998887553

>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=89.38  E-value=0.32  Score=49.28  Aligned_cols=40  Identities=18%  Similarity=0.029  Sum_probs=29.9

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEe
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGV  719 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~i  719 (915)
                      ..+++.+.|.|++|+|||+|+..+++...... ..++++-+
T Consensus        49 ~~~~~~~ll~G~~G~GKT~la~~l~~~~~~~~-~~~~~~~~   88 (242)
T 3bos_A           49 GDGVQAIYLWGPVKSGRTHLIHAACARANELE-RRSFYIPL   88 (242)
T ss_dssp             TCSCSEEEEECSTTSSHHHHHHHHHHHHHHTT-CCEEEEEG
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHHHHHcC-CeEEEEEH
Confidence            34688999999999999999999998765432 22344433

>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=89.33  E-value=0.16  Score=51.10  Aligned_cols=30  Identities=27%  Similarity=0.150  Sum_probs=25.9

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      ...+.+|..++|.|++|+|||||+..++..
T Consensus        15 ~~~~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           15 VPRGSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCSCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            445778999999999999999999888754

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=89.31  E-value=0.72  Score=57.94  Aligned_cols=100  Identities=10%  Similarity=0.106  Sum_probs=53.2

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHH--HHhcCCcEEEEEEecCCCchHHHHHHHhhhc-CccccEEEEEEcCCC--ChHhH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRN--IAIEHKGCSVFIGVGERSREGNDFYHEMKES-NVLDKVSLIYGQMNE--PSGNR  756 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~--~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~-~~~~~~~vv~~t~d~--~~~~r  756 (915)
                      ..-++|.|+.|+|||+|+.++++.  +....++-++++-+++... ...+...+.+. +.+...  +....+.  .+...
T Consensus       150 ~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~~d-~~~IL~~Ll~lL~~i~~~--~~~~~d~~~~ip~~  226 (1221)
T 1vt4_I          150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS-PETVLEMLQKLLYQIDPN--WTSRSDHSSNIKLR  226 (1221)
T ss_dssp             SCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCSSS-HHHHHHHHHHHHHHHCSS--STTTSCCCSSHHHH
T ss_pred             CeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCCCC-HHHHHHHHHHHHhhcCcc--cccccccccCCCCC
Confidence            356899999999999999999863  2222233467777887654 34444444321 000000  0000110  11111


Q ss_pred             HHHHHHHHHHHHHHHH-CCCcEEEEecchhh
Q psy210          757 LRVALTGLSIAEEFRN-SGKDVLLFIDNIYR  786 (915)
Q Consensus       757 ~~~~~~a~~~Ae~f~~-~g~~Vl~~~Ds~tr  786 (915)
                      .  ....-.+.+++.. .++++|||+||+..
T Consensus       227 l--eeL~e~Lr~lL~~l~~KRvLLVLDDVwd  255 (1221)
T 1vt4_I          227 I--HSIQAELRRLLKSKPYENCLLVLLNVQN  255 (1221)
T ss_dssp             H--HHHHHHHHHHHHHSTTSSCEEEEESCCC
T ss_pred             H--HHHHHHHHHHHHhhcCCCEEEEEeCcCh
Confidence            1  1112223344422 58999999999976

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=89.29  E-value=0.15  Score=54.26  Aligned_cols=29  Identities=24%  Similarity=0.257  Sum_probs=25.1

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+- |+.++|+|++|+|||||+..|+--
T Consensus        25 sl~i~-Ge~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           25 NLEVN-GEKVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEC-SSEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eEEEC-CEEEEEECCCCCCHHHHHHHHhCC
Confidence            35677 999999999999999999888753

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=89.24  E-value=0.3  Score=49.16  Aligned_cols=30  Identities=20%  Similarity=0.128  Sum_probs=26.2

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +..+|..++|.|++|+|||||+..++....
T Consensus        18 ~~~~~~~i~i~G~~GsGKstl~~~l~~~~~   47 (201)
T 1rz3_A           18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLR   47 (201)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             ccCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            356789999999999999999999987654

>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=89.21  E-value=0.1  Score=57.90  Aligned_cols=31  Identities=26%  Similarity=0.451  Sum_probs=27.3

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+-
T Consensus        23 ~vsl~i~~Ge~~~llGpnGsGKSTLLr~iaG   53 (353)
T 1oxx_K           23 NVNINIENGERFGILGPSGAGKTTFMRIIAG   53 (353)
T ss_dssp             EEEEEECTTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             ceEEEECCCCEEEEECCCCCcHHHHHHHHhC
Confidence            3446788999999999999999999998875

>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=89.09  E-value=0.38  Score=52.89  Aligned_cols=28  Identities=21%  Similarity=0.112  Sum_probs=23.7

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ..+.-+.|.|++|+|||+|+..+++.+.
T Consensus        43 ~~~~~vll~G~~G~GKT~la~~l~~~~~   70 (384)
T 2qby_B           43 EVKFSNLFLGLTGTGKTFVSKYIFNEIE   70 (384)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHHHHH
T ss_pred             CCCCcEEEECCCCCCHHHHHHHHHHHHH
Confidence            3356799999999999999999998764

>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=89.07  E-value=0.22  Score=49.35  Aligned_cols=28  Identities=29%  Similarity=0.240  Sum_probs=24.8

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +..+|..++|.|++|+||||++..++..
T Consensus         6 ~~~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            6 EQPKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CCCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4567899999999999999999988875

>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=88.77  E-value=0.21  Score=50.47  Aligned_cols=29  Identities=21%  Similarity=0.438  Sum_probs=23.2

Q ss_pred             cccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          253 PIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       253 pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      ++-+|+.++|+|++|+||||| +.+|+...
T Consensus        16 ~i~~Gei~~l~GpnGsGKSTL-l~~l~gl~   44 (207)
T 1znw_A           16 PAAVGRVVVLSGPSAVGKSTV-VRCLRERI   44 (207)
T ss_dssp             ---CCCEEEEECSTTSSHHHH-HHHHHHHS
T ss_pred             CCCCCCEEEEECCCCCCHHHH-HHHHHhhC
Confidence            688899999999999999999 78877653

>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=88.75  E-value=0.2  Score=49.93  Aligned_cols=24  Identities=33%  Similarity=0.501  Sum_probs=21.4

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+++|+|++|+|||||+..|+...
T Consensus         1 ~~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            1 MKIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            378999999999999999998765

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=88.72  E-value=0.2  Score=48.58  Aligned_cols=26  Identities=27%  Similarity=0.348  Sum_probs=22.7

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .|..++|.|++|+|||||+..++...
T Consensus         3 ~~~~i~l~G~~GsGKSTl~~~La~~l   28 (173)
T 1kag_A            3 EKRNIFLVGPMGAGKSTIGRQLAQQL   28 (173)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            36789999999999999999988754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=88.72  E-value=0.27  Score=52.86  Aligned_cols=22  Identities=32%  Similarity=0.771  Sum_probs=19.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++.||||||||+|+..+++.+
T Consensus        39 lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           39 LGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5677999999999999999876

>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=88.57  E-value=6.5  Score=39.75  Aligned_cols=27  Identities=15%  Similarity=0.356  Sum_probs=21.9

Q ss_pred             cccccceeeeecCCCCChhHHHHHHHHh
Q psy210          253 PIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       253 pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      |.-+|.-+.|.|++|+||||| +..+..
T Consensus        15 ~~~~g~~ivl~GPSGaGKsTL-~~~L~~   41 (197)
T 3ney_A           15 YFQGRKTLVLIGASGVGRSHI-KNALLS   41 (197)
T ss_dssp             -CCSCCEEEEECCTTSSHHHH-HHHHHH
T ss_pred             CCCCCCEEEEECcCCCCHHHH-HHHHHh
Confidence            445788999999999999999 566664

>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=88.51  E-value=0.23  Score=50.53  Aligned_cols=28  Identities=25%  Similarity=0.377  Sum_probs=24.3

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.-+|.-+.|.||+|+|||||+..++..
T Consensus        15 ~~~~g~~ivl~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           15 YFQGRKTLVLIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             -CCSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCCCEEEEECcCCCCHHHHHHHHHhh
Confidence            4558999999999999999999988865

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=88.43  E-value=0.36  Score=53.72  Aligned_cols=31  Identities=32%  Similarity=0.387  Sum_probs=27.5

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      +.+|+.++|+|++|+|||||+..|+......
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~  184 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNE  184 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhcccc
Confidence            5679999999999999999999999877644

>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=88.34  E-value=0.21  Score=51.47  Aligned_cols=28  Identities=18%  Similarity=0.272  Sum_probs=23.4

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +-+|+-++|+||+|+|||||+..++...
T Consensus        13 ~~~G~ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           13 MAQGTLYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             --CCCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhccC
Confidence            4579999999999999999999887653

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=88.25  E-value=1.9  Score=48.88  Aligned_cols=45  Identities=16%  Similarity=0.146  Sum_probs=32.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREG  726 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev  726 (915)
                      +|+.++++|++|+||||++..++...+..... +.++.++-+..-.
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~-Vllvd~D~~r~aa  141 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRR-PLLVAADTQRPAA  141 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCC-EEEEECCSSCHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCe-EEEeeccccCchh
Confidence            57788999999999999999999987654333 3444455444333

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=88.18  E-value=0.27  Score=57.75  Aligned_cols=33  Identities=27%  Similarity=0.360  Sum_probs=28.9

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +++.+..+.+|+.++|+|++|+|||||+..|+-
T Consensus        37 ~l~~vs~i~~Ge~~~LvG~NGaGKSTLlk~l~G   69 (538)
T 1yqt_A           37 VLYRLPVVKEGMVVGIVGPNGTGKSTAVKILAG   69 (538)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHHHHHHT
T ss_pred             cccCcCcCCCCCEEEEECCCCCCHHHHHHHHhC
Confidence            566666789999999999999999999988774

>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=88.14  E-value=1.4  Score=45.69  Aligned_cols=124  Identities=19%  Similarity=0.112  Sum_probs=65.9

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEE--eeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhh
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYV--CIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYI  332 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~--~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~  332 (915)
                      .+|+-..|.|+.|+||||++++.+.+....+.++++.  ..+.| .+ ..+.   ..-|.--..+- .            
T Consensus        10 ~~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r-~~-~~i~---srlG~~~~~~~-~------------   71 (223)
T 2b8t_A           10 KIGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTR-SI-RNIQ---SRTGTSLPSVE-V------------   71 (223)
T ss_dssp             -CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGG-GC-SSCC---CCCCCSSCCEE-E------------
T ss_pred             CCcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCch-HH-HHHH---HhcCCCccccc-c------------
Confidence            3578888889999999999999888764443333333  45444 21 1111   11122111111 1            


Q ss_pred             hhhhhhhhHHHHHh---cCCcEEEEeccchhH----HHHHHHHHhhcCCCCC-----CCcCCCchhhhhhhHHhhhhccc
Q psy210          333 SPYTGCTIGEYFRD---LGQDCLIIYDDLTKH----AWAYRQISLLLRRPPG-----REAFPGDVFYLHSRLLERSSKIN  400 (915)
Q Consensus       333 ~~~~a~tiAEy~r~---~g~~Vlv~~Ddltr~----a~A~reis~~~~~~p~-----~~gyp~~~~~~~~~l~ERag~~~  400 (915)
                        .....+-+++++   .+.--+|++|.+.-+    .+.++++... + .|.     ...|-+..|...+.|++.|-.+.
T Consensus        72 --~~~~~i~~~i~~~~~~~~~dvViIDEaQ~l~~~~ve~l~~L~~~-g-i~Vil~Gl~~df~~~~F~~~~~Ll~lAD~V~  147 (223)
T 2b8t_A           72 --ESAPEILNYIMSNSFNDETKVIGIDEVQFFDDRICEVANILAEN-G-FVVIISGLDKNFKGEPFGPIAKLFTYADKIT  147 (223)
T ss_dssp             --SSTHHHHHHHHSTTSCTTCCEEEECSGGGSCTHHHHHHHHHHHT-T-CEEEEECCSBCTTSSBCTTHHHHHHHCSEEE
T ss_pred             --CCHHHHHHHHHHHhhCCCCCEEEEecCccCcHHHHHHHHHHHhC-C-CeEEEEeccccccCCcCCCcHHHHHHhheEe
Confidence              011223344443   233347788987644    3344444432 2 211     23566777888899999887764

>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=88.06  E-value=0.25  Score=48.51  Aligned_cols=27  Identities=19%  Similarity=0.305  Sum_probs=22.3

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+|+.++|+|++|+||||| +..|++.
T Consensus        35 ~~~g~~~~l~G~~G~GKTtL-~~~i~~~   61 (180)
T 3ec2_A           35 PEEGKGLTFVGSPGVGKTHL-AVATLKA   61 (180)
T ss_dssp             GGGCCEEEECCSSSSSHHHH-HHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHH-HHHHHHH
Confidence            45689999999999999999 5666654

>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=88.03  E-value=0.23  Score=54.19  Aligned_cols=30  Identities=27%  Similarity=0.174  Sum_probs=26.5

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .+.+|+-++|.|++|+|||||+..|+.-..
T Consensus        86 ~~~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           86 DRPVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             SSCCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            368899999999999999999998887654

>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=88.01  E-value=0.33  Score=61.71  Aligned_cols=40  Identities=28%  Similarity=0.494  Sum_probs=29.9

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH---HhcCCcEEEEEEecCC
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI---AIEHKGCSVFIGVGER  722 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~---~~~~~~~~v~~~iGer  722 (915)
                      ..++|.|..|+|||+|+.++++..   .....+.++++-+++.
T Consensus       148 ~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~  190 (1249)
T 3sfz_A          148 GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ  190 (1249)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSC
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCc
Confidence            457899999999999999988753   2223566777877764

>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=87.96  E-value=0.24  Score=48.33  Aligned_cols=27  Identities=22%  Similarity=0.262  Sum_probs=23.6

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -+|..++|+|++|+||||++..++...
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            358899999999999999999988654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=87.72  E-value=0.26  Score=50.48  Aligned_cols=30  Identities=23%  Similarity=0.285  Sum_probs=23.3

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        18 l~i~~G~~~~lvGpsGsGKSTL-l~~L~g~~   47 (218)
T 1z6g_A           18 GSMNNIYPLVICGPSGVGKGTL-IKKLLNEF   47 (218)
T ss_dssp             ----CCCCEEEECSTTSSHHHH-HHHHHHHS
T ss_pred             eecCCCCEEEEECCCCCCHHHH-HHHHHhhC
Confidence            4567899999999999999999 78887654

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=87.69  E-value=0.23  Score=52.97  Aligned_cols=27  Identities=26%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.+|  ++|+||+|+|||+|+..++...
T Consensus        42 ~~~~G--vlL~Gp~GtGKTtLakala~~~   68 (274)
T 2x8a_A           42 VTPAG--VLLAGPPGCGKTLLAKAVANES   68 (274)
T ss_dssp             CCCSE--EEEESSTTSCHHHHHHHHHHHT
T ss_pred             CCCCe--EEEECCCCCcHHHHHHHHHHHc
Confidence            34566  9999999999999999888653

>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=87.61  E-value=0.27  Score=49.87  Aligned_cols=27  Identities=30%  Similarity=0.321  Sum_probs=23.6

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -+|.-++|.||+|+|||||+..++...
T Consensus         6 ~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            6 ERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            368899999999999999999888653

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=87.58  E-value=0.28  Score=48.86  Aligned_cols=27  Identities=19%  Similarity=0.395  Sum_probs=22.9

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +-+|+.++|.|++|+||||| +.+|+..
T Consensus         4 m~~g~ii~l~Gp~GsGKSTl-~~~L~~~   30 (205)
T 3tr0_A            4 MNKANLFIISAPSGAGKTSL-VRALVKA   30 (205)
T ss_dssp             -CCCCEEEEECCTTSCHHHH-HHHHHHH
T ss_pred             CCCCcEEEEECcCCCCHHHH-HHHHHhh
Confidence            45799999999999999999 7777765

>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=87.56  E-value=0.26  Score=51.41  Aligned_cols=30  Identities=27%  Similarity=0.413  Sum_probs=26.5

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+..-
T Consensus        26 l~i~~Ge~~~iiG~nGsGKSTL-l~~l~Gl~   55 (235)
T 3tif_A           26 LNIKEGEFVSIMGPSGSGKSTM-LNIIGCLD   55 (235)
T ss_dssp             EEECTTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHH-HHHHhcCC
Confidence            5778899999999999999999 88888753

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=87.54  E-value=0.92  Score=47.37  Aligned_cols=30  Identities=23%  Similarity=0.046  Sum_probs=25.8

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+..++..+.|.|++|+||||++..++...
T Consensus        27 ~~~~~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           27 KSSKQPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             CCCSSCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             CcccCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            356678889999999999999999998764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=87.53  E-value=0.26  Score=51.54  Aligned_cols=32  Identities=19%  Similarity=0.222  Sum_probs=26.8

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =|.=+.+-+ +.++|+|++|+|||||+..|+--
T Consensus        16 ~~isl~i~~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           16 LNVDFEMGR-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEEEECS-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             eeeEEEECC-EEEEEECCCCCCHHHHHHHHhCC
Confidence            344467889 99999999999999999988753

>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=87.49  E-value=0.29  Score=47.83  Aligned_cols=29  Identities=24%  Similarity=0.321  Sum_probs=24.9

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+..
T Consensus        28 l~i~~Ge~v~L~G~nGaGKTTL-lr~l~g~   56 (158)
T 1htw_A           28 LHTEKAIMVYLNGDLGAGKTTL-TRGMLQG   56 (158)
T ss_dssp             HCCSSCEEEEEECSTTSSHHHH-HHHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHH-HHHHHHh
Confidence            3567899999999999999999 7887764

>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=87.38  E-value=0.25  Score=51.48  Aligned_cols=27  Identities=33%  Similarity=0.380  Sum_probs=22.8

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.+|  ++|+|++|+|||+|+..++...
T Consensus        47 ~~~~g--~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           47 RIPKG--VLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             CCCSE--EEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCe--EEEECCCCCCHHHHHHHHHHHh
Confidence            34566  9999999999999999988754

>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=87.37  E-value=0.12  Score=56.28  Aligned_cols=33  Identities=18%  Similarity=0.322  Sum_probs=28.4

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +|.|.++-+|+..+|+|++|+|||||+..|+..
T Consensus       164 ~~~L~~~~~G~~~~lvG~sG~GKSTLln~L~g~  196 (307)
T 1t9h_A          164 LADIIPHFQDKTTVFAGQSGVGKSSLLNAISPE  196 (307)
T ss_dssp             CTTTGGGGTTSEEEEEESHHHHHHHHHHHHCC-
T ss_pred             HHHHHhhcCCCEEEEECCCCCCHHHHHHHhccc
Confidence            466788889999999999999999999877643

>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=87.35  E-value=0.12  Score=51.63  Aligned_cols=33  Identities=21%  Similarity=0.261  Sum_probs=27.7

Q ss_pred             eeeecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          671 KVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       671 r~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .+++. +++.+|.+++|+|++|+|||||+..++.
T Consensus        16 ~~l~~-~~~~~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           16 PDIRH-LPSDTGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             SSGGG-SSCSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCHhH-CCCCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            34444 7899999999999999999999977653

>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=87.28  E-value=0.31  Score=50.57  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=23.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++..++|+|++|+|||||+..|++..
T Consensus        26 ~~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           26 KLLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999998754

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=87.25  E-value=0.53  Score=47.10  Aligned_cols=30  Identities=23%  Similarity=0.122  Sum_probs=26.0

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      .-+|..+.|.|++|+||||++..+++....
T Consensus         7 ~~~~~~I~l~G~~GsGKST~~~~L~~~l~~   36 (212)
T 2wwf_A            7 KKKGKFIVFEGLDRSGKSTQSKLLVEYLKN   36 (212)
T ss_dssp             CBCSCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             hhcCCEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            446889999999999999999999987654

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=87.17  E-value=0.3  Score=48.97  Aligned_cols=40  Identities=23%  Similarity=0.249  Sum_probs=22.4

Q ss_pred             cccceeeeccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          242 LTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       242 ~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .|+--..+.+++..+|+.++|.|++|+||||+ +..++..-
T Consensus        14 ~~~~~~~~~~m~~~~g~~i~l~G~~GsGKSTl-~~~L~~~~   53 (200)
T 4eun_A           14 GTENLYFQSMMTGEPTRHVVVMGVSGSGKTTI-AHGVADET   53 (200)
T ss_dssp             --------------CCCEEEEECCTTSCHHHH-HHHHHHHH
T ss_pred             CchhhHHHhhhcCCCCcEEEEECCCCCCHHHH-HHHHHHhh
Confidence            34444555666777899999999999999999 57776543

>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=87.10  E-value=0.24  Score=54.93  Aligned_cols=29  Identities=21%  Similarity=0.330  Sum_probs=25.5

Q ss_pred             cccc--CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLK--GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigk--GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++-+  |++.+|+|++|+|||||+..|+...
T Consensus       164 ~v~~~lg~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          164 EARPFFAKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             TTGGGTCEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             HHHHhhhCeEEEECCCCCCHHHHHHHHHHHh
Confidence            3566  9999999999999999999988764

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=87.03  E-value=0.54  Score=46.86  Aligned_cols=26  Identities=31%  Similarity=0.409  Sum_probs=23.3

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +-+.|.|++|+|||+|+..+++....
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~~~   80 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANELAK   80 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHHHH
Confidence            67999999999999999999987754

>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=86.98  E-value=0.27  Score=51.64  Aligned_cols=30  Identities=27%  Similarity=0.372  Sum_probs=26.6

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        30 l~i~~Ge~~~i~G~nGsGKSTL-l~~l~Gl~   59 (247)
T 2ff7_A           30 LSIKQGEVIGIVGRSGSGKSTL-TKLIQRFY   59 (247)
T ss_dssp             EEEETTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhcCC
Confidence            5677899999999999999999 88888754

>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=86.91  E-value=0.29  Score=51.02  Aligned_cols=29  Identities=17%  Similarity=0.493  Sum_probs=26.1

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|++|+||||| +..|+..
T Consensus        26 l~i~~Ge~~~i~G~nGsGKSTL-l~~l~Gl   54 (237)
T 2cbz_A           26 FSIPEGALVAVVGQVGCGKSSL-LSALLAE   54 (237)
T ss_dssp             EEECTTCEEEEECSTTSSHHHH-HHHHTTC
T ss_pred             EEECCCCEEEEECCCCCCHHHH-HHHHhcC
Confidence            5678899999999999999999 8888875

>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=86.86  E-value=0.27  Score=52.28  Aligned_cols=29  Identities=28%  Similarity=0.487  Sum_probs=26.1

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+..
T Consensus        32 l~i~~Ge~~~liG~nGsGKSTL-l~~l~Gl   60 (266)
T 4g1u_C           32 LHIASGEMVAIIGPNGAGKSTL-LRLLTGY   60 (266)
T ss_dssp             EEEETTCEEEEECCTTSCHHHH-HHHHTSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHH-HHHHhcC
Confidence            5688899999999999999999 7888864

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=86.84  E-value=2.9  Score=42.74  Aligned_cols=53  Identities=21%  Similarity=0.154  Sum_probs=35.1

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE  735 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~  735 (915)
                      +|--+.|.|++|+||||++..++......  ...|+..---.+.+..+.++++..
T Consensus         5 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~--~~~v~~~~~p~~~~~g~~i~~~l~   57 (213)
T 4edh_A            5 TGLFVTLEGPEGAGKSTNRDYLAERLRER--GIEVQLTREPGGTPLAERIRELLL   57 (213)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHTT--TCCEEEEESSCSSHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHHHHc--CCCcccccCCCCCHHHHHHHHHHh
Confidence            57788999999999999999999887643  333332221223455555665543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=86.83  E-value=0.35  Score=57.55  Aligned_cols=33  Identities=27%  Similarity=0.384  Sum_probs=28.5

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .++.+..+.+|+.++|+|++|+|||||+..|+-
T Consensus        93 ~l~~l~~~~~Gei~~LvGpNGaGKSTLLkiL~G  125 (608)
T 3j16_B           93 KLHRLPTPRPGQVLGLVGTNGIGKSTALKILAG  125 (608)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHHHHHHT
T ss_pred             eecCCCCCCCCCEEEEECCCCChHHHHHHHHhc
Confidence            455566788999999999999999999998875

>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=86.82  E-value=0.32  Score=49.41  Aligned_cols=25  Identities=20%  Similarity=0.262  Sum_probs=22.4

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+++|.|++|+||||++..++...
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999998754

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=86.64  E-value=0.89  Score=49.03  Aligned_cols=53  Identities=23%  Similarity=0.293  Sum_probs=35.4

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHE  732 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~  732 (915)
                      .+|+.++++|+.|+||||++..++.........-+.++..+-......+.+..
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~  155 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKT  155 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHH
Confidence            36889999999999999999999987764222233444444443334444443

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=86.63  E-value=0.3  Score=47.91  Aligned_cols=26  Identities=23%  Similarity=0.440  Sum_probs=23.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|..+.+.|++|+||||++..++...
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            57889999999999999999998754

>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=86.52  E-value=0.3  Score=50.66  Aligned_cols=30  Identities=27%  Similarity=0.451  Sum_probs=26.6

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+..-
T Consensus        29 l~i~~Ge~~~i~G~nGsGKSTL-l~~l~Gl~   58 (229)
T 2pze_A           29 FKIERGQLLAVAGSTGAGKTSL-LMMIMGEL   58 (229)
T ss_dssp             EEEETTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhCCC
Confidence            5677899999999999999999 88888753

>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=86.48  E-value=0.68  Score=49.99  Aligned_cols=37  Identities=24%  Similarity=0.293  Sum_probs=25.4

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhhc-CCCeEEEEEee
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQK-NKNVICIYVCI  293 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~~-~~~~~~V~~~i  293 (915)
                      .+.-+.|.|++|+|||+| +..|++.. ..+..++|.-+
T Consensus        36 ~~~~lll~G~~GtGKT~l-a~~i~~~~~~~~~~~~~i~~   73 (324)
T 1l8q_A           36 LYNPIFIYGSVGTGKTHL-LQAAGNEAKKRGYRVIYSSA   73 (324)
T ss_dssp             SCSSEEEECSSSSSHHHH-HHHHHHHHHHTTCCEEEEEH
T ss_pred             CCCeEEEECCCCCcHHHH-HHHHHHHHHHCCCEEEEEEH
Confidence            456789999999999999 57777653 11333455543

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=86.48  E-value=1.5  Score=51.27  Aligned_cols=40  Identities=18%  Similarity=0.224  Sum_probs=25.8

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHh-----hcCCCeEEEEEeeccc
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIIN-----QKNKNVICIYVCIGQK  296 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~-----~~~~~~~~V~~~iGer  296 (915)
                      ...-++|.|+.|+|||+||.+...+     ....+. ++|+-++..
T Consensus       146 ~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~-v~wv~~~~~  190 (591)
T 1z6t_A          146 EPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGG-VHWVSVGKQ  190 (591)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTC-EEEEEEESC
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCc-eEEEECCCC
Confidence            3567889999999999997544321     112232 457767654

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=86.46  E-value=0.71  Score=50.00  Aligned_cols=24  Identities=29%  Similarity=0.302  Sum_probs=21.1

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .-++|.|++|||||+|+..+++..
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~~   79 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYEM   79 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEECcCCCCHHHHHHHHHHHh
Confidence            469999999999999999987764

>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=86.46  E-value=0.29  Score=51.13  Aligned_cols=29  Identities=17%  Similarity=0.140  Sum_probs=26.0

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+..
T Consensus        23 l~i~~Ge~~~i~G~nGsGKSTL-l~~l~Gl   51 (243)
T 1mv5_A           23 FEAQPNSIIAFAGPSGGGKSTI-FSLLERF   51 (243)
T ss_dssp             EEECTTEEEEEECCTTSSHHHH-HHHHTTS
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhcC
Confidence            4678899999999999999999 8888875

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=86.42  E-value=0.36  Score=48.60  Aligned_cols=28  Identities=18%  Similarity=0.326  Sum_probs=25.0

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+|.-+.|.|++|+|||||+..++...
T Consensus         9 ~~~~~~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A            9 MARIPPLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CCCCCCEEEECCTTSCHHHHHHHHHHHC
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            5789999999999999999999988754

>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=86.39  E-value=0.31  Score=51.55  Aligned_cols=30  Identities=30%  Similarity=0.337  Sum_probs=26.7

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+...
T Consensus        36 l~i~~Gei~~l~G~NGsGKSTL-lk~l~Gl~   65 (256)
T 1vpl_A           36 FEIEEGEIFGLIGPNGAGKTTT-LRIISTLI   65 (256)
T ss_dssp             EEECTTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCcEEEEECCCCCCHHHH-HHHHhcCC
Confidence            5678899999999999999999 88888754

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=86.38  E-value=0.26  Score=56.67  Aligned_cols=32  Identities=22%  Similarity=0.309  Sum_probs=27.3

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|++++|+|++|+|||||+..|+...
T Consensus       131 vsl~i~~Ge~v~IvGpnGsGKSTLlr~L~Gl~  162 (460)
T 2npi_A          131 IRMSNFEGPRVVIVGGSQTGKTSLSRTLCSYA  162 (460)
T ss_dssp             HHHHSSSCCCEEEEESTTSSHHHHHHHHHHTT
T ss_pred             CceEeCCCCEEEEECCCCCCHHHHHHHHhCcc
Confidence            33556799999999999999999999988744

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=86.38  E-value=0.29  Score=50.53  Aligned_cols=30  Identities=27%  Similarity=0.382  Sum_probs=26.5

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+..-
T Consensus        25 l~i~~Ge~~~iiG~nGsGKSTL-l~~l~Gl~   54 (224)
T 2pcj_A           25 LSVKKGEFVSIIGASGSGKSTL-LYILGLLD   54 (224)
T ss_dssp             EEEETTCEEEEEECTTSCHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhcCC
Confidence            5677899999999999999999 88888753

>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=86.25  E-value=0.34  Score=57.66  Aligned_cols=33  Identities=30%  Similarity=0.355  Sum_probs=29.0

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +++.+..+-+|+.++|+|++|+|||||+..|+-
T Consensus       107 ~l~~vs~i~~Ge~~~LiG~NGsGKSTLlkiL~G  139 (607)
T 3bk7_A          107 VLYRLPIVKDGMVVGIVGPNGTGKTTAVKILAG  139 (607)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHHHHHHTT
T ss_pred             eeCCCCCCCCCCEEEEECCCCChHHHHHHHHhC
Confidence            566666789999999999999999999988764

>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=86.20  E-value=0.29  Score=48.37  Aligned_cols=23  Identities=30%  Similarity=0.306  Sum_probs=20.8

Q ss_pred             CCeeeeccCCCCChhhHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |+-++|+|++|+|||||+..++.
T Consensus         2 g~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            2 KKLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHhc
Confidence            56789999999999999999975

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.15  E-value=0.65  Score=52.84  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=20.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +++.||||||||.|+..+|..+.
T Consensus       209 iLL~GPPGtGKT~lakAiA~~~~  231 (428)
T 4b4t_K          209 VLLYGPPGTGKTMLVKAVANSTK  231 (428)
T ss_dssp             EEEESCTTTTHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            89999999999999999987753

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=86.14  E-value=0.58  Score=46.71  Aligned_cols=42  Identities=21%  Similarity=0.328  Sum_probs=27.5

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE-EecCC
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI-GVGER  722 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~-~iGer  722 (915)
                      +|+-..|.|++|+||||++.+++++.......+.++- .++.|
T Consensus         2 ~g~i~vi~G~~gsGKTT~ll~~~~~~~~~g~~v~~~~~~~d~r   44 (184)
T 2orw_A            2 SGKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSR   44 (184)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHHHHTTCEEEEEEEC----
T ss_pred             ccEEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeeccccc
Confidence            4778889999999999999888887654323333332 34443

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=86.10  E-value=0.97  Score=43.52  Aligned_cols=26  Identities=23%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhh
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      ..+..+.|.|++|+|||+++ ..+++.
T Consensus        41 ~~~~~vll~G~~G~GKT~la-~~~~~~   66 (187)
T 2p65_A           41 RTKNNPILLGDPGVGKTAIV-EGLAIK   66 (187)
T ss_dssp             SSSCEEEEESCGGGCHHHHH-HHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHH-HHHHHH
Confidence            33567889999999999994 555554

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=86.09  E-value=0.89  Score=43.11  Aligned_cols=26  Identities=19%  Similarity=0.222  Sum_probs=21.9

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.-+.|.|++|||||+++..+.+..
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            45679999999999999998887643

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=86.07  E-value=0.73  Score=51.96  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.5

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ++++||||||||.|+..+|..+.
T Consensus       185 vLL~GPPGTGKTllAkAiA~e~~  207 (405)
T 4b4t_J          185 VILYGPPGTGKTLLARAVAHHTD  207 (405)
T ss_dssp             EEEESCSSSSHHHHHHHHHHHHT
T ss_pred             eEEeCCCCCCHHHHHHHHHHhhC
Confidence            89999999999999999887653

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=86.06  E-value=0.48  Score=50.09  Aligned_cols=30  Identities=23%  Similarity=0.324  Sum_probs=26.4

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        41 l~i~~Ge~~~i~G~nGsGKSTL-l~~l~Gl~   70 (260)
T 2ghi_A           41 FFIPSGTTCALVGHTGSGKSTI-AKLLYRFY   70 (260)
T ss_dssp             EEECTTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEECCCCEEEEECCCCCCHHHH-HHHHhccC
Confidence            5677899999999999999999 88888753

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=86.03  E-value=0.36  Score=48.78  Aligned_cols=27  Identities=19%  Similarity=0.215  Sum_probs=22.7

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      ..+|+.++|+|++|+||||| +..|+..
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl-~~~l~~~   45 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTL-SNPLAAA   45 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHH-HHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHH-HHHHHHH
Confidence            36799999999999999999 5666653

>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=86.02  E-value=0.58  Score=45.80  Aligned_cols=27  Identities=26%  Similarity=0.319  Sum_probs=23.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +|..+.|.|++|+||||++..++....
T Consensus         2 ~~~~I~i~G~~GsGKsT~~~~L~~~l~   28 (192)
T 1kht_A            2 KNKVVVVTGVPGVGSTTSSQLAMDNLR   28 (192)
T ss_dssp             -CCEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            367899999999999999999998764

>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=86.01  E-value=0.64  Score=46.54  Aligned_cols=30  Identities=23%  Similarity=0.289  Sum_probs=25.5

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      .-+|-.+.|.|++|+||||++..++.....
T Consensus         6 ~~~~~~I~l~G~~GsGKsT~~~~L~~~l~~   35 (215)
T 1nn5_A            6 ARRGALIVLEGVDRAGKSTQSRKLVEALCA   35 (215)
T ss_dssp             -CCCCEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             ccCCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            446788999999999999999999987654

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=85.98  E-value=0.34  Score=51.31  Aligned_cols=31  Identities=26%  Similarity=0.320  Sum_probs=26.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|++|+||||| +.+|+..-
T Consensus        26 sl~i~~Ge~~~liG~nGsGKSTL-lk~l~Gl~   56 (262)
T 1b0u_A           26 SLQARAGDVISIIGSSGSGKSTF-LRCINFLE   56 (262)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHH-HHHHhcCC
Confidence            35678899999999999999999 88888753

>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=85.79  E-value=0.34  Score=51.79  Aligned_cols=31  Identities=23%  Similarity=0.393  Sum_probs=26.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|++|+||||| +.+|+..-
T Consensus        28 sl~i~~Ge~~~iiGpnGsGKSTL-l~~l~Gl~   58 (275)
T 3gfo_A           28 NMNIKRGEVTAILGGNGVGKSTL-FQNFNGIL   58 (275)
T ss_dssp             EEEEETTSEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHH-HHHHHcCC
Confidence            35788899999999999999999 88888753

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=85.77  E-value=0.33  Score=51.37  Aligned_cols=27  Identities=33%  Similarity=0.380  Sum_probs=22.8

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.+|  ++|+|++|+|||+|+..++...
T Consensus        71 ~~~~g--vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           71 RIPKG--VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             CCCCE--EEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCCe--EEEECCCcChHHHHHHHHHHHc
Confidence            34566  9999999999999999988754

>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=85.76  E-value=0.37  Score=50.88  Aligned_cols=30  Identities=40%  Similarity=0.635  Sum_probs=26.5

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+..-
T Consensus        28 l~i~~Ge~~~liG~nGsGKSTL-lk~l~Gl~   57 (257)
T 1g6h_A           28 ISVNKGDVTLIIGPNGSGKSTL-INVITGFL   57 (257)
T ss_dssp             CEEETTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEeCCCEEEEECCCCCCHHHH-HHHHhCCC
Confidence            5678899999999999999999 88888753

>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=85.73  E-value=0.23  Score=53.68  Aligned_cols=31  Identities=39%  Similarity=0.471  Sum_probs=26.8

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELI  703 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~  703 (915)
                      ||-|..+-+|+..+++|++|+|||||+..|+
T Consensus       156 i~~L~~~l~G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLEGFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhccCcEEEEECCCCCCHHHHHHHHH
Confidence            3555666779999999999999999999888

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=85.71  E-value=0.72  Score=50.38  Aligned_cols=89  Identities=8%  Similarity=0.020  Sum_probs=54.1

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhhc----C----CCeEEEEEeecc---chhhHHHHHHHHhccCCcceEEEEEec
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQK----N----KNVICIYVCIGQ---KISSLINVINKLKYYNCMDYTVVVAAT  322 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~~----~----~~~~~V~~~iGe---r~~ev~~~~~~l~~~~~~~~tvvv~~~  322 (915)
                      -++|..+.|.|++|||||++ ...++++-    .    .++.+|+.-|-.   ....+..+++.+.....         +
T Consensus        42 ~~~~~~lli~GpPGTGKT~~-v~~v~~~L~~~~~~~~~~~~~~v~INc~~~~t~~~~~~~I~~~L~g~~~---------~  111 (318)
T 3te6_A           42 SSQNKLFYITNADDSTKFQL-VNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENL---------C  111 (318)
T ss_dssp             TTCCCEEEEECCCSHHHHHH-HHHHHHHHHHTTTTTSSCCEEEEEEETTCCC--HHHHHHHHHHHSCCC-----------
T ss_pred             CCCCCeEEEECCCCCCHHHH-HHHHHHHHHHHhhhccCCceEEEEEeccccCCHHHHHHHHHHHhcCCCC---------C
Confidence            36788899999999999999 45555531    1    145566665433   23455566666643210         0


Q ss_pred             CCCCHHHhhhhhhhhhhhHHHHHh----cCCcEEEEeccchhHH
Q psy210          323 AADSAAEQYISPYTGCTIGEYFRD----LGQDCLIIYDDLTKHA  362 (915)
Q Consensus       323 a~~~~~~r~~~~~~a~tiAEy~r~----~g~~Vlv~~Ddltr~a  362 (915)
                      ...          ..-.+-++|..    .+..++|++|.+-++.
T Consensus       112 ~~~----------~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~  145 (318)
T 3te6_A          112 GDI----------SLEALNFYITNVPKAKKRKTLILIQNPENLL  145 (318)
T ss_dssp             CCC----------CHHHHHHHHHHSCGGGSCEEEEEEECCSSSC
T ss_pred             chH----------HHHHHHHHHHHhhhccCCceEEEEecHHHhh
Confidence            111          11233455553    5778999999998876

>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=85.65  E-value=1.7  Score=47.80  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.3

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .-++|.|++|||||+|+..+++..
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~~  108 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATEA  108 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHHh
Confidence            348999999999999999998876

>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=85.64  E-value=0.37  Score=51.22  Aligned_cols=31  Identities=23%  Similarity=0.398  Sum_probs=26.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|+.|+||||| +.+|+...
T Consensus        44 sl~i~~Gei~~liG~NGsGKSTL-lk~l~Gl~   74 (263)
T 2olj_A           44 NVHIREGEVVVVIGPSGSGKSTF-LRCLNLLE   74 (263)
T ss_dssp             EEEECTTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEEcCCCEEEEEcCCCCcHHHH-HHHHHcCC
Confidence            35677899999999999999999 88888754

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.59  E-value=0.66  Score=52.86  Aligned_cols=23  Identities=22%  Similarity=0.283  Sum_probs=20.5

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -++++||||||||.|+..+|..+
T Consensus       217 GvLLyGPPGTGKTllAkAiA~e~  239 (434)
T 4b4t_M          217 GALMYGPPGTGKTLLARACAAQT  239 (434)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHH
T ss_pred             eeEEECcCCCCHHHHHHHHHHHh
Confidence            38999999999999999888765

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=85.57  E-value=0.73  Score=45.36  Aligned_cols=29  Identities=31%  Similarity=0.218  Sum_probs=25.6

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      -+|..+.|.|.+|+||||++..++.....
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            46888999999999999999999987754

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=85.53  E-value=3.2  Score=42.94  Aligned_cols=97  Identities=16%  Similarity=0.112  Sum_probs=52.5

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcC--CcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEH--KGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRL  757 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~--~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~  757 (915)
                      -+|--+-|.|++|+||||++..++......+  +...|+..--.++.+..+.++++...+            +.+|  +.
T Consensus        23 ~~g~~I~~eG~~GsGKsT~~~~l~~~l~~~~~~~g~~v~~~rep~~t~~g~~ir~~l~~~------------~~~~--~~   88 (227)
T 3v9p_A           23 ARGKFITFEGIDGAGKTTHLQWFCDRLQERLGPAGRHVVVTREPGGTRLGETLREILLNQ------------PMDL--ET   88 (227)
T ss_dssp             CCCCEEEEECCC---CHHHHHHHHHHHHHHHGGGTCCEEEEESSSSSHHHHHHHHHHHHS------------CCCH--HH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHhhccccceeeeeecCCCCChHHHHHHHHHHcC------------CCCH--HH
Confidence            4788999999999999999999998775430  022333322233445555566654333            1122  12


Q ss_pred             HHHHHHHHHHHHHH-------HCCCcEEEEecchhhHHHhhh
Q psy210          758 RVALTGLSIAEEFR-------NSGKDVLLFIDNIYRFTLAGT  792 (915)
Q Consensus       758 ~~~~~a~~~Ae~f~-------~~g~~Vl~~~Ds~tr~a~A~r  792 (915)
                      .+.+.+...++.+.       ++|+  .||+|.-+-=.-||.
T Consensus        89 ~~llf~a~R~~~~~~~i~p~l~~g~--~VI~DRy~~S~~ayq  128 (227)
T 3v9p_A           89 EALLMFAGRREHLALVIEPALARGD--WVVSDRFTDATFAYQ  128 (227)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHHHTTC--EEEEECCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHcCC--EEEEeccHhHHHHHh
Confidence            23334445555544       3465  567786554444553

>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*

Probab=85.49  E-value=1.2  Score=48.43  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=21.1

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .++.|++|+|||+++..+++.+.
T Consensus        27 ~L~~G~~G~GKt~~a~~la~~l~   49 (334)
T 1a5t_A           27 LLIQALPGMGDDALIYALSRYLL   49 (334)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEECCCCchHHHHHHHHHHHHh
Confidence            78899999999999999999764

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=85.45  E-value=0.85  Score=52.09  Aligned_cols=26  Identities=27%  Similarity=0.471  Sum_probs=22.8

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +..+++.||||||||+|+..+++.+.
T Consensus        63 ~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           63 GRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            45699999999999999999998764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=85.43  E-value=0.33  Score=46.78  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=22.3

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhh
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +|+.++|.|++|+|||+| +.++++.
T Consensus        35 ~g~~~~l~G~~G~GKTtL-~~~i~~~   59 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHL-LQAWVAQ   59 (149)
T ss_dssp             CCSEEEEESSSTTTTCHH-HHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHH-HHHHHHH
Confidence            899999999999999999 6777764

>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=85.41  E-value=0.74  Score=46.52  Aligned_cols=26  Identities=19%  Similarity=0.395  Sum_probs=22.1

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +|.-++|.|++|+||||| +.+++...
T Consensus         7 ~g~~i~l~GpsGsGKsTl-~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTV-REAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHH-HHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHH-HHHHHhhC
Confidence            588899999999999999 67777653

>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=85.40  E-value=0.4  Score=50.36  Aligned_cols=29  Identities=21%  Similarity=0.433  Sum_probs=26.1

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+..
T Consensus        24 l~i~~Ge~~~l~G~nGsGKSTL-lk~l~Gl   52 (250)
T 2d2e_A           24 LVVPKGEVHALMGPNGAGKSTL-GKILAGD   52 (250)
T ss_dssp             EEEETTCEEEEECSTTSSHHHH-HHHHHTC
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhCC
Confidence            5688899999999999999999 8888874

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=85.39  E-value=0.39  Score=50.35  Aligned_cols=27  Identities=22%  Similarity=0.219  Sum_probs=24.2

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -+|..++|.|++|+|||||+..+++.+
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            468999999999999999999998654

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=85.35  E-value=0.37  Score=51.61  Aligned_cols=31  Identities=26%  Similarity=0.418  Sum_probs=26.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|+.|+||||| +.+|+..-
T Consensus        41 sl~i~~Ge~~~liG~NGsGKSTL-lk~l~Gl~   71 (279)
T 2ihy_A           41 SWQIAKGDKWILYGLNGAGKTTL-LNILNAYE   71 (279)
T ss_dssp             EEEEETTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             eEEEcCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            35678899999999999999999 88888753

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=85.34  E-value=0.39  Score=51.20  Aligned_cols=30  Identities=20%  Similarity=0.359  Sum_probs=26.7

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        40 l~i~~Ge~~~i~G~nGsGKSTL-lk~l~Gl~   69 (271)
T 2ixe_A           40 FTLYPGKVTALVGPNGSGKSTV-AALLQNLY   69 (271)
T ss_dssp             EEECTTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEECCCCEEEEECCCCCCHHHH-HHHHhcCC
Confidence            5678899999999999999999 88888754

>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=85.30  E-value=0.38  Score=50.18  Aligned_cols=30  Identities=30%  Similarity=0.462  Sum_probs=26.5

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|+.|+||||| +..|+...
T Consensus        27 l~i~~Ge~~~l~G~nGsGKSTL-l~~l~Gl~   56 (240)
T 1ji0_A           27 LKVPRGQIVTLIGANGAGKTTT-LSAIAGLV   56 (240)
T ss_dssp             EEEETTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhCCC
Confidence            5677899999999999999999 88888753

>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=85.29  E-value=0.38  Score=53.51  Aligned_cols=33  Identities=27%  Similarity=0.459  Sum_probs=28.3

Q ss_pred             eccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       249 D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |.=+.+-+|+.++|+|++||||||| +.+|+..-
T Consensus        22 ~vsl~i~~Ge~~~llGpsGsGKSTL-Lr~iaGl~   54 (359)
T 3fvq_A           22 DISLSLDPGEILFIIGASGCGKTTL-LRCLAGFE   54 (359)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHH-HHHHHTSS
T ss_pred             eeEEEEcCCCEEEEECCCCchHHHH-HHHHhcCC
Confidence            3445788899999999999999999 89998754

>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=85.27  E-value=0.36  Score=52.51  Aligned_cols=32  Identities=25%  Similarity=0.287  Sum_probs=27.0

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .-+.+-+|++++|+|++|+||||| +..|+..-
T Consensus       119 vsl~i~~Ge~vaIvGpsGsGKSTL-l~lL~gl~  150 (305)
T 2v9p_A          119 WLKGIPKKNCLAFIGPPNTGKSML-CNSLIHFL  150 (305)
T ss_dssp             HHHTCTTCSEEEEECSSSSSHHHH-HHHHHHHH
T ss_pred             ceEEecCCCEEEEECCCCCcHHHH-HHHHhhhc
Confidence            346788899999999999999999 67777654

>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=85.26  E-value=0.41  Score=50.81  Aligned_cols=29  Identities=24%  Similarity=0.493  Sum_probs=26.0

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+..
T Consensus        41 l~i~~Ge~~~l~G~NGsGKSTL-lk~l~Gl   69 (267)
T 2zu0_C           41 LDVHPGEVHAIMGPNGSGKSTL-SATLAGR   69 (267)
T ss_dssp             EEECTTCEEEEECCTTSSHHHH-HHHHHTC
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhCC
Confidence            5678899999999999999999 8888874

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=85.26  E-value=2  Score=46.93  Aligned_cols=28  Identities=32%  Similarity=0.418  Sum_probs=22.3

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhhcCCC
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQKNKN  285 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~~~~~  285 (915)
                      |.-++|.|++|+|||++ ...+++....+
T Consensus        70 ~~~vLl~GppGtGKT~l-a~~la~~l~~~   97 (368)
T 3uk6_A           70 GRAVLIAGQPGTGKTAI-AMGMAQALGPD   97 (368)
T ss_dssp             TCEEEEEESTTSSHHHH-HHHHHHHHCSS
T ss_pred             CCEEEEECCCCCCHHHH-HHHHHHHhccc
Confidence            56799999999999999 57777764443

>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=85.21  E-value=0.36  Score=57.13  Aligned_cols=33  Identities=21%  Similarity=0.304  Sum_probs=28.2

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .=+.+-+|+.++|+|++|+|||||+..++.-..
T Consensus       362 i~l~i~~G~~~~ivG~sGsGKSTll~~l~g~~~  394 (582)
T 3b5x_A          362 VSFSIPQGKTVALVGRSGSGKSTIANLFTRFYD  394 (582)
T ss_pred             ceEEECCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            335688999999999999999999998887543

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=85.13  E-value=0.6  Score=52.07  Aligned_cols=30  Identities=30%  Similarity=0.368  Sum_probs=27.0

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +-+|+.++|+|++|+|||||+..++.....
T Consensus       133 ~~~g~~i~ivG~~GsGKTTll~~l~~~~~~  162 (372)
T 2ewv_A          133 HRKMGLILVTGPTGSGKSTTIASMIDYINQ  162 (372)
T ss_dssp             TSSSEEEEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             hcCCCEEEEECCCCCCHHHHHHHHHhhcCc
Confidence            678999999999999999999999987654

>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=85.06  E-value=0.4  Score=50.51  Aligned_cols=31  Identities=16%  Similarity=0.306  Sum_probs=26.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|+.|+||||| +.+|+...
T Consensus        20 sl~i~~Ge~~~liG~NGsGKSTL-lk~l~Gl~   50 (249)
T 2qi9_C           20 SGEVRAGEILHLVGPNGAGKSTL-LARMAGMT   50 (249)
T ss_dssp             EEEEETTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            35678899999999999999999 88888753

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=85.04  E-value=0.34  Score=47.56  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             ccccccceeeeecCCCCChhHHHHH
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAID  276 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~  276 (915)
                      +.+-+|+.++|+|++|+||||| +.
T Consensus         4 l~i~~gei~~l~G~nGsGKSTl-~~   27 (171)
T 4gp7_A            4 LTIPELSLVVLIGSSGSGKSTF-AK   27 (171)
T ss_dssp             EEEESSEEEEEECCTTSCHHHH-HH
T ss_pred             ccCCCCEEEEEECCCCCCHHHH-HH
Confidence            3567899999999999999999 45

>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=84.98  E-value=1  Score=48.84  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=21.0

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .-++|.|++|||||+|+..+++..
T Consensus        52 ~~vLl~GppGtGKT~la~aia~~~   75 (322)
T 3eie_A           52 SGILLYGPPGTGKSYLAKAVATEA   75 (322)
T ss_dssp             CEEEEECSSSSCHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHH
Confidence            458999999999999999988764

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=84.92  E-value=0.47  Score=47.20  Aligned_cols=29  Identities=24%  Similarity=0.288  Sum_probs=23.2

Q ss_pred             cccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          253 PIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       253 pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .+.+|..++|.|++|+||||+ +.+++..-
T Consensus         2 ~i~~g~~i~l~G~~GsGKSTl-~~~L~~~~   30 (207)
T 2j41_A            2 DNEKGLLIVLSGPSGVGKGTV-RKRIFEDP   30 (207)
T ss_dssp             --CCCCEEEEECSTTSCHHHH-HHHHHHCT
T ss_pred             CCCCCCEEEEECCCCCCHHHH-HHHHHHhh
Confidence            356799999999999999999 67777653

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=84.80  E-value=0.42  Score=50.68  Aligned_cols=30  Identities=23%  Similarity=0.490  Sum_probs=26.7

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+...
T Consensus        28 l~i~~Ge~~~liG~nGsGKSTL-l~~i~Gl~   57 (266)
T 2yz2_A           28 LVINEGECLLVAGNTGSGKSTL-LQIVAGLI   57 (266)
T ss_dssp             EEECTTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            5788899999999999999999 88888753

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=84.74  E-value=0.44  Score=47.95  Aligned_cols=25  Identities=16%  Similarity=0.405  Sum_probs=20.5

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhh
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +|+.++|+|++|+||||| +.++...
T Consensus         3 ~g~~i~lvGpsGaGKSTL-l~~L~~~   27 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTL-LKKLFQE   27 (198)
T ss_dssp             --CCEEEECCTTSSHHHH-HHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHH-HHHHHhh
Confidence            588999999999999999 7777764

>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=84.73  E-value=1.2  Score=50.82  Aligned_cols=36  Identities=22%  Similarity=0.313  Sum_probs=25.9

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhhc---CCCeEEEEEee
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQK---NKNVICIYVCI  293 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~~---~~~~~~V~~~i  293 (915)
                      +.-++|.|++|+|||+| +..|++..   ..+..++|.-+
T Consensus       130 ~~~lll~Gp~G~GKTtL-a~aia~~l~~~~~~~~v~~v~~  168 (440)
T 2z4s_A          130 YNPLFIYGGVGLGKTHL-LQSIGNYVVQNEPDLRVMYITS  168 (440)
T ss_dssp             SCCEEEECSSSSSHHHH-HHHHHHHHHHHCCSSCEEEEEH
T ss_pred             CCeEEEECCCCCCHHHH-HHHHHHHHHHhCCCCeEEEeeH
Confidence            56789999999999999 57777742   33444556543

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=84.67  E-value=0.41  Score=50.43  Aligned_cols=31  Identities=23%  Similarity=0.515  Sum_probs=26.9

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+....
T Consensus        26 l~i~~Ge~~~l~G~nGsGKSTL-l~~l~Gl~~   56 (253)
T 2nq2_C           26 FDLNKGDILAVLGQNGCGKSTL-LDLLLGIHR   56 (253)
T ss_dssp             EEEETTCEEEEECCSSSSHHHH-HHHHTTSSC
T ss_pred             EEECCCCEEEEECCCCCCHHHH-HHHHhCCCC
Confidence            5678899999999999999999 888887543

>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP, replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP: a.80.1.1 c.37.1.20

Probab=84.65  E-value=2.3  Score=45.13  Aligned_cols=27  Identities=30%  Similarity=0.401  Sum_probs=23.0

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +...++|.|++|+|||+++..+++.+.
T Consensus        45 ~~~~~ll~G~~G~GKT~la~~l~~~l~   71 (327)
T 1iqp_A           45 SMPHLLFAGPPGVGKTTAALALARELF   71 (327)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHHhc
Confidence            334699999999999999999998764

>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=84.56  E-value=0.55  Score=45.96  Aligned_cols=27  Identities=37%  Similarity=0.282  Sum_probs=23.8

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -++..+.|.|++|+||||++..++...
T Consensus         9 ~~~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A            9 MLLPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            367889999999999999999998765

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=84.53  E-value=0.73  Score=51.11  Aligned_cols=30  Identities=17%  Similarity=0.304  Sum_probs=25.9

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      .-+|+.++|.|++|+|||||+..++..+..
T Consensus       120 ~~~~g~i~I~GptGSGKTTlL~~l~g~~~~  149 (356)
T 3jvv_A          120 DVPRGLVLVTGPTGSGKSTTLAAMLDYLNN  149 (356)
T ss_dssp             HCSSEEEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCCCHHHHHHHHHhcccC
Confidence            456779999999999999999999886654

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=84.48  E-value=0.45  Score=52.82  Aligned_cols=33  Identities=27%  Similarity=0.385  Sum_probs=28.2

Q ss_pred             eccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       249 D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |.=+.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        33 ~vsl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~   65 (355)
T 1z47_A           33 GVSFQIREGEMVGLLGPSGSGKTTI-LRLIAGLE   65 (355)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHH-HHHHHTSS
T ss_pred             eeEEEECCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            3445788899999999999999999 89988754

>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=84.39  E-value=0.47  Score=52.77  Aligned_cols=33  Identities=18%  Similarity=0.237  Sum_probs=28.2

Q ss_pred             eccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       249 D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |.=+.+-+|+.++|+|++|+||||| +.+|+..-
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~   53 (359)
T 2yyz_A           21 GVSFEVKDGEFVALLGPSGCGKTTT-LLMLAGIY   53 (359)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHH-HHHHHTSS
T ss_pred             eeEEEEcCCCEEEEEcCCCchHHHH-HHHHHCCC
Confidence            3445778899999999999999999 89988754

>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=84.36  E-value=0.47  Score=53.19  Aligned_cols=32  Identities=22%  Similarity=0.386  Sum_probs=27.6

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .=+.+-+|+.++|+|++||||||| +.+|+..-
T Consensus        22 vsl~i~~Ge~~~llGpsGsGKSTL-Lr~iaGl~   53 (381)
T 3rlf_A           22 INLDIHEGEFVVFVGPSGCGKSTL-LRMIAGLE   53 (381)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHH-HHHHHTSS
T ss_pred             eEEEECCCCEEEEEcCCCchHHHH-HHHHHcCC
Confidence            336778899999999999999999 89988753

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=84.32  E-value=0.83  Score=47.47  Aligned_cols=161  Identities=14%  Similarity=0.140  Sum_probs=86.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCc-hHHHHHHHhhhcCccccEEEEEEcCCCChH-hHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSR-EGNDFYHEMKESNVLDKVSLIYGQMNEPSG-NRLRVAL  761 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~-ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~-~r~~~~~  761 (915)
                      ++.+.+++|||||+++..++........++ +++-++..++ +.+.+++.+..   ..+.++ . -.+.+.. ..+..  
T Consensus         8 ~I~~~~kgGvGKTt~a~~la~~l~~~G~~V-~v~d~D~q~~~~~~al~~gl~~---~~~~~~-~-~~~~~~~e~~l~~--   79 (228)
T 2r8r_A            8 KVFLGAAPGVGKTYAMLQAAHAQLRQGVRV-MAGVVETHGRAETEALLNGLPQ---QPLLRT-E-YRGMTLEEMDLDA--   79 (228)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTCCE-EEEECCCTTCHHHHHHHTTSCB---CCCEEE-E-ETTEEEEECCHHH--
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCCE-EEEEeCCCCChhHHHHhcCccc---cCccee-e-cCCcccccccHHH--
Confidence            477889999999999999999876543333 4555665444 44455444422   222222 1 1111111 11111  


Q ss_pred             HHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEec--
Q psy210          762 TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVP--  839 (915)
Q Consensus       762 ~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~--  839 (915)
                       +      +. ...|+ +++|.+-.              .|....-.+-.|.++..++++      | +..+.|+-+.  
T Consensus        80 -~------L~-~~pdl-vIVDElG~--------------~~~~~~r~~~~~qDV~~~l~s------g-idVitT~Nlqh~  129 (228)
T 2r8r_A           80 -L------LK-AAPSL-VLVDELAH--------------TNAPGSRHTKRWQDIQELLAA------G-IDVYTTVNVQHL  129 (228)
T ss_dssp             -H------HH-HCCSE-EEESCTTC--------------BCCTTCSSSBHHHHHHHHHHT------T-CEEEEEEEGGGB
T ss_pred             -H------Hh-cCCCE-EEEeCCCC--------------CCcccchhHHHHHHHHHHHcC------C-CCEEEEcccccc
Confidence             1      11 24565 55686652              112222234578888887763      2 4566666543  


Q ss_pred             -----------CCCCCCCcccccccccCcEEEe--------eHHHHhcCCCccccCCCCcccc
Q psy210          840 -----------ADDLTDPSPSTTFTHLDSTIVL--------SRQIAELGIYPAIDPLESYSKQ  883 (915)
Q Consensus       840 -----------~~d~~dpi~~~~~~i~dg~ivL--------sr~La~~g~~PAIdv~~S~SR~  883 (915)
                                 +--..+-|||.++.--|- |+|        -+.|++-.+|++-.+-...+.+
T Consensus       130 esl~d~v~~itg~~v~e~vpd~~~~~a~~-v~lvD~~p~~l~~rl~~g~vy~~~~~~~a~~~~  191 (228)
T 2r8r_A          130 ESLNDQVRGITGVQVRETLPDWVLQEAFD-LVLIDLPPRELLERLRDGKVYVPEQARAAIDAF  191 (228)
T ss_dssp             GGGHHHHHHHHSCCCCSCBCHHHHHTCSE-EEEBCCCHHHHHHHHHTTCCCCTTCCHHHHHHH
T ss_pred             ccHHHHHHHHcCCCcCCcCccHHHhhCCe-EEEecCCHHHHHHHHHCCCccChhHHHHHHHhh
Confidence                       223346677776655554 444        4557787888876654444443

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=84.31  E-value=1  Score=51.30  Aligned_cols=24  Identities=29%  Similarity=0.459  Sum_probs=21.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -++++||||||||.|+..+|..+.
T Consensus       217 GvLL~GPPGtGKTllAkAiA~e~~  240 (437)
T 4b4t_L          217 GVLLYGPPGTGKTLLAKAVAATIG  240 (437)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCcHHHHHHHHHHHhC
Confidence            389999999999999999887653

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=84.23  E-value=0.48  Score=52.77  Aligned_cols=33  Identities=24%  Similarity=0.353  Sum_probs=28.1

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      .=+.+-+|+.++|+|++|+||||| +.+|+....
T Consensus        22 vsl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~~   54 (362)
T 2it1_A           22 INLKIKDGEFMALLGPSGSGKSTL-LYTIAGIYK   54 (362)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHH-HHHHHTSSC
T ss_pred             eEEEECCCCEEEEECCCCchHHHH-HHHHhcCCC
Confidence            345678899999999999999999 899987543

>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=84.21  E-value=0.81  Score=46.99  Aligned_cols=31  Identities=32%  Similarity=0.387  Sum_probs=26.8

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+....
T Consensus        30 l~i~~Ge~~~iiG~NGsGKSTL-lk~l~Gl~~   60 (214)
T 1sgw_A           30 MTIEKGNVVNFHGPNGIGKTTL-LKTISTYLK   60 (214)
T ss_dssp             EEEETTCCEEEECCTTSSHHHH-HHHHTTSSC
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHhcCCC
Confidence            4677899999999999999999 888887543

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=84.20  E-value=0.69  Score=46.50  Aligned_cols=83  Identities=17%  Similarity=0.303  Sum_probs=45.8

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeecc--chh----------hHHHHHHHHhccCCcceEEEEEecCCCCH
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQ--KIS----------SLINVINKLKYYNCMDYTVVVAATAADSA  327 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGe--r~~----------ev~~~~~~l~~~~~~~~tvvv~~~a~~~~  327 (915)
                      +.|.||+|+||||| ++.+.......+....-..-.  |..          .-.+|.+...+...+++..+.        
T Consensus         4 IVi~GPSG~GK~Tl-~~~L~~~~~~~~~~svs~TTR~pR~gE~~G~dY~Fvs~~eF~~~i~~g~flE~~~~~--------   74 (186)
T 1ex7_A            4 IVISGPSGTGKSTL-LKKLFAEYPDSFGFSVSSTTRTPRAGEVNGKDYNFVSVDEFKSMIKNNEFIEWAQFS--------   74 (186)
T ss_dssp             EEEECCTTSSHHHH-HHHHHHHCTTTEEECCCEECSCCCTTCCBTTTBEECCHHHHHHHHHTTCEEEEEEET--------
T ss_pred             EEEECCCCCCHHHH-HHHHHHhCCCCeEEEEEEeccCCCCCCcCCceeEeecHHHHHHHHHcCCEEEEEEEc--------
Confidence            45899999999999 566665433333211111111  111          124666666666656554431        


Q ss_pred             HHhhhhhhhhhhhHH--HHHhcCCcEEEEec
Q psy210          328 AEQYISPYTGCTIGE--YFRDLGQDCLIIYD  356 (915)
Q Consensus       328 ~~r~~~~~~a~tiAE--y~r~~g~~Vlv~~D  356 (915)
                           --+.|++..+  ...++|++|++-+|
T Consensus        75 -----g~~YGt~~~~v~~~l~~g~~vil~id  100 (186)
T 1ex7_A           75 -----GNYYGSTVASVKQVSKSGKTCILDID  100 (186)
T ss_dssp             -----TEEEEEEHHHHHHHHHHTSEEEEECC
T ss_pred             -----CceeeeecceeeehhhCCCEEEecCC
Confidence                 2235555443  33467999888776

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=84.19  E-value=0.45  Score=48.65  Aligned_cols=27  Identities=22%  Similarity=0.175  Sum_probs=23.2

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +-+|+.++|+|+.|+||||| +.+|+..
T Consensus        19 i~~Ge~~~liG~nGsGKSTL-l~~l~Gl   45 (208)
T 3b85_A           19 IDTNTIVFGLGPAGSGKTYL-AMAKAVQ   45 (208)
T ss_dssp             HHHCSEEEEECCTTSSTTHH-HHHHHHH
T ss_pred             ccCCCEEEEECCCCCCHHHH-HHHHhcC
Confidence            46799999999999999999 7777653

>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=84.17  E-value=0.48  Score=52.94  Aligned_cols=32  Identities=25%  Similarity=0.368  Sum_probs=27.7

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .=+.+-+|+.++|+|++|+||||| |.+|+..-
T Consensus        30 vsl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~   61 (372)
T 1v43_A           30 LNLTIKDGEFLVLLGPSGCGKTTT-LRMIAGLE   61 (372)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHH-HHHHHTSS
T ss_pred             eEEEECCCCEEEEECCCCChHHHH-HHHHHcCC
Confidence            345778899999999999999999 89998754

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=83.98  E-value=0.32  Score=54.06  Aligned_cols=31  Identities=29%  Similarity=0.309  Sum_probs=27.2

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+-+|+.++|.|++|+|||||+..++....
T Consensus       170 ~~i~~G~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          170 RAVQLERVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             HHHHTTCCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             HHHhcCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4577999999999999999999999887543

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=83.94  E-value=0.55  Score=46.29  Aligned_cols=25  Identities=20%  Similarity=0.449  Sum_probs=21.6

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhh
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +|..++|+|++|+||||| +..+...
T Consensus         4 ~g~~i~i~GpsGsGKSTL-~~~L~~~   28 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHI-KNTLITK   28 (180)
T ss_dssp             CCCEEEEECCTTSSHHHH-HHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHH-HHHHHhh
Confidence            478899999999999999 6777764

>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=83.87  E-value=0.25  Score=53.39  Aligned_cols=32  Identities=31%  Similarity=0.399  Sum_probs=26.6

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      ||-++.+-+|+..+|+|++|+|||||+..|+.
T Consensus       160 v~~lf~~l~geiv~l~G~sG~GKSTll~~l~g  191 (301)
T 1u0l_A          160 IEELKEYLKGKISTMAGLSGVGKSSLLNAINP  191 (301)
T ss_dssp             HHHHHHHHSSSEEEEECSTTSSHHHHHHHHST
T ss_pred             HHHHHHHhcCCeEEEECCCCCcHHHHHHHhcc
Confidence            34455667799999999999999999987764

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=83.86  E-value=0.68  Score=49.24  Aligned_cols=29  Identities=28%  Similarity=0.412  Sum_probs=23.4

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhhcCCC
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQKNKN  285 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~  285 (915)
                      +.+|  ++|+|++|||||+| +.+|++....+
T Consensus        43 ~~~G--vlL~Gp~GtGKTtL-akala~~~~~~   71 (274)
T 2x8a_A           43 TPAG--VLLAGPPGCGKTLL-AKAVANESGLN   71 (274)
T ss_dssp             CCSE--EEEESSTTSCHHHH-HHHHHHHTTCE
T ss_pred             CCCe--EEEECCCCCcHHHH-HHHHHHHcCCC
Confidence            4456  99999999999999 68888765554

>2chq_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATP ATP-binding, nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus fulgidus} PDB: 2chv_A

Probab=83.80  E-value=1  Score=47.79  Aligned_cols=27  Identities=26%  Similarity=0.373  Sum_probs=22.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +...+.|.|++|+|||+++..+++.+.
T Consensus        37 ~~~~~ll~G~~G~GKt~la~~l~~~l~   63 (319)
T 2chq_A           37 NIPHLLFSGPPGTGKTATAIALARDLF   63 (319)
T ss_dssp             CCCCEEEESSSSSSHHHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCcCHHHHHHHHHHHhc
Confidence            333599999999999999999998763

>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=83.77  E-value=0.5  Score=52.79  Aligned_cols=33  Identities=21%  Similarity=0.402  Sum_probs=28.2

Q ss_pred             eccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       249 D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |.=+.+-+|+.++|+|++|+||||| |.+|+..-
T Consensus        21 ~vsl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~   53 (372)
T 1g29_1           21 EMSLEVKDGEFMILLGPSGCGKTTT-LRMIAGLE   53 (372)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHH-HHHHHTSS
T ss_pred             eeEEEEcCCCEEEEECCCCcHHHHH-HHHHHcCC
Confidence            3446788899999999999999999 89988754

>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=83.75  E-value=0.3  Score=54.26  Aligned_cols=31  Identities=29%  Similarity=0.300  Sum_probs=25.3

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.+....+|+.++|+|++|+|||||+..|+.
T Consensus       207 ~~L~~~~~G~~~~lvG~sG~GKSTLln~L~g  237 (358)
T 2rcn_A          207 KPLEEALTGRISIFAGQSGVGKSSLLNALLG  237 (358)
T ss_dssp             HHHHHHHTTSEEEEECCTTSSHHHHHHHHHC
T ss_pred             HHHHHhcCCCEEEEECCCCccHHHHHHHHhc
Confidence            3344456899999999999999999987764

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=83.72  E-value=4.3  Score=44.56  Aligned_cols=37  Identities=22%  Similarity=0.335  Sum_probs=28.3

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEE
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVF  716 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~  716 (915)
                      ++.-+++|.|.+|+|||||+..++.........+.|+
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~g~kV~vi  113 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVL  113 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHHHHhCCCceEEE
Confidence            4556899999999999999999998775433344443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=83.71  E-value=0.87  Score=50.24  Aligned_cols=36  Identities=22%  Similarity=0.274  Sum_probs=27.8

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      +.+++|+|++|+|||||+..++.........+.|++
T Consensus        74 ~~~v~lvG~pgaGKSTLln~L~~~~~~~~~~v~V~~  109 (349)
T 2www_A           74 AFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLA  109 (349)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHhhhcCCeEEEEe
Confidence            678999999999999999999986654333444444

>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=83.69  E-value=0.45  Score=46.30  Aligned_cols=25  Identities=24%  Similarity=0.322  Sum_probs=21.5

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +|.|++|+|++|+|||+|+..++..
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999888753

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=83.66  E-value=3.6  Score=44.78  Aligned_cols=27  Identities=26%  Similarity=0.262  Sum_probs=21.4

Q ss_pred             cccccceeeeecCCCCChhHHHHHHHHh
Q psy210          253 PIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       253 pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ...+|+.++|.|..|+||||++ ..++.
T Consensus       101 ~~~~~~vI~ivG~~G~GKTT~~-~~LA~  127 (320)
T 1zu4_A          101 KENRLNIFMLVGVNGTGKTTSL-AKMAN  127 (320)
T ss_dssp             CTTSCEEEEEESSTTSSHHHHH-HHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHH-HHHHH
Confidence            3567899999999999999995 44443

>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=83.55  E-value=1.2  Score=48.78  Aligned_cols=39  Identities=28%  Similarity=0.288  Sum_probs=26.9

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhhc--------CC-CeEEEEEeecc
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQK--------NK-NVICIYVCIGQ  295 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~~--------~~-~~~~V~~~iGe  295 (915)
                      .+.-+.|.|++|+|||++ +..++++.        +. +..+++.-+..
T Consensus        44 ~~~~vll~G~~G~GKT~l-a~~l~~~~~~~~~~~~~~~~~~~~~i~~~~   91 (384)
T 2qby_B           44 VKFSNLFLGLTGTGKTFV-SKYIFNEIEEVKKEDEEYKDVKQAYVNCRE   91 (384)
T ss_dssp             CCCEEEEEECTTSSHHHH-HHHHHHHHHHHHHHSSSSTTCEEEEEEHHH
T ss_pred             CCCcEEEECCCCCCHHHH-HHHHHHHHHHHhhhhcCCCCceEEEEECcc
Confidence            356799999999999999 46666542        11 55566766543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=83.52  E-value=0.94  Score=49.03  Aligned_cols=27  Identities=19%  Similarity=0.474  Sum_probs=24.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .++-+.|.|++|+|||+|+..+++...
T Consensus       151 ~~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          151 EQKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             SCCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            468899999999999999999998776

>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=83.47  E-value=0.59  Score=45.74  Aligned_cols=27  Identities=33%  Similarity=0.427  Sum_probs=24.3

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +|..++|.|++|+||||++..++....
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~   30 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLV   30 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            588899999999999999999988664

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=83.42  E-value=0.56  Score=47.19  Aligned_cols=24  Identities=25%  Similarity=0.387  Sum_probs=20.9

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhh
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |++++|+|+.|+||||| +.+|+..
T Consensus         1 G~~i~i~G~nG~GKTTl-l~~l~g~   24 (189)
T 2i3b_A            1 ARHVFLTGPPGVGKTTL-IHKASEV   24 (189)
T ss_dssp             CCCEEEESCCSSCHHHH-HHHHHHH
T ss_pred             CCEEEEECCCCChHHHH-HHHHHhh
Confidence            78999999999999999 7777753

>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=83.37  E-value=0.48  Score=51.07  Aligned_cols=30  Identities=27%  Similarity=0.451  Sum_probs=26.5

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|+|+.|+||||| +.+|+...
T Consensus        59 l~i~~Ge~~~i~G~NGsGKSTL-lk~l~Gl~   88 (290)
T 2bbs_A           59 FKIERGQLLAVAGSTGAGKTSL-LMMIMGEL   88 (290)
T ss_dssp             EEECTTCEEEEEESTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCCcHHHH-HHHHhcCC
Confidence            5677899999999999999999 88888753

>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=83.30  E-value=0.58  Score=44.96  Aligned_cols=23  Identities=22%  Similarity=0.088  Sum_probs=20.4

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.|.|++|+||||++..++...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~l   25 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKEL   25 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=83.24  E-value=6.2  Score=45.76  Aligned_cols=34  Identities=21%  Similarity=0.129  Sum_probs=25.7

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEE
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSV  715 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v  715 (915)
                      ...+.|+|.+|+||||++..++...+.....+.+
T Consensus       101 ~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVll  134 (504)
T 2j37_W          101 QNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCL  134 (504)
T ss_dssp             -EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEE
Confidence            3468899999999999999999887654333433

>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=83.22  E-value=0.83  Score=49.87  Aligned_cols=28  Identities=29%  Similarity=0.433  Sum_probs=23.1

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      +.++|.|++|+||||| +..|++.-+.++
T Consensus        52 ~~~ll~Gp~G~GKTTL-a~~ia~~l~~~~   79 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTL-AHIIASELQTNI   79 (334)
T ss_dssp             CCEEEESSTTSSHHHH-HHHHHHHHTCCE
T ss_pred             CeEEEECCCCCcHHHH-HHHHHHHhCCCE
Confidence            6789999999999999 688888655554

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=83.14  E-value=3.9  Score=46.45  Aligned_cols=40  Identities=18%  Similarity=0.189  Sum_probs=29.0

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHHHhc-CCcEEEEEEecCCC
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNIAIE-HKGCSVFIGVGERS  723 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~~~~-~~~~~v~~~iGer~  723 (915)
                      ..+.++|..|+||||++..++...+.. ... +.++-++-..
T Consensus       101 ~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~k-Vllvd~D~~r  141 (433)
T 2xxa_A          101 AVVLMAGLQGAGKTTSVGKLGKFLREKHKKK-VLVVSADVYR  141 (433)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHHHTSCCC-EEEEECCCSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHhcCCe-EEEEecCCCC
Confidence            467788999999999999999988764 333 3444555433

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=83.08  E-value=0.51  Score=55.35  Aligned_cols=34  Identities=24%  Similarity=0.331  Sum_probs=28.3

Q ss_pred             eeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          247 SIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       247 aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +++.+..+-+|++++|+|+.|+||||| +.+|+..
T Consensus        37 ~l~~vs~i~~Ge~~~LvG~NGaGKSTL-lk~l~Gl   70 (538)
T 1yqt_A           37 VLYRLPVVKEGMVVGIVGPNGTGKSTA-VKILAGQ   70 (538)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHH-HHHHHTS
T ss_pred             cccCcCcCCCCCEEEEECCCCCCHHHH-HHHHhCC
Confidence            555555678899999999999999999 7777764

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=83.04  E-value=0.47  Score=48.66  Aligned_cols=28  Identities=21%  Similarity=0.281  Sum_probs=19.0

Q ss_pred             cccccceeeeecCCCCChhHHHHHHHH-hh
Q psy210          253 PIGKGQRELIIGDRQTGKTTIAIDTII-NQ  281 (915)
Q Consensus       253 pigrGqr~~I~g~~g~GKt~l~l~~i~-~~  281 (915)
                      .+-+|+.++|.|++|+||||| +.+++ ..
T Consensus        23 ~v~~G~ii~l~Gp~GsGKSTl-~~~L~~~~   51 (231)
T 3lnc_A           23 LKSVGVILVLSSPSGCGKTTV-ANKLLEKQ   51 (231)
T ss_dssp             CEECCCEEEEECSCC----CH-HHHHHC--
T ss_pred             ccCCCCEEEEECCCCCCHHHH-HHHHHhcC
Confidence            456799999999999999999 78777 53

>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=83.02  E-value=1.2  Score=52.09  Aligned_cols=47  Identities=15%  Similarity=0.188  Sum_probs=29.6

Q ss_pred             ceeeeecCCCCChhHHHHHHHHh----h--cCCCeEEEEEeeccch-hhHHHHHHH
Q psy210          258 QRELIIGDRQTGKTTIAIDTIIN----Q--KNKNVICIYVCIGQKI-SSLINVINK  306 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~----~--~~~~~~~V~~~iGer~-~ev~~~~~~  306 (915)
                      .-++|.|..|+|||+||. .+.+    .  ..-+. ++|+-+.+.. ..+.++...
T Consensus       153 ~vv~I~G~gGvGKTtLA~-~v~~~~~~~~~~~F~~-~~wv~vs~~~~~~~~~~~~~  206 (549)
T 2a5y_B          153 FFLFLHGRAGSGKSVIAS-QALSKSDQLIGINYDS-IVWLKDSGTAPKSTFDLFTD  206 (549)
T ss_dssp             EEEEEECSTTSSHHHHHH-HHHHHCSSTBTTTBSE-EEEEECCCCSTTHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHH-HHHHhhhHHHhccCCc-EEEEEECCCCCCCHHHHHHH
Confidence            457899999999999975 4553    2  23344 5677777653 133444443

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=83.01  E-value=0.44  Score=50.24  Aligned_cols=30  Identities=27%  Similarity=0.258  Sum_probs=26.0

Q ss_pred             ccccc---CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLK---GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigk---GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+   |+.+.|+|++|+||||++..++...
T Consensus        40 ~~i~~~l~g~~i~l~G~~GsGKSTl~~~La~~l   72 (250)
T 3nwj_A           40 EEVKPYLNGRSMYLVGMMGSGKTTVGKIMARSL   72 (250)
T ss_dssp             HTTHHHHTTCCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hhhhhhcCCCEEEEECCCCCCHHHHHHHHHHhc
Confidence            34556   9999999999999999999998754

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=83.01  E-value=1.4  Score=49.72  Aligned_cols=30  Identities=27%  Similarity=0.447  Sum_probs=24.9

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhcCCCeE
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQKNKNVI  287 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~  287 (915)
                      -+|  +++.|++|||||.| ..++++..+..+.
T Consensus       182 prG--vLL~GPPGTGKTll-AkAiA~e~~~~f~  211 (405)
T 4b4t_J          182 PKG--VILYGPPGTGKTLL-ARAVAHHTDCKFI  211 (405)
T ss_dssp             CCC--EEEESCSSSSHHHH-HHHHHHHHTCEEE
T ss_pred             CCc--eEEeCCCCCCHHHH-HHHHHHhhCCCce
Confidence            345  89999999999999 5889988777763

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=82.88  E-value=0.61  Score=48.40  Aligned_cols=29  Identities=17%  Similarity=0.211  Sum_probs=22.6

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+.+|..++|.|+.|+||||| +.+|+..
T Consensus        20 l~i~~g~iigI~G~~GsGKSTl-~k~L~~~   48 (245)
T 2jeo_A           20 FQSMRPFLIGVSGGTASGKSTV-CEKIMEL   48 (245)
T ss_dssp             ---CCSEEEEEECSTTSSHHHH-HHHHHHH
T ss_pred             ccCCCCEEEEEECCCCCCHHHH-HHHHHHH
Confidence            4677899999999999999999 5776653

>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=82.76  E-value=0.46  Score=56.16  Aligned_cols=33  Identities=21%  Similarity=0.310  Sum_probs=28.1

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..++.-.
T Consensus       361 ~v~~~i~~G~~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          361 NINLKIPAGKTVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTCEEEEEECTTSSHHHHHHHHTTTT
T ss_pred             ceeEEEcCCCEEEEECCCCCCHHHHHHHHhhcc
Confidence            344578899999999999999999999887643

>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=82.74  E-value=0.56  Score=52.74  Aligned_cols=29  Identities=28%  Similarity=0.554  Sum_probs=26.1

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|++||||||| +.+|+..
T Consensus        42 l~i~~Ge~~~llGpsGsGKSTL-Lr~iaGl   70 (390)
T 3gd7_A           42 FSISPGQRVGLLGRTGSGKSTL-LSAFLRL   70 (390)
T ss_dssp             EEECTTCEEEEEESTTSSHHHH-HHHHHTC
T ss_pred             EEEcCCCEEEEECCCCChHHHH-HHHHhCC
Confidence            4788899999999999999999 8888864

>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=82.71  E-value=0.91  Score=47.06  Aligned_cols=30  Identities=27%  Similarity=0.449  Sum_probs=23.7

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      +-+|  ++|+|++|||||+| +.+|++......
T Consensus        48 ~~~g--~ll~G~~G~GKTtl-~~~i~~~~~~~~   77 (254)
T 1ixz_A           48 IPKG--VLLVGPPGVGKTHL-ARAVAGEARVPF   77 (254)
T ss_dssp             CCSE--EEEECCTTSSHHHH-HHHHHHHTTCCE
T ss_pred             CCCe--EEEECCCCCCHHHH-HHHHHHHhCCCE
Confidence            3456  89999999999999 688887755443

>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=82.62  E-value=0.31  Score=48.64  Aligned_cols=32  Identities=25%  Similarity=0.500  Sum_probs=26.2

Q ss_pred             eeeccccccccceeeeecCCCCChhHHHHHHHHh
Q psy210          247 SIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       247 aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      +++. +++.+|.+++|+|++|+||||| +..+..
T Consensus        17 ~l~~-~~~~~~~~v~lvG~~g~GKSTL-l~~l~g   48 (210)
T 1pui_A           17 DIRH-LPSDTGIEVAFAGRSNAGKSSA-LNTLTN   48 (210)
T ss_dssp             SGGG-SSCSCSEEEEEEECTTSSHHHH-HTTTCC
T ss_pred             CHhH-CCCCCCcEEEEECCCCCCHHHH-HHHHhC
Confidence            4444 7889999999999999999999 555543

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=82.60  E-value=0.66  Score=46.23  Aligned_cols=28  Identities=32%  Similarity=0.312  Sum_probs=24.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +|..+.|.|++|+||||++..++.....
T Consensus         3 ~~~~I~i~G~~GsGKsT~~~~L~~~l~~   30 (213)
T 2plr_A            3 KGVLIAFEGIDGSGKSSQATLLKDWIEL   30 (213)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhh
Confidence            4678999999999999999999987643

>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=82.59  E-value=0.43  Score=52.87  Aligned_cols=32  Identities=22%  Similarity=0.370  Sum_probs=27.6

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .=+.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        19 vsl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~   50 (348)
T 3d31_A           19 LSLKVESGEYFVILGPTGAGKTLF-LELIAGFH   50 (348)
T ss_dssp             EEEEECTTCEEEEECCCTHHHHHH-HHHHHTSS
T ss_pred             eEEEEcCCCEEEEECCCCccHHHH-HHHHHcCC
Confidence            335678899999999999999999 89998754

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=82.59  E-value=0.72  Score=45.19  Aligned_cols=25  Identities=32%  Similarity=0.224  Sum_probs=22.3

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +..+.|.|++|+||||++..+++..
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            5678999999999999999998765

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=82.57  E-value=0.7  Score=44.64  Aligned_cols=24  Identities=29%  Similarity=0.271  Sum_probs=22.0

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |-++|.|++|+||||++..++...
T Consensus         8 ~~i~l~G~~GsGKSTva~~La~~l   31 (168)
T 1zuh_A            8 QHLVLIGFMGSGKSSLAQELGLAL   31 (168)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            789999999999999999998765

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=82.56  E-value=0.6  Score=46.88  Aligned_cols=27  Identities=26%  Similarity=0.238  Sum_probs=21.7

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      .-+|..++|.|+.|+||||| +..|+..
T Consensus         3 ~~~~~~i~i~G~~GsGKSTl-~~~l~~~   29 (211)
T 3asz_A            3 APKPFVIGIAGGTASGKTTL-AQALART   29 (211)
T ss_dssp             --CCEEEEEEESTTSSHHHH-HHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHH-HHHHHHH
Confidence            34688999999999999999 6777664

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=82.39  E-value=0.67  Score=46.70  Aligned_cols=23  Identities=30%  Similarity=0.465  Sum_probs=20.5

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++|.|++|+||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998754

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=82.19  E-value=0.61  Score=49.46  Aligned_cols=29  Identities=28%  Similarity=0.585  Sum_probs=25.4

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+- |+.++|+|++|+||||| +.+|+...
T Consensus        26 l~i~-Ge~~~i~G~NGsGKSTL-lk~l~Gl~   54 (263)
T 2pjz_A           26 LEVN-GEKVIILGPNGSGKTTL-LRAISGLL   54 (263)
T ss_dssp             EEEC-SSEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEC-CEEEEEECCCCCCHHHH-HHHHhCCC
Confidence            4667 99999999999999999 88888754

>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=82.06  E-value=0.67  Score=46.78  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=20.2

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++|.|++|+||||++..++...
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999987653

>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=82.04  E-value=0.66  Score=51.69  Aligned_cols=35  Identities=23%  Similarity=0.345  Sum_probs=28.4

Q ss_pred             eeee-ccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          246 KSID-SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       246 ~aiD-~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      .+++ .=+.+-+|+..+|+|++|+||||| +.+|+..
T Consensus        42 ~aL~~vsl~i~~Gei~~IiGpnGaGKSTL-lr~i~GL   77 (366)
T 3tui_C           42 QALNNVSLHVPAGQIYGVIGASGAGKSTL-IRCVNLL   77 (366)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHH-HHHHHTS
T ss_pred             EEEEeeEEEEcCCCEEEEEcCCCchHHHH-HHHHhcC
Confidence            4443 346788899999999999999999 7887764

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=82.00  E-value=0.51  Score=55.31  Aligned_cols=30  Identities=33%  Similarity=0.478  Sum_probs=26.3

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-+|+.++|+|++|+|||||+..|+.-.
T Consensus       289 ~~i~~Gei~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          289 GEAKEGEIIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEETTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             ceECCCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            467899999999999999999999887643

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=81.99  E-value=0.57  Score=49.60  Aligned_cols=33  Identities=24%  Similarity=0.303  Sum_probs=26.7

Q ss_pred             eeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          247 SIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       247 aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +++.+. +-+|+.++|.|+.|+||||| +..|+..
T Consensus        16 vl~~i~-i~~g~~v~i~Gp~GsGKSTl-l~~l~g~   48 (261)
T 2eyu_A           16 KVLELC-HRKMGLILVTGPTGSGKSTT-IASMIDY   48 (261)
T ss_dssp             HHHHGG-GCSSEEEEEECSTTCSHHHH-HHHHHHH
T ss_pred             HHHHHh-hCCCCEEEEECCCCccHHHH-HHHHHHh
Confidence            344444 77899999999999999999 7777764

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=81.89  E-value=6  Score=43.81  Aligned_cols=25  Identities=28%  Similarity=0.345  Sum_probs=21.7

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.-++|.|++|||||+|+..+++..
T Consensus       148 ~~~vLL~GppGtGKT~la~aia~~~  172 (389)
T 3vfd_A          148 ARGLLLFGPPGNGKTMLAKAVAAES  172 (389)
T ss_dssp             CSEEEEESSTTSCHHHHHHHHHHHT
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhh
Confidence            4679999999999999999887653

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=81.83  E-value=0.53  Score=55.84  Aligned_cols=30  Identities=33%  Similarity=0.412  Sum_probs=26.6

Q ss_pred             ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          676 LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       676 l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      =+.+-+|+.++|+|++|+|||||+..++.-
T Consensus       375 sl~i~~G~~~~ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          375 TFHIKPGQKVALVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EEECCTTCEEEEECCTTSSTTHHHHHHTTS
T ss_pred             EEEEcCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            356889999999999999999999888764

>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=81.67  E-value=2.2  Score=42.50  Aligned_cols=22  Identities=32%  Similarity=0.416  Sum_probs=18.1

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      -++|.|++|+|||++ +..+++.
T Consensus        47 ~~ll~G~~G~GKT~l-~~~~~~~   68 (250)
T 1njg_A           47 AYLFSGTRGVGKTSI-ARLLAKG   68 (250)
T ss_dssp             EEEEECSTTSCHHHH-HHHHHHH
T ss_pred             EEEEECCCCCCHHHH-HHHHHHH
Confidence            578999999999999 4666654

>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=81.67  E-value=0.61  Score=55.48  Aligned_cols=34  Identities=26%  Similarity=0.326  Sum_probs=28.3

Q ss_pred             eeeccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          247 SIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       247 aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +++.+..+-+|+.++|+|+.|+||||| +.+|+..
T Consensus       107 ~l~~vs~i~~Ge~~~LiG~NGsGKSTL-lkiL~Gl  140 (607)
T 3bk7_A          107 VLYRLPIVKDGMVVGIVGPNGTGKTTA-VKILAGQ  140 (607)
T ss_dssp             EEECCCCCCTTSEEEEECCTTSSHHHH-HHHHTTS
T ss_pred             eeCCCCCCCCCCEEEEECCCCChHHHH-HHHHhCC
Confidence            556665678899999999999999999 7777754

>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=81.65  E-value=0.63  Score=58.16  Aligned_cols=30  Identities=20%  Similarity=0.356  Sum_probs=27.1

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .=+.+.+|++++|+|++|+|||||+..|+.
T Consensus       454 vsl~I~~Ge~v~LiGpNGsGKSTLLk~Lag  483 (986)
T 2iw3_A          454 TQLRLKRARRYGICGPNGCGKSTLMRAIAN  483 (986)
T ss_dssp             EEEEEETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEcCCCEEEEECCCCCCHHHHHHHHhC
Confidence            445789999999999999999999999984

>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=81.58  E-value=0.63  Score=46.45  Aligned_cols=21  Identities=33%  Similarity=0.529  Sum_probs=19.5

Q ss_pred             eeeeccCCCCChhhHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +++|.|++|+||||++..++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999998886

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=81.58  E-value=0.34  Score=53.14  Aligned_cols=31  Identities=26%  Similarity=0.402  Sum_probs=26.7

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+-+|+.++|.|++|+|||||+..++....
T Consensus       166 ~~i~~g~~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          166 DGIAIGKNVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             HHHHHTCCEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             hhccCCCEEEEECCCCCCHHHHHHHHhCCCc
Confidence            4567899999999999999999998887543

>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=81.56  E-value=0.54  Score=51.08  Aligned_cols=30  Identities=23%  Similarity=0.388  Sum_probs=26.7

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|++++|+|++|+||||| +..|...-
T Consensus        75 l~i~~Ge~vaivG~sGsGKSTL-l~ll~gl~  104 (306)
T 3nh6_A           75 FTVMPGQTLALVGPSGAGKSTI-LRLLFRFY  104 (306)
T ss_dssp             EEECTTCEEEEESSSCHHHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCchHHHH-HHHHHcCC
Confidence            5788899999999999999999 78888754

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=81.35  E-value=1.6  Score=50.03  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=21.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -+++.||||||||.|+..+|..+.
T Consensus       245 GILLyGPPGTGKTlLAkAiA~e~~  268 (467)
T 4b4t_H          245 GILLYGPPGTGKTLCARAVANRTD  268 (467)
T ss_dssp             EEEECSCTTSSHHHHHHHHHHHHT
T ss_pred             ceEeeCCCCCcHHHHHHHHHhccC
Confidence            489999999999999998887653

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=81.34  E-value=2.1  Score=41.86  Aligned_cols=24  Identities=29%  Similarity=0.344  Sum_probs=21.3

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .++|.|++|+||||++..++....
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~   25 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLK   25 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999998764

>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=81.32  E-value=0.6  Score=52.23  Aligned_cols=30  Identities=20%  Similarity=0.037  Sum_probs=26.4

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ..+.+|+.++|.|++|+|||||+..++...
T Consensus       164 ~~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          164 YNIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             HCCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             cccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            467889999999999999999999888643

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=81.31  E-value=0.81  Score=45.04  Aligned_cols=27  Identities=26%  Similarity=0.412  Sum_probs=23.9

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .++..+.|.|++|+||||++..++...
T Consensus         7 ~~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            7 KKTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TTSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            467889999999999999999998765

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=81.23  E-value=0.96  Score=51.29  Aligned_cols=28  Identities=21%  Similarity=0.339  Sum_probs=25.3

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -+|+-++|.|++|+|||||+..++..+.
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            6789999999999999999999987664

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=81.22  E-value=2.2  Score=46.32  Aligned_cols=24  Identities=29%  Similarity=0.368  Sum_probs=21.4

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .-++|+||+|||||+|+..+++..
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHc
Confidence            458999999999999999998765

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=81.06  E-value=7.1  Score=40.52  Aligned_cols=52  Identities=10%  Similarity=0.049  Sum_probs=34.8

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM  733 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~  733 (915)
                      +|.-+.|.|++|+||||++..++......+-.+ +...--..+.+..+.++++
T Consensus        26 ~~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~-~~~~rep~~t~~g~~ir~~   77 (236)
T 3lv8_A           26 NAKFIVIEGLEGAGKSTAIQVVVETLQQNGIDH-ITRTREPGGTLLAEKLRAL   77 (236)
T ss_dssp             CCCEEEEEESTTSCHHHHHHHHHHHHHHTTCCC-EEEEESSCSSHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCe-eeeecCCCCCHHHHHHHHH
Confidence            688899999999999999999998876533221 2222222344555666554

>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=81.02  E-value=0.8  Score=47.11  Aligned_cols=28  Identities=14%  Similarity=0.419  Sum_probs=23.0

Q ss_pred             cccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          255 GKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       255 grGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      -+|+-++|+|++|+||||| +..|.....
T Consensus        14 ~~G~ii~l~GpsGsGKSTL-lk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSL-IQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHH-HHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHH-HHHHhccCC
Confidence            3589999999999999999 788776543

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=80.90  E-value=0.84  Score=45.11  Aligned_cols=24  Identities=33%  Similarity=0.661  Sum_probs=21.4

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .+.|.|++|+||||++..+++...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            578999999999999999998763

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=80.88  E-value=1.4  Score=43.66  Aligned_cols=26  Identities=23%  Similarity=0.156  Sum_probs=22.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhc
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      .++|.|++|+|||||+..++..+...
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l~~~   31 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAAVRE   31 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhHhc
Confidence            57899999999999999999887643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=80.87  E-value=0.86  Score=47.94  Aligned_cols=26  Identities=27%  Similarity=0.339  Sum_probs=22.6

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.-++|.|++|||||+|+..+++..
T Consensus        50 ~~~~~ll~G~~GtGKT~la~~la~~~   75 (285)
T 3h4m_A           50 PPKGILLYGPPGTGKTLLAKAVATET   75 (285)
T ss_dssp             CCSEEEEESSSSSSHHHHHHHHHHHT
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHHh
Confidence            45669999999999999999988764

>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=80.86  E-value=0.44  Score=52.84  Aligned_cols=31  Identities=35%  Similarity=0.448  Sum_probs=27.2

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|++|+||||| +.+|+...
T Consensus        25 sl~i~~Ge~~~llGpnGsGKSTL-Lr~iaGl~   55 (353)
T 1oxx_K           25 NINIENGERFGILGPSGAGKTTF-MRIIAGLD   55 (353)
T ss_dssp             EEEECTTCEEEEECSCHHHHHHH-HHHHHTSS
T ss_pred             EEEECCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            35678899999999999999999 89988754

>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=80.73  E-value=0.83  Score=45.33  Aligned_cols=26  Identities=31%  Similarity=0.439  Sum_probs=23.2

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|-.+.|.|++|+||||++..++...
T Consensus         3 ~~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            3 RGALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            57889999999999999999988754

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.66  E-value=1.6  Score=49.56  Aligned_cols=27  Identities=30%  Similarity=0.495  Sum_probs=23.2

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeE
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVI  287 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~  287 (915)
                      +++.|++|||||+| ..++++..+..+.
T Consensus       209 iLL~GPPGtGKT~l-akAiA~~~~~~~~  235 (428)
T 4b4t_K          209 VLLYGPPGTGKTML-VKAVANSTKAAFI  235 (428)
T ss_dssp             EEEESCTTTTHHHH-HHHHHHHHTCEEE
T ss_pred             EEEECCCCCCHHHH-HHHHHHHhCCCeE
Confidence            89999999999999 5889988776653

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=80.66  E-value=1.3  Score=43.25  Aligned_cols=24  Identities=21%  Similarity=0.184  Sum_probs=21.5

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .+.|.|++|+||||++..++....
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~l~   26 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEILD   26 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478999999999999999998765

>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=80.66  E-value=0.9  Score=44.07  Aligned_cols=25  Identities=28%  Similarity=0.219  Sum_probs=21.9

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.-+.|.|++|+||||++..++...
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~~l   27 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4568899999999999999998764

>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=80.66  E-value=0.82  Score=45.38  Aligned_cols=23  Identities=30%  Similarity=0.614  Sum_probs=19.6

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhc
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +++|+|++|+||||| +..|+..-
T Consensus         2 ~i~l~G~nGsGKTTL-l~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTL-VKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHH-HHHHHHHH
T ss_pred             EEEEECCCCCCHHHH-HHHHHHHh
Confidence            678999999999999 77777653

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=80.65  E-value=0.84  Score=44.71  Aligned_cols=25  Identities=20%  Similarity=0.385  Sum_probs=21.9

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +-.++|.|++|+||||++..++...
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578999999999999999988764

>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide, hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP: a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*

Probab=80.61  E-value=3.2  Score=44.27  Aligned_cols=66  Identities=15%  Similarity=0.178  Sum_probs=39.5

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCCh
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPS  753 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~  753 (915)
                      ..-++|.|++|||||+|+..+++....   . .+++-+.. .....++...+.+ ..-++.++|.--.+.-+
T Consensus        38 ~~~vll~G~~GtGKT~la~~i~~~~~~---~-~~~~~~~~-~~~~~~l~~~l~~-~~~~~~~l~lDEi~~l~  103 (324)
T 1hqc_A           38 LEHLLLFGPPGLGKTTLAHVIAHELGV---N-LRVTSGPA-IEKPGDLAAILAN-SLEEGDILFIDEIHRLS  103 (324)
T ss_dssp             CCCCEEECCTTCCCHHHHHHHHHHHTC---C-EEEECTTT-CCSHHHHHHHHTT-TCCTTCEEEETTTTSCC
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHhCC---C-EEEEeccc-cCChHHHHHHHHH-hccCCCEEEEECCcccc
Confidence            357999999999999999999876531   1 22332322 2233444444433 12345677776666544

>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=80.61  E-value=0.84  Score=48.99  Aligned_cols=27  Identities=19%  Similarity=0.311  Sum_probs=23.2

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -.+.-++|.|++|||||+|+..++...
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~~   73 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANEC   73 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHHh
Confidence            346779999999999999999988764

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=80.61  E-value=0.43  Score=56.37  Aligned_cols=32  Identities=22%  Similarity=0.274  Sum_probs=27.5

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|+|++|+|||||+..++.-.
T Consensus       360 isl~i~~G~~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          360 INLSIEKGETVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHTTTTTSS
T ss_pred             eEEEECCCCEEEEECCCCChHHHHHHHHhcCC
Confidence            34678999999999999999999998877643

>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=80.48  E-value=0.79  Score=45.46  Aligned_cols=22  Identities=41%  Similarity=0.661  Sum_probs=19.8

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +++|+|++|+|||+|+..++..
T Consensus         7 kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            7 KVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            7899999999999999888764

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=80.41  E-value=0.87  Score=44.70  Aligned_cols=26  Identities=23%  Similarity=0.195  Sum_probs=23.0

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++..+.|.|++|+||||++..++...
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            56778999999999999999998765

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=80.41  E-value=0.94  Score=45.91  Aligned_cols=26  Identities=23%  Similarity=0.348  Sum_probs=23.2

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|-++.|.|++|+||||++..++...
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            56789999999999999999998765

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=80.36  E-value=0.88  Score=44.55  Aligned_cols=24  Identities=29%  Similarity=0.304  Sum_probs=21.5

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+++|.|++|+||||++..+++..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            468999999999999999998864

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=80.32  E-value=1.2  Score=46.91  Aligned_cols=30  Identities=27%  Similarity=0.449  Sum_probs=23.7

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      +.+|  ++|+|++|||||+| +.+|++......
T Consensus        72 ~~~g--vll~Gp~GtGKTtl-~~~i~~~~~~~~  101 (278)
T 1iy2_A           72 IPKG--VLLVGPPGVGKTHL-ARAVAGEARVPF  101 (278)
T ss_dssp             CCCE--EEEECCTTSSHHHH-HHHHHHHTTCCE
T ss_pred             CCCe--EEEECCCcChHHHH-HHHHHHHcCCCE
Confidence            3456  89999999999999 688887655443

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=80.26  E-value=0.83  Score=46.64  Aligned_cols=27  Identities=15%  Similarity=0.212  Sum_probs=22.5

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -++..+.|.|++|+||||++..++...
T Consensus         5 ~~~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            5 ARLLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             --CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            456789999999999999999998754

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=80.25  E-value=1.4  Score=45.51  Aligned_cols=31  Identities=23%  Similarity=0.224  Sum_probs=27.4

Q ss_pred             ccccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       678 pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      .+.+|..+.|.|++|+||||++..++.....
T Consensus        22 ~~~~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           22 SNAMSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCCCCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             ecCCCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4668999999999999999999999987753

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.22  E-value=1.6  Score=49.78  Aligned_cols=27  Identities=30%  Similarity=0.409  Sum_probs=23.3

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeE
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVI  287 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~  287 (915)
                      +++.||+|||||.| ..++++..+..+.
T Consensus       218 vLLyGPPGTGKTll-AkAiA~e~~~~f~  244 (434)
T 4b4t_M          218 ALMYGPPGTGKTLL-ARACAAQTNATFL  244 (434)
T ss_dssp             EEEESCTTSSHHHH-HHHHHHHHTCEEE
T ss_pred             eEEECcCCCCHHHH-HHHHHHHhCCCEE
Confidence            89999999999999 5889988776653

>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=80.10  E-value=0.77  Score=52.17  Aligned_cols=28  Identities=29%  Similarity=0.281  Sum_probs=24.2

Q ss_pred             cccccCCe--eeeccCCCCChhhHHHHHHH
Q psy210          677 CPFLKGGK--IGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       677 ~pigkGQr--~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +.+-+|+.  ++|+|++|+|||||+..|+.
T Consensus        35 l~i~~Gei~~vaLvG~nGaGKSTLln~L~G   64 (427)
T 2qag_B           35 KSVSQGFCFNILCVGETGLGKSTLMDTLFN   64 (427)
T ss_dssp             HSCC-CCEEEEEEECSTTSSSHHHHHHHHT
T ss_pred             eEecCCCeeEEEEECCCCCCHHHHHHHHhC
Confidence            56789999  99999999999999988864

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=80.09  E-value=0.92  Score=48.79  Aligned_cols=29  Identities=17%  Similarity=0.134  Sum_probs=25.4

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -.++..++|.|++|+|||||+..|+....
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            46788999999999999999999888654

>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=80.07  E-value=2  Score=54.44  Aligned_cols=91  Identities=18%  Similarity=0.177  Sum_probs=47.1

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhh---c--CCCeEEEEEeeccchh--h---HHHHHHHHhccCCcceEEEEEecCCCCH
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQ---K--NKNVICIYVCIGQKIS--S---LINVINKLKYYNCMDYTVVVAATAADSA  327 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~---~--~~~~~~V~~~iGer~~--e---v~~~~~~l~~~~~~~~tvvv~~~a~~~~  327 (915)
                      ..++|.|..|+|||+||.+...+.   .  ..+. ++|+-+++...  .   ...+...+...+....       .....
T Consensus       148 ~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~-~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~~  219 (1249)
T 3sfz_A          148 GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGG-VHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQ-------RLPLN  219 (1249)
T ss_dssp             EEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTC-EEEEECCSCCHHHHHHHHHHHHHHHTTTCTTCS-------SCCSS
T ss_pred             CEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCe-EEEEEECCcCchHHHHHHHHHHHHhhhhccccc-------CCCCC
Confidence            357899999999999975443321   1  2333 56777776322  1   2223333332221110       00001


Q ss_pred             HHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhH
Q psy210          328 AEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKH  361 (915)
Q Consensus       328 ~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~  361 (915)
                      ...     ..-.+.++++++++++|||+||+-..
T Consensus       220 ~~~-----~~~~l~~~l~~~~~~~LlvlDd~~~~  248 (1249)
T 3sfz_A          220 IEE-----AKDRLRVLMLRKHPRSLLILDDVWDP  248 (1249)
T ss_dssp             HHH-----HHHHHHHHTSSSSCSCEEEEESCCCH
T ss_pred             HHH-----HHHHHHHHHhccCCCEEEEEecCCCH
Confidence            111     11223344445567999999998754

>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=80.05  E-value=0.77  Score=45.41  Aligned_cols=22  Identities=41%  Similarity=0.661  Sum_probs=20.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +++|+|++|+|||||+..++..
T Consensus        31 kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           31 KVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHhcC
Confidence            7899999999999999988764

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=80.01  E-value=5.9  Score=40.43  Aligned_cols=53  Identities=13%  Similarity=0.052  Sum_probs=36.0

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC-CCchHHHHHHHhhh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE-RSREGNDFYHEMKE  735 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe-r~~ev~e~~~~~~~  735 (915)
                      +|--+.|.|++|+||||++..++......+-. .|+ ..-| .+.+..+.++++..
T Consensus         2 ~g~~i~~eG~~gsGKsT~~~~l~~~l~~~~~~-~v~-~~rep~~t~~g~~ir~~l~   55 (213)
T 4tmk_A            2 RSKYIVIEGLEGAGKTTARNVVVETLEQLGIR-DMV-FTREPGGTQLAEKLRSLLL   55 (213)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHTTCC-CEE-EEESSCSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCC-cce-eeeCCCCCHHHHHHHHHHh
Confidence            57778899999999999999999887653210 222 2233 34566677776543

---

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	915
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	1e-115
d2jdid3	276	c.37.1.11 (D:82-357) Central domain of beta subuni	1e-102
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	1e-114
d2jdia3	285	c.37.1.11 (A:95-379) Central domain of alpha subun	1e-109
d1fx0a3	276	c.37.1.11 (A:97-372) Central domain of alpha subun	1e-100
d1fx0a3	276	c.37.1.11 (A:97-372) Central domain of alpha subun	3e-92
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	7e-59
d1xpua3	289	c.37.1.11 (A:129-417) Transcription termination fa	3e-53
d1skyb1	131	a.69.1.1 (B:372-502) F1 ATP synthase alpha subunit	5e-23
d1fx0a1	129	a.69.1.1 (A:373-501) F1 ATP synthase alpha subunit	8e-21
d2jdia1	131	a.69.1.1 (A:380-510) F1 ATP synthase alpha subunit	9e-21
d1c99a_	79	f.17.1.1 (A:) F1F0 ATP synthase subunit C {Escheri	1e-13
d1skye2	82	b.49.1.1 (E:1-82) F1 ATP synthase beta subunit, do	1e-09
d2jdid2	72	b.49.1.1 (D:10-81) F1 ATP synthase beta subunit, d	1e-09
d1fx0b2	79	b.49.1.1 (B:19-97) F1 ATP synthase beta subunit, d	4e-09
d2jdid1	118	a.69.1.1 (D:358-475) F1 ATP synthase beta subunit,	1e-08
d1skye1	114	a.69.1.1 (E:357-470) F1 ATP synthase beta subunit,	3e-08
d1fx0b1	108	a.69.1.1 (B:378-485) F1 ATP synthase beta subunit,	4e-08

>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 =  350 bits (900), Expect = e-115
 Identities = 186/275 (67%), Positives = 218/275 (79%), Gaps = 7/275 (2%)

Query: 615 ILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVID 674
           I  PVG  TLGRI+NV+G+PID +G I +K+ + IH   P+F        IL TGIKV+D
Sbjct: 1   IRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVD 60

Query: 675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMK 734
           LL P+ KGGKIGLFGGAGVGKTV +MELI N+A  H G SVF GVGER+REGND YHEM 
Sbjct: 61  LLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMI 120

Query: 735 ESNV------LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFR-NSGKDVLLFIDNIYRF 787
           ES V        KV+L+YGQMNEP G R RVALTGL++AE FR   G+DVLLFIDNI+RF
Sbjct: 121 ESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF 180

Query: 788 TLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPS 847
           T AG+EVSA+LGR PSAVGYQPTLA +MG +QERI++TK G+ITSVQAIYVPADDLTDP+
Sbjct: 181 TQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYVPADDLTDPA 240

Query: 848 PSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK 882
           P+TTF HLD+T VLSR IAELGIYPA+DPL+S S+
Sbjct: 241 PATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSR 275

>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 =  318 bits (816), Expect = e-102
 Identities = 71/288 (24%), Positives = 117/288 (40%), Gaps = 21/288 (7%)

Query: 191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDS 250
            IPVG E LGRI+N  GE ID +     K    +   AP  ++     E L+TGIK +D 
Sbjct: 2   RIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAEAPEFVEMSVEQEILVTGIKVVDL 61

Query: 251 MIPIGKGQRELIIGDRQTGKTTIAIDTIIN-QKNKNVICIYVCIGQKISSLINVINKLK- 308
           + P  KG +  + G    GKT + ++ I N  K      ++  +G++     ++ +++  
Sbjct: 62  LAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIE 121

Query: 309 -----YYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRD-LGQDCLIIYDDLTKHA 362
                  +      +V     +    +     TG T+ EYFRD  GQD L+  D++ +  
Sbjct: 122 SGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFT 181

Query: 363 WAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPI 422
            A  ++S LL R P    +   +      + ER             I     G++T+   
Sbjct: 182 QAGSEVSALLGRIPSAVGYQPTLATDMGTMQER-------------ITTTKKGSITSVQA 228

Query: 423 IETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV 470
           I     D+T   P    +  D    L   +      PA++   S SR+
Sbjct: 229 IYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRI 276

>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 =  347 bits (893), Expect = e-114
 Identities = 181/293 (61%), Positives = 223/293 (76%), Gaps = 17/293 (5%)

Query: 191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDS 250
           ++PVG ELLGR+V++ G  ID K     K R  V   APGI+ R SV EP+ TGIK++DS
Sbjct: 2   DVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDS 61

Query: 251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK--------NKNVICIYVCIGQKISSLIN 302
           ++PIG+GQRELIIGDRQTGKT+IAIDTIINQK         K + CIYV IGQK S++  
Sbjct: 62  LVPIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQ 121

Query: 303 VINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA 362
           ++ +L   + M YT+VV+ATA+D+A  QY++PY+GC++GEYFRD G+  LIIYDDL+K A
Sbjct: 122 LVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQA 181

Query: 363 WAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPI 422
            AYRQ+SLLLRRPPGREA+PGDVFYLHSRLLER++K+N  F           G+LTA P+
Sbjct: 182 VAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAF---------GGGSLTALPV 232

Query: 423 IETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ 475
           IET  GDV+++IPTNVISITDGQIFL+T LF    RPAINVGLSVSRVG AAQ
Sbjct: 233 IETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGSAAQ 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 =  335 bits (861), Expect = e-109
 Identities = 67/276 (24%), Positives = 129/276 (46%), Gaps = 11/276 (3%)

Query: 618 PVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLC 677
           PVG+  LGR+++ LG+ ID KG I SK +  +    P    +I     ++TGIK +D L 
Sbjct: 4   PVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLV 63

Query: 678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGC-------SVFIGVGERSREGNDFY 730
           P  +G +  + G    GKT   ++ I N    + G         +++ +G++        
Sbjct: 64  PIGRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLV 123

Query: 731 HEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLA 790
             + +++ +    ++    ++ +  +     +G S+ E FR++GK  L+  D++ +  +A
Sbjct: 124 KRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQAVA 183

Query: 791 GTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKN----GTITSVQAIYVPADDLTDP 846
             ++S +L R P    Y   +     +L ER +   +    G++T++  I   A D++  
Sbjct: 184 YRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDVSAY 243

Query: 847 SPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSK 882
            P+   +  D  I L  ++   GI PAI+   S S+
Sbjct: 244 IPTNVISITDGQIFLETELFYKGIRPAINVGLSVSR 279

>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 =  311 bits (799), Expect = e-100
 Identities = 165/284 (58%), Positives = 207/284 (72%), Gaps = 9/284 (3%)

Query: 192 IPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSM 251
           IPV    LGR++N+  + ID + +        +E  APGIM R SV EPL TG+ +ID+M
Sbjct: 2   IPVSEAYLGRVINALAKPIDGRGEITASESRLIESPAPGIMSRRSVYEPLQTGLIAIDAM 61

Query: 252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYN 311
           IP+G+GQRELIIGDRQTGKT +A DTI+NQ+ +NVIC+YV IGQK SS+  V+   +   
Sbjct: 62  IPVGRGQRELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERG 121

Query: 312 CMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLL 371
            M+YT+VVA TA   A  QY++PYTG  + EYF    +  LIIYDDL+K A AYRQ+SLL
Sbjct: 122 AMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLL 181

Query: 372 LRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDVT 431
           LRRPPGREA+PGDVFYLHSRLLER++K++              G++TA PI+ET  GDV+
Sbjct: 182 LRRPPGREAYPGDVFYLHSRLLERAAKLS---------SLLGEGSMTALPIVETQAGDVS 232

Query: 432 SFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ 475
           ++IPTNVISITDGQIFL  +LFN+  RPAINVG+SVSRVG AAQ
Sbjct: 233 AYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVGSAAQ 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 =  291 bits (745), Expect = 3e-92
 Identities = 64/269 (23%), Positives = 120/269 (44%), Gaps = 5/269 (1%)

Query: 618 PVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLC 677
           PV +  LGR++N L  PID +GEI + +   I +  P   ++      L+TG+  ID + 
Sbjct: 3   PVSEAYLGRVINALAKPIDGRGEITASESRLIESPAPGIMSRRSVYEPLQTGLIAIDAMI 62

Query: 678 PFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN 737
           P  +G +  + G    GKT    + I N         V++ +G+++          +E  
Sbjct: 63  PVGRGQRELIIGDRQTGKTAVATDTILNQQ-GQNVICVYVAIGQKASSVAQVVTNFQERG 121

Query: 738 VLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAM 797
            ++   ++    + P+  +     TG ++AE F    +  L+  D++ +   A  ++S +
Sbjct: 122 AMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERHTLIIYDDLSKQAQAYRQMSLL 181

Query: 798 LGRTPSAVGYQPTLAEEMGKLQERISSTKN----GTITSVQAIYVPADDLTDPSPSTTFT 853
           L R P    Y   +     +L ER +   +    G++T++  +   A D++   P+   +
Sbjct: 182 LRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNVIS 241

Query: 854 HLDSTIVLSRQIAELGIYPAIDPLESYSK 882
             D  I LS  +   GI PAI+   S S+
Sbjct: 242 ITDGQIFLSADLFNAGIRPAINVGISVSR 270

>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 =  201 bits (511), Expect = 7e-59
 Identities = 47/279 (16%), Positives = 105/279 (37%), Gaps = 17/279 (6%)

Query: 636 DNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGK 695
           +N   +++  +  +              +  +   +V+DL  P  +G +  +      GK
Sbjct: 6   ENLTPLHANSRLRMERGNG---------STEDLTARVLDLASPIGRGQRGLIVAPPKAGK 56

Query: 696 TVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGN 755
           T+ +  + ++IA  H  C + + + +   E       + +  V      +    +EP+  
Sbjct: 57  TMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEV------VASTFDEPASR 110

Query: 756 RLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEM 815
            ++VA   +  A+      KDV++ +D+I R   A   V    G+  +       L    
Sbjct: 111 HVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPK 170

Query: 816 GKLQERISSTKNGTITSVQAIYVPADDLTDPSPSTTF-THLDSTIVLSRQIAELGIYPAI 874
                  +  + G++T +    +      D      F    +  + LSR+IAE  ++PAI
Sbjct: 171 RFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAI 230

Query: 875 DPLESYSKQLDPYIVGEEHYKVANEVKFYLQKYKELKDT 913
           D   S ++  +  +  +E  +    ++  +    E+   
Sbjct: 231 DYNRSGTR-KEELLTTQEELQKMWILRKIIHPMGEIDAM 268

>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 =  185 bits (471), Expect = 3e-53
 Identities = 42/270 (15%), Positives = 94/270 (34%), Gaps = 24/270 (8%)

Query: 232 MDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK--NKNVICI 289
           M+R +         + +D   PIG+GQR LI+   + GKT +  +   +    + + + +
Sbjct: 19  MERGNG-STEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLM 77

Query: 290 YVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQ 349
            + I ++   +  +   +K         VVA+T  + A+             +   +  +
Sbjct: 78  VLLIDERPEEVTEMQRLVK-------GEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKK 130

Query: 350 DCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKI 409
           D +I+ D +T+ A AY  +     +         +  +   R    +  +          
Sbjct: 131 DVIILLDSITRLARAYNTVVPASGKVL-TGGVDANALHRPKRFFGAARNV---------- 179

Query: 410 FNKNNGTLTAFPIIETLEGDVTS-FIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVS 468
             +  G+LT         G      I        + ++ L   +      PAI+   S +
Sbjct: 180 --EEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGT 237

Query: 469 RVGGAAQYKIVKKLSGDIRIMLAQYRELES 498
           R       +   +    +R ++    E+++
Sbjct: 238 RKEELLTTQEELQKMWILRKIIHPMGEIDA 267

>d1skyb1 a.69.1.1 (B:372-502) F1 ATP synthase alpha subunit, domain 3 {Bacillus sp., strain ps3 [TaxId: 1409]} Length = 131

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 3
species: Bacillus sp., strain ps3 [TaxId: 1409]

 Score = 93.4 bits (232), Expect = 5e-23
 Identities = 29/93 (31%), Positives = 53/93 (56%)

Query: 477 KIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVE 536
           K +KK++G +R+ LA YRELE+F++F SDLD  T+  +  G +   ++KQ  H+   + +
Sbjct: 2   KAMKKVAGTLRLDLAAYRELEAFAQFGSDLDKATQANVARGARTVEVLKQDLHQPIPVEK 61

Query: 537 LIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            ++I+  +   F   IP++ +  FE     +  
Sbjct: 62  QVLIIYALTRGFLDDIPVEDVRRFEKEFYLWLD 94

>d1fx0a1 a.69.1.1 (A:373-501) F1 ATP synthase alpha subunit, domain 3 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 129

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 3
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

 Score = 86.9 bits (215), Expect = 8e-21
 Identities = 27/93 (29%), Positives = 56/93 (60%)

Query: 477 KIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVE 536
           K +KK++G +++ LAQ+ ELE+F++F+SDLD  T+ QL  G+++  L+KQ      ++ E
Sbjct: 2   KAMKKVAGKLKLELAQFAELEAFAQFASDLDKATQNQLARGQRLRELLKQPQSAPLTVEE 61

Query: 537 LIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            ++ +    N +   + + Q+  + + +  Y +
Sbjct: 62  QVMTIYTGTNGYLDSLELDQVRKYLVELRTYVK 94

>d2jdia1 a.69.1.1 (A:380-510) F1 ATP synthase alpha subunit, domain 3 {Cow (Bos taurus) [TaxId: 9913]} Length = 131

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 3
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 86.9 bits (215), Expect = 9e-21
 Identities = 26/93 (27%), Positives = 53/93 (56%)

Query: 477 KIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVE 536
           + +K+++G +++ LAQYRE+ +F++F SDLD  T+  L  G +++ L+KQ  +   +I E
Sbjct: 2   RAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRLTELLKQGQYSPMAIEE 61

Query: 537 LIIILLIIKNRFFFKIPIKQIELFEINIIKYFR 569
            + ++      +  K+   +I  FE   + +  
Sbjct: 62  QVAVIYAGVRGYLDKLEPSKITKFENAFLSHVI 94

>d1c99a_ f.17.1.1 (A:) F1F0 ATP synthase subunit C {Escherichia coli [TaxId: 562]} Length = 79

class: Membrane and cell surface proteins and peptides
fold: Transmembrane helix hairpin
superfamily: F1F0 ATP synthase subunit C
family: F1F0 ATP synthase subunit C
domain: F1F0 ATP synthase subunit C
species: Escherichia coli [TaxId: 562]

 Score = 64.6 bits (158), Expect = 1e-13
 Identities = 26/47 (55%), Positives = 34/47 (72%)

Query: 8  AASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITG 54
          AA++MMGLA+IG  IG GILGGK LE  +RQP+L   L  + F++ G
Sbjct: 12 AAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLLRTQFFIVMG 58

>d1skye2 b.49.1.1 (E:1-82) F1 ATP synthase beta subunit, domain 1 {Bacillus sp., strain ps3 [TaxId: 1409]} Length = 82

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]

 Score = 53.5 bits (129), Expect = 1e-09
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP 614
           V   +G++ VRTIA  +T+G+ R   V+DTG P
Sbjct: 50  VALHLGDDTVRTIAMASTDGLIRGMEVIDTGAP 82

>d2jdid2 b.49.1.1 (D:10-81) F1 ATP synthase beta subunit, domain 1 {Rat (Rattus norvegicus) [TaxId: 10116]} 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 beta subunit, domain 1
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 52.7 bits (127), Expect = 1e-09
 Identities = 16/33 (48%), Positives = 21/33 (63%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP 614
           V Q +GE+ VRTIA   T G+ R   V+D+G P
Sbjct: 40  VAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAP 72

>d1fx0b2 b.49.1.1 (B:19-97) F1 ATP synthase beta subunit, domain 1 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 79

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]

 Score = 52.0 bits (125), Expect = 4e-09
 Identities = 16/33 (48%), Positives = 21/33 (63%)

Query: 582 VQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP 614
           VQQ +G N VR +A   T+G+ R   V+DTG P
Sbjct: 47  VQQLLGNNRVRAVAMSATDGLTRGMEVIDTGAP 79

>d2jdid1 a.69.1.1 (D:358-475) F1 ATP synthase beta subunit, domain 3 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 118

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 3
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 51.6 bits (124), Expect = 1e-08
 Identities = 17/29 (58%), Positives = 20/29 (68%)

Query: 884 LDPYIVGEEHYKVANEVKFYLQKYKELKD 912
           +DP IVG EHY VA  V+  LQ YK L+D
Sbjct: 1   MDPNIVGSEHYDVARGVQKILQDYKSLQD 29

>d1skye1 a.69.1.1 (E:357-470) F1 ATP synthase beta subunit, domain 3 {Bacillus sp., strain ps3 [TaxId: 1409]} Length = 114

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 3
species: Bacillus sp., strain ps3 [TaxId: 1409]

 Score = 50.4 bits (121), Expect = 3e-08
 Identities = 16/28 (57%), Positives = 22/28 (78%)

Query: 888 IVGEEHYKVANEVKFYLQKYKELKDTST 915
           IVGEEHY+VA +V+  L++YKEL+D   
Sbjct: 2   IVGEEHYQVARKVQQTLERYKELQDIIA 29

>d1fx0b1 a.69.1.1 (B:378-485) F1 ATP synthase beta subunit, domain 3 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]} Length = 108

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 3
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

 Score = 49.7 bits (119), Expect = 4e-08
 Identities = 17/27 (62%), Positives = 21/27 (77%)

Query: 888 IVGEEHYKVANEVKFYLQKYKELKDTS 914
           IVGEEHY++A  VK  LQ+YKEL+D  
Sbjct: 2   IVGEEHYEIAQRVKETLQRYKELQDII 28

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	915
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	100.0
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	100.0
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
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
d1xpua3	289	Transcription termination factor Rho, ATPase domai	100.0
d2jdia1	131	F1 ATP synthase alpha subunit, domain 3 {Cow (Bos	99.68
d1fx0a1	129	F1 ATP synthase alpha subunit, domain 3 {Spinach (	99.67
d1skyb1	131	F1 ATP synthase alpha subunit, domain 3 {Bacillus	99.67
d1c99a_	79	F1F0 ATP synthase subunit C {Escherichia coli [Tax	99.23
d2jdid1	118	F1 ATP synthase beta subunit, domain 3 {Rat (Rattu	98.4
d1skye1	114	F1 ATP synthase beta subunit, domain 3 {Bacillus s	98.38
d1fx0b1	108	F1 ATP synthase beta subunit, domain 3 {Spinach (S	98.26
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.89
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.57
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	97.55
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.5
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.38
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.28
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.27
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.22
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	96.97
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.6
d2jdid2	72	F1 ATP synthase beta subunit, domain 1 {Rat (Rattu	96.58
d1fx0b2	79	F1 ATP synthase beta subunit, domain 1 {Spinach (S	96.57
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.4
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.25
d1skye2	82	F1 ATP synthase beta subunit, domain 1 {Bacillus s	96.24
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.12
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	96.07
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	96.05
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	96.03
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	96.01
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.93
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.73
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.53
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.5
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.25
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.85
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	94.39
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.3
d1okkd2	207	GTPase domain of the signal recognition particle r	94.28
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	94.21
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.05
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	93.86
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.63
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.81
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	92.74
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	92.64
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	92.63
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	92.59
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	92.58
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	92.58
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	92.44
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	92.41
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	92.38
d1ls1a2	207	GTPase domain of the signal sequence recognition p	92.38
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	92.38
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	92.3
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	92.17
d1vmaa2	213	GTPase domain of the signal recognition particle r	92.02
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	91.94
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	91.87
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	91.77
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	91.77
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.76
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	91.63
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	91.59
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.53
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	91.5
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.46
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	91.27
d1j8yf2	211	GTPase domain of the signal sequence recognition p	90.93
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.51
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	90.48
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	90.46
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	90.44
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	90.41
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	90.29
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	90.28
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	89.93
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	89.9
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	89.89
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.77
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	89.75
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	89.73
d1g2912	240	Maltose transport protein MalK, N-terminal domain	89.61
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	89.49
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	89.42
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	89.14
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	89.05
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	88.86
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	88.78
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	88.61
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	88.55
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	88.53
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	88.53
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	88.37
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	88.36
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	88.32
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	88.3
d2awna2	232	Maltose transport protein MalK, N-terminal domain	88.08
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	87.81
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	87.78
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	87.62
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	87.57
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	87.55
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	87.45
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	87.36
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	87.33
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	87.23
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	87.09
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	87.04
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	86.98
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	86.63
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	86.6
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	86.46
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	86.42
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	86.19
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	86.15
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	86.14
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	86.0
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	85.94
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	85.71
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	85.66
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	85.42
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	85.41
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	85.4
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	85.34
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	85.31
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	85.21
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	85.18
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	85.07
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	85.04
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	85.0
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	84.99
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	84.99
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	84.98
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	84.96
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	84.94
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	84.91
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	84.47
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	84.3
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	84.2
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	83.78
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	83.77
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	83.65
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	83.48
d1okkd2	207	GTPase domain of the signal recognition particle r	83.45
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	83.35
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	83.34
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	83.27
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	83.19
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	82.98
d2jdia2	71	F1 ATP synthase alpha subunit, domain 1 {Cow (Bos	82.72
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	82.59
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	82.5
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	82.44
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	82.34
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	82.28
d1fx0a2	72	F1 ATP synthase alpha subunit, domain 1 {Spinach (	82.04
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	81.88
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	81.88
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	81.85
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	81.79
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	81.56
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	81.44
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	81.28
d1j8yf2	211	GTPase domain of the signal sequence recognition p	81.22
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	81.01
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	80.95
d1nrjb_	209	Signal recognition particle receptor beta-subunit	80.89
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	80.76
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	80.7
d1skyb2	75	F1 ATP synthase alpha subunit, domain 1 {Bacillus	80.68
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	80.49
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	80.45
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	80.44
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	80.42
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	80.38
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	80.31
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	80.19
d1nrjb_	209	Signal recognition particle receptor beta-subunit	80.08
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	80.08
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	80.02

>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=3.4e-82  Score=677.28  Aligned_cols=269  Identities=69%  Similarity=1.093  Sum_probs=261.7

Q ss_pred             ccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCC
Q psy210          615 ILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVG  694 (915)
Q Consensus       615 ~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~G  694 (915)
                      ++||||+++||||+|++|+|||+++++...++||++..+|++++|.+++++++||||+||+|+|||||||++|||++|+|
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            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcC------ccccEEEEEEcCCCChHhHHHHHHHHHHHHH
Q psy210          695 KTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESN------VLDKVSLIYGQMNEPSGNRLRVALTGLSIAE  768 (915)
Q Consensus       695 Kt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~------~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae  768 (915)
                      ||+|+.+|++|+.+++++++||++||||++|++||++++.+.+      .++||++|++|+|+||.+|+++||+|+++||
T Consensus        81 Kt~l~~~i~~~~~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAE  160 (276)
T d2jdid3          81 KTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAE  160 (276)
T ss_dssp             HHHHHHHHHHHHTTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            9999999999987778899999999999999999999998855      4669999999999999999999999999999


Q ss_pred             HHHHC-CCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEecCCCCCCCc
Q psy210          769 EFRNS-GKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYVPADDLTDPS  847 (915)
Q Consensus       769 ~f~~~-g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi  847 (915)
                      ||||+ |+|||+++||+||||+|+||+|+++||+|+++||||++|+.|++|+||+|+.++||||+|+||++|+||++|||
T Consensus       161 yf~~~~G~~VLv~~Dsltr~A~A~reis~~~ge~p~~~gyp~~l~~~~~~l~ERag~~~~GSIT~i~~v~~~~~d~~dpi  240 (276)
T d2jdid3         161 YFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTKKGSITSVQAIYVPADDLTDPA  240 (276)
T ss_dssp             HHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCTTHHHHHHHHHTTSSCCSSCCEEEEEEEECGGGCTTSHH
T ss_pred             HHHhcCCCeEEEEEcchhHHHHHHHHHHHhcCCCCCcccCchhHHHHHHHHHHhhccCCCcccceEEEEEccCCCCCCcc
Confidence            99976 99999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccccccccCcEEEeeHHHHhcCCCccccCCCCcccc
Q psy210          848 PSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQ  883 (915)
Q Consensus       848 ~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~  883 (915)
                      +++++++|||||+|||+||++||||||||+.|+||+
T Consensus       241 ~~~~~sitdg~i~Lsr~la~~g~~PAId~~~S~SRv  276 (276)
T d2jdid3         241 PATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRI  276 (276)
T ss_dssp             HHHHGGGCSEEEEBCHHHHTTTCSSCBCTTSCEETT
T ss_pred             hHHHHhhcceEEEECHHHHhCCCCCCcCCccCccCC
Confidence            999999999999999999999999999999999996

>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=5.1e-81  Score=673.14  Aligned_cols=271  Identities=25%  Similarity=0.393  Sum_probs=261.4

Q ss_pred             ccccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCC
Q psy210          615 ILTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVG  694 (915)
Q Consensus       615 ~~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~G  694 (915)
                      ++||||+++||||+|++|+|||+++++...++||++..+|++++|.+++++++||||+||+|+|||||||++|||++|+|
T Consensus         1 i~VPVG~~lLGRVid~~G~piDg~~~~~~~~~~~i~~~~p~~~~R~~i~e~l~TGIraID~l~pig~GQr~~If~~~g~G   80 (285)
T d2jdia3           1 VDVPVGEELLGRVVDALGNAIDGKGPIGSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTG   80 (285)
T ss_dssp             CEEEESGGGTTCEECTTSCBCSSSCCCCCSEEEESSCCCCCSTTBCCCCSBCCCSCHHHHHHSCCBTTCBCEEEESTTSS
T ss_pred             CccccCcCccCcEECCCccccCCCCCCCCCccccccCCCcCchhccCCCcccccCceEEecccCccCCCEEEeecCCCCC
Confidence            36899999999999999999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHhcC-------CcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHH
Q psy210          695 KTVNMMELIRNIAIEH-------KGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIA  767 (915)
Q Consensus       695 Kt~Ll~~i~~~~~~~~-------~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~A  767 (915)
                      ||+|+.++++|++.+|       ..++||++||||++|+.||++++.++++++|||+|++|+|+||.+|++++++|+++|
T Consensus        81 Kt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiA  160 (285)
T d2jdia3          81 KTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMG  160 (285)
T ss_dssp             HHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHHHHHHHHHHHHHHH
Confidence            9999999999876433       237899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC----CCCceeEEEEEEecCCCC
Q psy210          768 EEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST----KNGTITSVQAIYVPADDL  843 (915)
Q Consensus       768 e~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~----~~GSiT~i~~v~~~~~d~  843 (915)
                      |||||+|||||+++||+||||+|+||||+++||+|+++||||++|+.|++|+||+|+.    ++||||+|+||++|+||+
T Consensus       161 Eyfrd~G~~VLll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~~GSiT~i~~v~~~~dD~  240 (285)
T d2jdia3         161 EYFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFGGGSLTALPVIETQAGDV  240 (285)
T ss_dssp             HHHHHTTCEEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCCBBCGGGTCCEEEEEEEEECSTTCT
T ss_pred             HHHHHcCCcEEEEEcChHHHHHHHHHHHHhcCCCCCcCCcCchHHHHHHHHHHHHhcccCCCCCeeEEEEEEEEecCCCC
Confidence            9999999999999999999999999999999999999999999999999999999974    379999999999999999


Q ss_pred             CCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcccccC
Q psy210          844 TDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLD  885 (915)
Q Consensus       844 ~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~  885 (915)
                      +|||+|++++|+||||+|||+||++||||||||+.|+||+|+
T Consensus       241 tdpI~~~~~~i~dg~ivLsr~la~~g~yPAID~l~S~SR~~~  282 (285)
T d2jdia3         241 SAYIPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGS  282 (285)
T ss_dssp             TSHHHHHHHHHSSEEEEBCHHHHHHTCSSCBCTTTCEESSGG
T ss_pred             CCchhHHHHhhcCcEEEEcHHHHhcCCCCCcCCcccccccCc
Confidence            999999999999999999999999999999999999999995

>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=4.6e-80  Score=665.66  Aligned_cols=276  Identities=66%  Similarity=1.050  Sum_probs=265.4

Q ss_pred             eeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCCh
Q psy210          191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGK  270 (915)
Q Consensus       191 ~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GK  270 (915)
                      .||+|+.+||||+|++|+|||+++++....+++++.++|++++|..+++||+||||+||+|+|||+|||++|||++|+||
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            68999999999999999999999998888999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhc--------CCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHH
Q psy210          271 TTIAIDTIINQK--------NKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGE  342 (915)
Q Consensus       271 t~l~l~~i~~~~--------~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAE  342 (915)
                      |+|+++++.|++        +.+++|||++||||.+|+.+|++.+++.++++||++|++++++||.+|+++|++|||+||
T Consensus        82 t~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~r~~~~~~a~tiAE  161 (285)
T d2jdia3          82 TSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSGCSMGE  161 (285)
T ss_dssp             HHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHhhccccccccceEEEEeeeCccHHHHHHHHHHhcccccccceEEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            999888887763        345679999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEE
Q psy210          343 YFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPI  422 (915)
Q Consensus       343 y~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~  422 (915)
                      ||||+|+|||+++|||||||+|+||||+++||+|+++|||+++|+.+++|+||||++++..|         +||||++++
T Consensus       162 yfrd~G~~VLll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~---------~GSiT~i~~  232 (285)
T d2jdia3         162 YFRDNGKHALIIYDDLSKQAVAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKMNDAFG---------GGSLTALPV  232 (285)
T ss_dssp             HHHHTTCEEEEEEETHHHHHHHHHHHHHHTTCCCCGGGCCTTHHHHHHHHHTTCCBBCGGGT---------CCEEEEEEE
T ss_pred             HHHHcCCcEEEEEcChHHHHHHHHHHHHhcCCCCCcCCcCchHHHHHHHHHHHHhcccCCCC---------CeeEEEEEE
Confidence            99999999999999999999999999999999999999999999999999999999875333         799999999


Q ss_pred             EEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc
Q psy210          423 IETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ  475 (915)
Q Consensus       423 v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~  475 (915)
                      |++|+||++|||||++++|+||||+|||+||++||||||||+.|+||+|+++|
T Consensus       233 v~~~~dD~tdpI~~~~~~i~dg~ivLsr~la~~g~yPAID~l~S~SR~~~~~q  285 (285)
T d2jdia3         233 IETQAGDVSAYIPTNVISITDGQIFLETELFYKGIRPAINVGLSVSRVGSAAQ  285 (285)
T ss_dssp             EECSTTCTTSHHHHHHHHHSSEEEEBCHHHHHHTCSSCBCTTTCEESSGGGGS
T ss_pred             EEecCCCCCCchhHHHHhhcCcEEEEcHHHHhcCCCCCcCCcccccccCcccC
Confidence            99999999999999999999999999999999999999999999999999876

>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=3.5e-80  Score=664.37  Aligned_cols=276  Identities=60%  Similarity=0.975  Sum_probs=267.2

Q ss_pred             eeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCCh
Q psy210          191 EIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGK  270 (915)
Q Consensus       191 ~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GK  270 (915)
                      .+|+|+.+||||+|++|+|||+++++...++++++.++|+|++|..+++||+||||+||+|+|||||||++|||++|+||
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            47999999999999999999999999998899999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCc
Q psy210          271 TTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQD  350 (915)
Q Consensus       271 t~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~  350 (915)
                      |+|+++++.+++..+++|||++||||++|+.+|++++++.+++++|++|++++|+|+.+|++++++|+|+|||||++|+|
T Consensus        81 t~l~~~~~~~~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~~  160 (276)
T d1fx0a3          81 TAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRERH  160 (276)
T ss_dssp             HHHHHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTCE
T ss_pred             HHHHHHHHhhhcccCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHHHHHHHHHHHHcCCc
Confidence            99988888888777778999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecCCCC
Q psy210          351 CLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLEGDV  430 (915)
Q Consensus       351 Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~~d~  430 (915)
                      ||+++|||||||+|+||||+++||+|+++|||+++|+.+++|+||||++++..         ++||||+|++|++|+||+
T Consensus       161 Vlll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~---------~~GSIT~i~~v~~~~~d~  231 (276)
T d1fx0a3         161 TLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLL---------GEGSMTALPIVETQAGDV  231 (276)
T ss_dssp             EEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTT---------TSCEEEECCEEECSTTCT
T ss_pred             eeEEeeccHHHHHHHHHHHHHcCCCCCcCCcCchHHHHHHHHHHHHhccccCC---------CCcceEEEEEEEecCCCc
Confidence            99999999999999999999999999999999999999999999999986533         379999999999999999


Q ss_pred             CCccccccccccCcEEEeehhhhhcCCCCeeeecCCccccccccc
Q psy210          431 TSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRVGGAAQ  475 (915)
Q Consensus       431 ~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~~~~~~  475 (915)
                      +|||||++++|+||||+|||+|+++||||||||+.|+||+|+++|
T Consensus       232 ~dpi~~~~~~~~dg~i~Lsr~la~~g~~PAId~l~S~SR~~~~aq  276 (276)
T d1fx0a3         232 SAYIPTNVISITDGQIFLSADLFNAGIRPAINVGISVSRVGSAAQ  276 (276)
T ss_dssp             TSHHHHHHHTTSSCBCCCCSSSSSSSCSSCCCTTTCCCTTGGGGS
T ss_pred             CcchHHHHHhhcCeEEEECHHHHhCCCCCCcCCCccccccCcccC
Confidence            999999999999999999999999999999999999999999876

>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=1.4e-80  Score=667.55  Aligned_cols=269  Identities=24%  Similarity=0.364  Sum_probs=261.0

Q ss_pred             cccCCCcccceEEcccCccCCCCCCCCCCCCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCCh
Q psy210          616 LTPVGDCTLGRILNVLGDPIDNKGEINSKKKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGK  695 (915)
Q Consensus       616 ~v~vg~~lLGrV~d~~G~pid~~~~~~~~~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GK  695 (915)
                      +||||+++||||+|++|+|+|+++++...++||++.++|++++|..++++++||||+||+|+|||||||++|||++|+||
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            58999999999999999999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCC
Q psy210          696 TVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGK  775 (915)
Q Consensus       696 t~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~  775 (915)
                      |+|+.++++++.+ +.++|||++||||++|+.||+++++++++++||++|++|+|+|+.+|++++++|+++||||||+||
T Consensus        81 t~l~~~~~~~~~~-~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~a~tiAEyfrd~G~  159 (276)
T d1fx0a3          81 TAVATDTILNQQG-QNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTGAALAEYFMYRER  159 (276)
T ss_dssp             HHHHHHHHHTCCT-TTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhhhcc-cCceeeeeeecchhHHHHHHHHhhccCCcceeeeecccccCccHHHHHHHHHHHHHHHHHHHHcCC
Confidence            9999999888654 457999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCC----CCCceeEEEEEEecCCCCCCCccccc
Q psy210          776 DVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISST----KNGTITSVQAIYVPADDLTDPSPSTT  851 (915)
Q Consensus       776 ~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~----~~GSiT~i~~v~~~~~d~~dpi~~~~  851 (915)
                      |||+++||+||||+|+||||+++||+|+++||||++|+.+++|+||+|+.    ++||||+|+||++|+||++|||++++
T Consensus       160 ~Vlll~Dsltr~A~A~rEis~~~ge~p~~~gyp~~~~~~~~~l~ERag~~~~~~~~GSIT~i~~v~~~~~d~~dpi~~~~  239 (276)
T d1fx0a3         160 HTLIIYDDLSKQAQAYRQMSLLLRRPPGREAYPGDVFYLHSRLLERAAKLSSLLGEGSMTALPIVETQAGDVSAYIPTNV  239 (276)
T ss_dssp             EEEEEEECHHHHHHHHHHHHHHTTCCCCGGGCCSCSSTTTTTTGGGCCBBCTTTTSCEEEECCEEECSTTCTTSHHHHHH
T ss_pred             ceeEEeeccHHHHHHHHHHHHHcCCCCCcCCcCchHHHHHHHHHHHHhccccCCCCcceEEEEEEEecCCCcCcchHHHH
Confidence            99999999999999999999999999999999999999999999999964    36999999999999999999999999


Q ss_pred             ccccCcEEEeeHHHHhcCCCccccCCCCcccccC
Q psy210          852 FTHLDSTIVLSRQIAELGIYPAIDPLESYSKQLD  885 (915)
Q Consensus       852 ~~i~dg~ivLsr~La~~g~~PAIdv~~S~SR~~~  885 (915)
                      ++++||||+|||+||++||||||||++|+||+|+
T Consensus       240 ~~~~dg~i~Lsr~la~~g~~PAId~l~S~SR~~~  273 (276)
T d1fx0a3         240 ISITDGQIFLSADLFNAGIRPAINVGISVSRVGS  273 (276)
T ss_dssp             HTTSSCBCCCCSSSSSSSCSSCCCTTTCCCTTGG
T ss_pred             HhhcCeEEEECHHHHhCCCCCCcCCCccccccCc
Confidence            9999999999999999999999999999999995

>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=1.6e-78  Score=648.87  Aligned_cols=268  Identities=26%  Similarity=0.375  Sum_probs=254.4

Q ss_pred             ceeccccccceeEeCCCceeecCCCcccccccccccccCCCCCcccccCccccccceeeeccccccccceeeeecCCCCC
Q psy210          190 FEIPVGFELLGRIVNSKGEFIDNKKKFLIKNRETVEKIAPGIMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTG  269 (915)
Q Consensus       190 ~~vpvg~~lLGrviD~lG~PiD~~~~~~~~~~~~i~~~~~~~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~G  269 (915)
                      +++|+|+++||||+|++|+|||+++++...++++++..+|++++|..+++||+||||+||.|+|||||||++|||++|+|
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            47899999999999999999999999988899999999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHh-hcCCCeEEEEEeeccchhhHHHHHHHHhccCC------cceEEEEEecCCCCHHHhhhhhhhhhhhHH
Q psy210          270 KTTIAIDTIIN-QKNKNVICIYVCIGQKISSLINVINKLKYYNC------MDYTVVVAATAADSAAEQYISPYTGCTIGE  342 (915)
Q Consensus       270 Kt~l~l~~i~~-~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~------~~~tvvv~~~a~~~~~~r~~~~~~a~tiAE  342 (915)
                      ||+|+++++.| +++.+.+|||++||||++|+.+|++++.+.++      ++|+++|++++++||.+|+++||+|||+||
T Consensus        81 Kt~l~~~i~~~~~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a~~iAE  160 (276)
T d2jdid3          81 KTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTGLTVAE  160 (276)
T ss_dssp             HHHHHHHHHHHHTTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCCCeEEEEEeccChHHHHHHHHHHHhcCccccccccceEEEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            99997777766 34444459999999999999999999988664      569999999999999999999999999999


Q ss_pred             HHHh-cCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhhHHhhhhcccccccchhhhccCCCCccceeE
Q psy210          343 YFRD-LGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFP  421 (915)
Q Consensus       343 y~r~-~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~  421 (915)
                      |||+ +|+||||++|||||||+|+||+|+++||||+++||||+||+.|++|+||||+.+             +||||++|
T Consensus       161 yf~~~~G~~VLv~~Dsltr~A~A~reis~~~ge~p~~~gyp~~l~~~~~~l~ERag~~~-------------~GSIT~i~  227 (276)
T d2jdid3         161 YFRDQEGQDVLLFIDNIFRFTQAGSEVSALLGRIPSAVGYQPTLATDMGTMQERITTTK-------------KGSITSVQ  227 (276)
T ss_dssp             HHHHTTCSCEEEEEECTHHHHHHHHHHHGGGTCCCCGGGCCTTHHHHHHHHHTTSSCCS-------------SCCEEEEE
T ss_pred             HHHhcCCCeEEEEEcchhHHHHHHHHHHHhcCCCCCcccCchhHHHHHHHHHHhhccCC-------------CcccceEE
Confidence            9996 599999999999999999999999999999999999999999999999999752             69999999


Q ss_pred             EEEecCCCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCCcccc
Q psy210          422 IIETLEGDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLSVSRV  470 (915)
Q Consensus       422 ~v~~~~~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S~SR~  470 (915)
                      +|++|+||++||||++++|||||||+|||+||++|||||||++.|+||+
T Consensus       228 ~v~~~~~d~~dpi~~~~~sitdg~i~Lsr~la~~g~~PAId~~~S~SRv  276 (276)
T d2jdid3         228 AIYVPADDLTDPAPATTFAHLDATTVLSRAIAELGIYPAVDPLDSTSRI  276 (276)
T ss_dssp             EEECGGGCTTSHHHHHHGGGCSEEEEBCHHHHTTTCSSCBCTTSCEETT
T ss_pred             EEEccCCCCCCcchHHHHhhcceEEEECHHHHhCCCCCCcCCccCccCC
Confidence            9999999999999999999999999999999999999999999999996

>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=2.6e-66  Score=556.89  Aligned_cols=257  Identities=18%  Similarity=0.254  Sum_probs=228.1

Q ss_pred             CCCccCCCCCCccccccccccccccceeeecccccccCCeeeeccCCCCChhhHHHHHHHHHHhcCCc-EEEEEEecCCC
Q psy210          645 KKSPIHTLPPKFSNQIFNNNILETGIKVIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKG-CSVFIGVGERS  723 (915)
Q Consensus       645 ~~~pi~~~~p~~~~r~~~~e~l~TGir~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~-~~v~~~iGer~  723 (915)
                      +..|++...+.+++|.. .+++.||+|+||+|+|||||||+|||||+|+|||+|+.+|++|+..++.+ ++++++||||+
T Consensus         7 ~l~Pi~p~~r~~le~~~-~~~~~~~~r~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~iger~   85 (289)
T d1xpua3           7 NLTPLHANSRLRMERGN-GSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERP   85 (289)
T ss_dssp             CCCCCSTTSBCCC-----CCSTHHHHHHHHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEECH
T ss_pred             CCCCCCCCCccccccCC-CCcccccceeeeecccccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEeeceeH
Confidence            44566655566666665 34678999999999999999999999999999999999999999887766 45667999999


Q ss_pred             chHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCC
Q psy210          724 REGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPS  803 (915)
Q Consensus       724 ~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~  803 (915)
                      +|+++|.+..       +++||++|+|+||..|++++++|+++||||||+|+||||++||+||||+|+||||+++||+|+
T Consensus        86 ~ev~~~~~~~-------~~~vv~~t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~A~A~rEis~~~ge~p~  158 (289)
T d1xpua3          86 EEVTEMQRLV-------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLT  158 (289)
T ss_dssp             HHHHHHHHHC-------SSEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHHHHHHHHHSCC---CBS
T ss_pred             HHHHhHHhhc-------ceEEEeccCCCchhHHHHHHHHHHHHHHHHHHhccCceeecCcHHHHHHHHHHHHhhccCCCc
Confidence            9999997654       789999999999999999999999999999999999999999999999999999999999996


Q ss_pred             CCCCcchhhHHHHHHHHHhcCC-CCCceeEEEEEEecC-CCCCCCcccccccccCcEEEeeHHHHhcCCCccccCCCCcc
Q psy210          804 AVGYQPTLAEEMGKLQERISST-KNGTITSVQAIYVPA-DDLTDPSPSTTFTHLDSTIVLSRQIAELGIYPAIDPLESYS  881 (915)
Q Consensus       804 ~~gyp~~l~~~l~~l~ERag~~-~~GSiT~i~~v~~~~-~d~~dpi~~~~~~i~dg~ivLsr~La~~g~~PAIdv~~S~S  881 (915)
                       +||||++|+.+++|+||+++. ++||||+++++++++ ||++|||++++++++||||+|||+||++||||||||+.|+|
T Consensus       159 -~gyp~~~~~~~~~l~era~~~~~gGsit~~~~~~~~~~dd~~~pI~~~~~~i~dg~ivLsr~la~~g~~PAId~~~S~S  237 (289)
T d1xpua3         159 -GGVDANALHRPKRFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGT  237 (289)
T ss_dssp             -SSSBTTTTHHHHHHHHTCEECTTSCEEEEEEEEECSSSCHHHHHHHHHHTTTSSEEEEBCHHHHTTTCSSCBCTTTCEE
T ss_pred             -CCcChhhhhhhHHHHHhccCCCCCCcceEEEEEeecCCCccCchHHHHHhcccCeEEEEchhHHhCCCCCCCccCCccc
Confidence             699999999999999999985 578999999999985 56889999999999999999999999999999999999999


Q ss_pred             cccCCCCCCHHHHHHHHHHHHHHHccHhhh
Q psy210          882 KQLDPYIVGEEHYKVANEVKFYLQKYKELK  911 (915)
Q Consensus       882 R~~~~~~~~~~~~~~~~~~r~~l~~~~e~~  911 (915)
                      |++ +.+++++|++.++.+|++|+.|.+.+
T Consensus       238 R~~-~~l~~~~~~~~~~~lRr~l~~~~~~~  266 (289)
T d1xpua3         238 RKE-ELLTTQEELQKMWILRKIIHPMGEID  266 (289)
T ss_dssp             SCG-GGGSCHHHHHHHHHHHHHHTTSCHHH
T ss_pred             ccc-hhhCCHHHHHHHHHHHHHHHhcchHH
Confidence            998 57899999999999999998665543

>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=4.7e-63  Score=531.48  Aligned_cols=251  Identities=16%  Similarity=0.201  Sum_probs=222.2

Q ss_pred             CCcccccCccccccceeeeccccccccceeeeecCCCCChhHHHHHHHHhh---cCCCeEEEEEeeccchhhHHHHHHHH
Q psy210          231 IMDRESVNEPLLTGIKSIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ---KNKNVICIYVCIGQKISSLINVINKL  307 (915)
Q Consensus       231 ~~~R~~~~~~l~TGi~aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~---~~~~~~~V~~~iGer~~ev~~~~~~l  307 (915)
                      +++|.. .+++.||+|+||+|+|||||||++|||++|+|||+| +.+|+++   .+.+++||++++|||.+|+.+|.+..
T Consensus        18 ~le~~~-~~~~~~~~r~ID~l~PigrGQr~~I~g~~g~GKT~l-~~~i~~~~~~~~~~~v~~~~~iger~~ev~~~~~~~   95 (289)
T d1xpua3          18 RMERGN-GSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTML-LQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLV   95 (289)
T ss_dssp             CC-----CCSTHHHHHHHHHHSCCBTTCEEEEEECSSSSHHHH-HHHHHHHHHHHCTTSEEEEEEEEECHHHHHHHHHHC
T ss_pred             ccccCC-CCcccccceeeeecccccCCCeeeEeCCCCCCHHHH-HHHHHHHHhhcCCCeEEEEEeeceeHHHHHhHHhhc
Confidence            344443 336688999999999999999999999999999999 5666653   46677889999999999999998765


Q ss_pred             hccCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhh
Q psy210          308 KYYNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFY  387 (915)
Q Consensus       308 ~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~  387 (915)
                             ++++|++++|+||..|+++|++|+++||||||+|+||||++|||||||+|+||||+++||||+ +|||+++|+
T Consensus        96 -------~~~vv~~t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~A~A~rEis~~~ge~p~-~gyp~~~~~  167 (289)
T d1xpua3          96 -------KGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLT-GGVDANALH  167 (289)
T ss_dssp             -------SSEEEEEETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHHHHHHHHHSCC---CBS-SSSBTTTTH
T ss_pred             -------ceEEEeccCCCchhHHHHHHHHHHHHHHHHHHhccCceeecCcHHHHHHHHHHHHhhccCCCc-CCcChhhhh
Confidence                   689999999999999999999999999999999999999999999999999999999999996 799999999


Q ss_pred             hhhhHHhhhhcccccccchhhhccCCCCccceeEEEEecC-CCCCCccccccccccCcEEEeehhhhhcCCCCeeeecCC
Q psy210          388 LHSRLLERSSKINKYFLEKKKIFNKNNGTLTAFPIIETLE-GDVTSFIPTNVISITDGQIFLDTNLFNSNYRPAINVGLS  466 (915)
Q Consensus       388 ~~~~l~ERag~~~~~~g~~~~~~~~~~GSiT~~~~v~~~~-~d~~~pi~~~~~~i~dgqi~Lsr~la~~g~~PaId~~~S  466 (915)
                      .+++|+||||+++.            +||||.+++++++. ||+++|||+++++|+||||+|||+||++||||||||+.|
T Consensus       168 ~~~~l~era~~~~~------------gGsit~~~~~~~~~~dd~~~pI~~~~~~i~dg~ivLsr~la~~g~~PAId~~~S  235 (289)
T d1xpua3         168 RPKRFFGAARNVEE------------GGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRS  235 (289)
T ss_dssp             HHHHHHHTCEECTT------------SCEEEEEEEEECSSSCHHHHHHHHHHTTTSSEEEEBCHHHHTTTCSSCBCTTTC
T ss_pred             hhHHHHHhccCCCC------------CCcceEEEEEeecCCCccCchHHHHHhcccCeEEEEchhHHhCCCCCCCccCCc
Confidence            99999999998753            79999999999984 669999999999999999999999999999999999999


Q ss_pred             ccccccccccHHHHHHHHHHHHHHHhh---HHHHhhhhcc
Q psy210          467 VSRVGGAAQYKIVKKLSGDIRIMLAQY---RELESFSKFS  503 (915)
Q Consensus       467 ~SR~~~~~~~~~~~~~a~~lr~~la~~---~e~e~l~~lG  503 (915)
                      +||++...+.++|.+.+..+|+.++.|   ++++++++.+
T Consensus       236 ~SR~~~~l~~~~~~~~~~~lRr~l~~~~~~~~~e~Li~~l  275 (289)
T d1xpua3         236 GTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLINKL  275 (289)
T ss_dssp             EESCGGGGSCHHHHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccchhhCCHHHHHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            999999999999999999999988755   4466666543

>d2jdia1 a.69.1.1 (A:380-510) F1 ATP synthase alpha subunit, domain 3 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 3
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.68  E-value=6.3e-17  Score=153.53  Aligned_cols=107  Identities=25%  Similarity=0.350  Sum_probs=103.3

Q ss_pred             cHHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchh
Q psy210          476 YKIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIK  555 (915)
Q Consensus       476 ~~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~  555 (915)
                      ++.++++|+.+|..||+|+|++.|++||++||++++..|++|.++.++|+|++++|+++++++.+||++.+|+||++|++
T Consensus         1 tkamkkvag~lkl~lAQyrEle~FaqF~sdlD~~t~~~l~rG~rl~ElLKQ~q~~Pl~v~eQv~iL~A~~~G~lD~i~v~   80 (131)
T d2jdia1           1 TRAMKQVAGTMKLELAQYREVAAFAQFGSDLDAATQQLLSRGVRLTELLKQGQYSPMAIEEQVAVIYAGVRGYLDKLEPS   80 (131)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTTGGGSSSCSSSCHHHHHHHHHHHHHHHHTCCCSSCCCCHHHHHHHHHHHHTTTTTTSCGG
T ss_pred             CchHHHHhhHHHHHHHHHHHHHHHHhhhhhhhHHHHhhhhhHHHHHHHHhcccccchhHHHHHHHHHHHhcCCccccCHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhcccccchhhhh
Q psy210          556 QIELFEINIIKYFRIINLKNNISINKV  582 (915)
Q Consensus       556 ev~~f~~~Li~~Lr~~~~~lv~~i~ev  582 (915)
                      ++..|+..++.|++..+++.++.|.+.
T Consensus        81 ~I~~fe~~ll~~l~~~~~~~l~~I~~~  107 (131)
T d2jdia1          81 KITKFENAFLSHVISQHQALLGKIRTD  107 (131)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCHHHHHHHHHc
Confidence            999999999999999999988877654

>d1fx0a1 a.69.1.1 (A:373-501) F1 ATP synthase alpha subunit, domain 3 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 3
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=99.67  E-value=8.2e-17  Score=152.17  Aligned_cols=107  Identities=26%  Similarity=0.471  Sum_probs=103.4

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhh
Q psy210          477 KIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQ  556 (915)
Q Consensus       477 ~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~e  556 (915)
                      +.++++++.+|..||+|+|++.|++||++||+.++..|++|.++.++|+|++++|++.++++.+||++++|+||++|+++
T Consensus         2 kamk~vag~lkl~laQy~El~aFaqfgsdlD~~t~~~l~rG~rl~ElLKQ~q~~Pl~v~eQv~iLyA~~~G~LD~ipv~~   81 (129)
T d1fx0a1           2 KAMKKVAGKLKLELAQFAELEAFAQFASDLDKATQNQLARGQRLRELLKQPQSAPLTVEEQVMTIYTGTNGYLDSLELDQ   81 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTTGGGCSSCCHHHHHHHHHHHHHHHHHCCCTTCCCCHHHHHHHHHHHHTTSSSSSCHHH
T ss_pred             chHHHHhhHHHHHHHHHHHHHHHHhhccchhHHHHHhhhHHHHHHHHHHcccccCCCHHHHHHHHHHHHcCccccCCHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcccccchhhhhh
Q psy210          557 IELFEINIIKYFRIINLKNNISINKVQ  583 (915)
Q Consensus       557 v~~f~~~Li~~Lr~~~~~lv~~i~ev~  583 (915)
                      +..|+..++.|++..++++++.|.+..
T Consensus        82 I~~fe~~ll~~l~~~~~~il~~I~~~~  108 (129)
T d1fx0a1          82 VRKYLVELRTYVKTNKPEFQEIISSTK  108 (129)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHcC
Confidence            999999999999999999988887653

>d1skyb1 a.69.1.1 (B:372-502) F1 ATP synthase alpha subunit, domain 3 {Bacillus sp., strain ps3 [TaxId: 1409]}

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase alpha subunit, domain 3
species: Bacillus sp., strain ps3 [TaxId: 1409]

Probab=99.67  E-value=7.9e-17  Score=152.68  Aligned_cols=107  Identities=28%  Similarity=0.491  Sum_probs=100.5

Q ss_pred             HHHHHHHHHHHHHHHhhHHHHhhhhccCCCCHHHHHHHHhHHHHHHHhhcCCCCCccHHHHHHHHHHHhcccccccchhh
Q psy210          477 KIVKKLSGDIRIMLAQYRELESFSKFSSDLDIVTKTQLYNGEKISLLMKQKPHENYSIVELIIILLIIKNRFFFKIPIKQ  556 (915)
Q Consensus       477 ~~~~~~a~~lr~~la~~~e~e~l~~lG~~ld~~~~~~L~~~~~i~~fL~Q~~~e~~s~ee~l~~L~ai~~G~Ld~vp~~e  556 (915)
                      +.++++|+.+|..||+|+|++.|++||++||+.++..|++|.++.++|+|++++|++.++++.++|++++|+||++|+++
T Consensus         2 kamKkvag~lkl~laQyrEle~FaqFgsdLD~~t~~~L~rG~rl~ElLKQ~q~sP~~v~eQv~iLyA~~~G~LD~Ipv~~   81 (131)
T d1skyb1           2 KAMKKVAGTLRLDLAAYRELEAFAQFGSDLDKATQANVARGARTVEVLKQDLHQPIPVEKQVLIIYALTRGFLDDIPVED   81 (131)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-CCCC-CC-CHHHHHHHHHHHHHHHHHCCCTTCCCCHHHHHHHHHHTTTTTTTTSCGGG
T ss_pred             chHHHHhhHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhhHHHHHHHhCCCCCCcCHHHHHHHHHHHhCCccccCcHHH
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcccccchhhhhh
Q psy210          557 IELFEINIIKYFRIINLKNNISINKVQ  583 (915)
Q Consensus       557 v~~f~~~Li~~Lr~~~~~lv~~i~ev~  583 (915)
                      +..|+..++.|++.+++++++.|.+..
T Consensus        82 I~~fe~~ll~~l~~~~~~~l~~I~~~~  108 (131)
T d1skyb1          82 VRRFEKEFYLWLDQNGQHLLEHIRTTK  108 (131)
T ss_dssp             HHHHHHHHHHHHHHGGGGTHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHcC
Confidence            999999999999999999988887654

>d1c99a_ f.17.1.1 (A:) F1F0 ATP synthase subunit C {Escherichia coli [TaxId: 562]}

class: Membrane and cell surface proteins and peptides
fold: Transmembrane helix hairpin
superfamily: F1F0 ATP synthase subunit C
family: F1F0 ATP synthase subunit C
domain: F1F0 ATP synthase subunit C
species: Escherichia coli [TaxId: 562]

Probab=99.23  E-value=3.7e-13  Score=114.02  Aligned_cols=60  Identities=43%  Similarity=0.698  Sum_probs=54.0

Q ss_pred             hhHHHHHHHHHHHHhhhhhhhHHHHHHHHhhhccCcccccccccceeeccCcccccChhh
Q psy210            4 IPLFAASIMMGLASIGTGIGFGILGGKLLESISRQPELENSLLNKTFLITGPRYCPSIED   63 (915)
Q Consensus         4 ~~~~~~~~~~~~~~~g~~~g~g~~~~~~~~~~aRqPe~~~~l~~~mIig~g~~~~~si~~   63 (915)
                      +.++++++++|++++|+|+|+|++++|++|++|||||+.++++++||++.|.-+.-.|-.
T Consensus         8 ~~~l~agl~~gl~aiG~giG~G~~~~~ale~~ARqPE~~~~l~~~m~ig~al~Ea~~i~~   67 (79)
T d1c99a_           8 LLYMAAAVMMGLAAIGAAIGIGILGGKFLEGAARQPDLIPLLRTQFFIVMGLVDAIPMIA   67 (79)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhHHHHHHHHHHHHHHHHHHH
Confidence            457999999999999999999999999999999999999999999999988766544443

>d2jdid1 a.69.1.1 (D:358-475) F1 ATP synthase beta subunit, domain 3 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 3
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.40  E-value=5e-07  Score=81.15  Aligned_cols=84  Identities=14%  Similarity=0.148  Sum_probs=73.5

Q ss_pred             cccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHHHhHHHHHHHhhcCCC----------CCccHHHHHHHH
Q psy210          474 AQYKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQLYNGEKISLLMKQKPH----------ENYSIVELIIIL  541 (915)
Q Consensus       474 ~~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~i~~fL~Q~~~----------e~~s~ee~l~~L  541 (915)
                      ..-+.|..+|.+.++.|++|+|+++++.+ | ++||++++..+.++++|++||.|+.+          ...++++++.-.
T Consensus         5 ivGe~Hy~~a~~V~~~LqrYkeLqdIIaiLG~dELSeeDk~~V~RARklqrfLsQpFfvae~fTg~~G~~V~l~dTi~g~   84 (118)
T d2jdid1           5 IVGSEHYDVARGVQKILQDYKSLQDIIAILGMDELSEEDKLTVSRARKIQRFLSQPFQVAEVFTGHLGKLVPLKETIKGF   84 (118)
T ss_dssp             HHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGSCHHHHHHHHHHHHHHHHHCCCCGGGHHHHSSCCCCCCHHHHHHHH
T ss_pred             ccChHHHHHHHHHHHHHHHhHHHHHHHHHcChhhcCHHHhHHHHHHHHHHHHhcCcceeeeeecCCCcceecHHHHHHHH
Confidence            34578999999999999999999999985 6 79999999999999999999999976          456888888888


Q ss_pred             HHHhcccccccchhhH
Q psy210          542 LIIKNRFFFKIPIKQI  557 (915)
Q Consensus       542 ~ai~~G~Ld~vp~~ev  557 (915)
                      ..+.+|-+|++|.+..
T Consensus        85 ~~Il~G~~D~~pE~~f  100 (118)
T d2jdid1          85 QQILAGEYDHLPEQAF  100 (118)
T ss_dssp             HHHHTTTTTTSCGGGG
T ss_pred             HHHhCCCCCCCCHHHH
Confidence            8888888888876543

>d1skye1 a.69.1.1 (E:357-470) F1 ATP synthase beta subunit, domain 3 {Bacillus sp., strain ps3 [TaxId: 1409]}

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 3
species: Bacillus sp., strain ps3 [TaxId: 1409]

Probab=98.38  E-value=5.9e-07  Score=80.06  Aligned_cols=81  Identities=15%  Similarity=0.198  Sum_probs=71.0

Q ss_pred             cHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHHHhHHHHHHHhhcCCCC----------CccHHHHHHHHHH
Q psy210          476 YKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQLYNGEKISLLMKQKPHE----------NYSIVELIIILLI  543 (915)
Q Consensus       476 ~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~i~~fL~Q~~~e----------~~s~ee~l~~L~a  543 (915)
                      -++|.++|.++++.|++|+|+++++.+ | ++|+++++..+.++++|++||.|+.+-          ..++++++.-...
T Consensus         4 G~~Hy~~a~~v~~~LqrYkeLqDIIaiLG~dELSeeDk~~V~RARklqrFLsQpF~vaE~fTG~~G~~V~l~dTi~g~~~   83 (114)
T d1skye1           4 GEEHYQVARKVQQTLERYKELQDIIAILGMDELSDEDKLVVHRARRIQFFLSQNFHVAEQFTGQPGSYVPVKETVRGFKE   83 (114)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTCTTHHHHHHHHHHHHHHHTCBCCTTTHHHHSCCCCCCCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhcCHHHHHHHHHHHHHHHHhcCCceeceeecCCCeeEeeHHHHHHHHHH
Confidence            468999999999999999999999985 6 799999999999999999999999853          4577888888888


Q ss_pred             Hhcccccccchhh
Q psy210          544 IKNRFFFKIPIKQ  556 (915)
Q Consensus       544 i~~G~Ld~vp~~e  556 (915)
                      +.+|-+|++|.+.
T Consensus        84 Il~G~~D~~pE~~   96 (114)
T d1skye1          84 ILEGKYDHLPEDR   96 (114)
T ss_dssp             HHTTTTTTSCGGG
T ss_pred             HhCCCCCCCCHHH
Confidence            8888888887654

>d1fx0b1 a.69.1.1 (B:378-485) F1 ATP synthase beta subunit, domain 3 {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: All alpha proteins
fold: Left-handed superhelix
superfamily: C-terminal domain of alpha and beta subunits of F1 ATP synthase
family: C-terminal domain of alpha and beta subunits of F1 ATP synthase
domain: F1 ATP synthase beta subunit, domain 3
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=98.26  E-value=8.3e-07  Score=78.69  Aligned_cols=82  Identities=15%  Similarity=0.167  Sum_probs=71.6

Q ss_pred             ccHHHHHHHHHHHHHHHhhHHHHhhhhc-c-CCCCHHHHHHHHhHHHHHHHhhcCCCC----------CccHHHHHHHHH
Q psy210          475 QYKIVKKLSGDIRIMLAQYRELESFSKF-S-SDLDIVTKTQLYNGEKISLLMKQKPHE----------NYSIVELIIILL  542 (915)
Q Consensus       475 ~~~~~~~~a~~lr~~la~~~e~e~l~~l-G-~~ld~~~~~~L~~~~~i~~fL~Q~~~e----------~~s~ee~l~~L~  542 (915)
                      .-++|.++|.++++.|++|+|+++++.+ | ++|+++++..++++++|++||.|+.+-          ..++++++.-..
T Consensus         3 vG~~Hy~~a~~v~~iLqrYkeLqdIIailG~dELSeeDk~~v~RArklq~FLtQpFfvae~fTg~~G~~V~l~dTi~g~~   82 (108)
T d1fx0b1           3 VGEEHYEIAQRVKETLQRYKELQDIIAILGLDELSEEDRLTVARARKIERFLSQPFFVAEVFTGSPGKYVGLAETIRGFQ   82 (108)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHHCSTTSCTTTHHHHHHHHHHHHHTCCCCSSCTTTSCSCCCCCCHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcChhhhHHHHHHHHHHHHhccccccceecCCCCcCEecHHHHHhhHH
Confidence            3478999999999999999999999985 6 799999999999999999999999763          347788888888


Q ss_pred             HHhcccccccchhh
Q psy210          543 IIKNRFFFKIPIKQ  556 (915)
Q Consensus       543 ai~~G~Ld~vp~~e  556 (915)
                      .+.+|-+|++|.+.
T Consensus        83 ~IL~G~~D~~pE~~   96 (108)
T d1fx0b1          83 LILSGELDSLPEQA   96 (108)
T ss_dssp             TTTTTTTSSSCGGG
T ss_pred             HHhCCCcCCCCHHH
Confidence            88888888887654

>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=97.89  E-value=2.2e-05  Score=79.35  Aligned_cols=180  Identities=16%  Similarity=0.092  Sum_probs=100.9

Q ss_pred             ccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhh--cC
Q psy210          662 NNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKE--SN  737 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~--~~  737 (915)
                      .+..+.||+.-+|-++.  +.+|.=..|.|+||+|||+|+.+++.+..++ ..-++|...-+..+.+.+..+.+.-  ..
T Consensus         4 ~~~ri~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~-~~~~~~is~e~~~~~~~~~~~~~~~~~~~   82 (242)
T d1tf7a2           4 SNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN-KERAILFAYEESRAQLLRNAYSWGMDFEE   82 (242)
T ss_dssp             CCCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTT-TCCEEEEESSSCHHHHHHHHHTTSCCHHH
T ss_pred             CCCccCCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHh-ccccceeeccCCHHHHHHHHHHcCCChHH
Confidence            44458999999999998  8899999999999999999999999997653 3456777666655554443332210  00


Q ss_pred             c-cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHH
Q psy210          738 V-LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMG  816 (915)
Q Consensus       738 ~-~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~  816 (915)
                      . ......+...   .+...  ....-+...++..++.+--++++||++-+..+...-..            ......+.
T Consensus        83 ~~~~~~~~~~~~---~~~~~--~~~~~~~~i~~~i~~~~~~~vviDs~~~~~~~~~~~~~------------~~~~~~l~  145 (242)
T d1tf7a2          83 MERQNLLKIVCA---YPESA--GLEDHLQIIKSEINDFKPARIAIDSLSALARGVSNNAF------------RQFVIGVT  145 (242)
T ss_dssp             HHHTTSEEECCC---CGGGS--CHHHHHHHHHHHHHTTCCSEEEEECHHHHTSSSCHHHH------------HHHHHHHH
T ss_pred             HhhcCceEEEEe---ecchh--hHHHHHHHHHHHHHhcCCceeeeecchhhhcCCCHHHH------------HHHHHHHH
Confidence            0 0011122111   11111  11122333344445544446688999865433211110            01222333


Q ss_pred             HHHHHhcCCCCCceeEEEEEEecCCCCCCCc-ccccccccCcEEEeeHHH
Q psy210          817 KLQERISSTKNGTITSVQAIYVPADDLTDPS-PSTTFTHLDSTIVLSRQI  865 (915)
Q Consensus       817 ~l~ERag~~~~GSiT~i~~v~~~~~d~~dpi-~~~~~~i~dg~ivLsr~L  865 (915)
                      ++..+.      -+|.+.+..+...+..++. ......+.|+.+.|+..-
T Consensus       146 ~~~~~~------~~~~i~~~~~~~~~~~~~~~~~~~~~~ad~vi~l~~~~  189 (242)
T d1tf7a2         146 GYAKQE------EITGLFTNTSDQFMGAHSITDSHISTITDTIILLQYVE  189 (242)
T ss_dssp             HHHHHT------TCEEEEEEECSSSSCCCSSCSSCCTTTCSEEEEEEEEE
T ss_pred             HHHHHc------CCeEEEEEeeEeeccccccCCcceeeecceEEEEEEee
Confidence            333332      2566666665544433332 335666778888886553

>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=97.57  E-value=3.1e-05  Score=80.58  Aligned_cols=112  Identities=22%  Similarity=0.358  Sum_probs=78.3

Q ss_pred             ccccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc
Q psy210          662 NNNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV  738 (915)
Q Consensus       662 ~~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~  738 (915)
                      .-+.+.||+..+|.++.   +.+|+=.-|+|++|+|||+|+.+++.+..+.. ..+||+ -.|..-. .++.+.+   |+
T Consensus        37 ~~~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g-~~~vyI-DtE~~~~-~e~a~~~---Gv  110 (269)
T d1mo6a1          37 PISVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAG-GVAAFI-DAEHALD-PDYAKKL---GV  110 (269)
T ss_dssp             CSCCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTT-CEEEEE-ESSCCCC-HHHHHHH---TC
T ss_pred             ccceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCC-CEEEEE-ECCccCC-HHHHHHh---CC
Confidence            34679999999998886   66888999999999999999999999876542 345554 3443221 2345555   33


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      -..-++++.+ + . .      .-++.++|.+..++...||++||++-+.
T Consensus       111 D~d~il~~~~-~-~-~------E~~~~~~~~l~~~~~~~liIiDSi~al~  151 (269)
T d1mo6a1         111 DTDSLLVSQP-D-T-G------EQALEIADMLIRSGALDIVVIDSVAALV  151 (269)
T ss_dssp             CGGGCEEECC-S-S-H------HHHHHHHHHHHHTTCEEEEEEECSTTCC
T ss_pred             CHHHeEEecC-C-C-H------HHHHHHHHHHHhcCCCCEEEEecccccc
Confidence            2222343332 2 1 2      2357788999989988999999999766

>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=97.55  E-value=4.1e-05  Score=77.21  Aligned_cols=67  Identities=21%  Similarity=0.200  Sum_probs=55.2

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHH
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVI  304 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~  304 (915)
                      +.-+-||+..+|.++.  +-+|.-..|.|++|+|||+++++.+++....+-.|+|....+....+.+..
T Consensus         5 ~~ri~TG~~~LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~~~~~~~~~   73 (242)
T d1tf7a2           5 NVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFAYEESRAQLLRNA   73 (242)
T ss_dssp             CCEECCSCHHHHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSCHHHHHHHH
T ss_pred             CCccCCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceeeccCCHHHHHHHH
Confidence            4458899999999998  779999999999999999999999888765555678888877766554443

>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=97.50  E-value=7.1e-05  Score=77.82  Aligned_cols=109  Identities=18%  Similarity=0.319  Sum_probs=81.2

Q ss_pred             ccccccceeeecccc---ccccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-cc
Q psy210          239 EPLLTGIKSIDSMIP---IGKGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-MD  314 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p---igrGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~~  314 (915)
                      +.+.||+.++|.++.   +-+|.=.-|+|++++|||++|++++++....+..|||.=.....+  .++.+.+   |+ .+
T Consensus        39 ~~i~TG~~~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~--~e~a~~~---GvD~d  113 (269)
T d1mo6a1          39 SVIPTGSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALD--PDYAKKL---GVDTD  113 (269)
T ss_dssp             CCBCCSCHHHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCC--HHHHHHH---TCCGG
T ss_pred             ceEccCCHHHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEECCccCC--HHHHHHh---CCCHH
Confidence            678999999999886   334899999999999999999999888666677788887666554  2344444   55 34


Q ss_pred             eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          315 YTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       315 ~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      + ++++.+ + . .+      .++.++|.+.+.+.-.|||+||++.+.
T Consensus       114 ~-il~~~~-~-~-~E------~~~~~~~~l~~~~~~~liIiDSi~al~  151 (269)
T d1mo6a1         114 S-LLVSQP-D-T-GE------QALEIADMLIRSGALDIVVIDSVAALV  151 (269)
T ss_dssp             G-CEEECC-S-S-HH------HHHHHHHHHHHTTCEEEEEEECSTTCC
T ss_pred             H-eEEecC-C-C-HH------HHHHHHHHHHhcCCCCEEEEecccccc
Confidence            4 333322 1 1 33      356788988888888899999998776

>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=97.38  E-value=6.3e-05  Score=77.99  Aligned_cols=109  Identities=20%  Similarity=0.328  Sum_probs=75.4

Q ss_pred             ccccccceeeecccccc---ccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCC-cc
Q psy210          239 EPLLTGIKSIDSMIPIG---KGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNC-MD  314 (915)
Q Consensus       239 ~~l~TGi~aiD~l~pig---rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~-~~  314 (915)
                      +++.||+.++|.++--|   +|+=..|+|++|+|||+||++++++....+..|+|.-.....+.  ++   ++.-|+ ++
T Consensus        33 ~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~--~~---a~~~Gvd~d  107 (263)
T d1u94a1          33 ETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDP--IY---ARKLGVDID  107 (263)
T ss_dssp             CEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCH--HH---HHHTTCCGG
T ss_pred             CeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEccccccCH--HH---HHHhCCCHH
Confidence            68899999999877433   68999999999999999999998885545556788776666553  23   344466 45


Q ss_pred             eEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          315 YTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       315 ~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      +.+ +..+  +. .+      .++.+.+.+.+.+.--|+|+||++.+.
T Consensus       108 ~v~-~~~~--~~-~E------~~~~~i~~l~~~~~~~liViDSi~al~  145 (263)
T d1u94a1         108 NLL-CSQP--DT-GE------QALEICDALARSGAVDVIVVDSVAALT  145 (263)
T ss_dssp             GCE-EECC--SS-HH------HHHHHHHHHHHHTCCSEEEEECGGGCC
T ss_pred             HEE-EecC--CC-HH------HHHHHHHHHHhcCCCCEEEEECccccc
Confidence            543 3322  11 22      245566777765544478899998774

>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=97.28  E-value=8.4e-05  Score=77.23  Aligned_cols=114  Identities=20%  Similarity=0.274  Sum_probs=76.3

Q ss_pred             ccccccccccceeeecccccc---cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhc
Q psy210          660 IFNNNILETGIKVIDLLCPFL---KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKES  736 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~pig---kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~  736 (915)
                      +..-+.+.||...+|.++-.|   +|.=.-|+|++++|||+|+.+++.+..+. ...++|+ -.|..-.. ++.+.+   
T Consensus        32 ~~~~~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~-g~~v~yi-DtE~~~~~-~~a~~~---  105 (268)
T d1xp8a1          32 KLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKA-GGTCAFI-DAEHALDP-VYARAL---  105 (268)
T ss_dssp             CCCCCEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHT-TCCEEEE-ESSCCCCH-HHHHHT---
T ss_pred             CCCCCeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhC-CCEEEEE-ECCccCCH-HHHHHh---
Confidence            334467999999999988755   77788999999999999999999987653 2345554 33322222 344444   


Q ss_pred             CccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          737 NVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       737 ~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      |+-..-++++ ..+ .       ..-++.++|.+..++..-|+|+||++-+.
T Consensus       106 Gvd~d~i~~~-~~~-~-------~E~~~~~~~~l~~~~~~~liIiDSi~al~  148 (268)
T d1xp8a1         106 GVNTDELLVS-QPD-N-------GEQALEIMELLVRSGAIDVVVVDSVAALT  148 (268)
T ss_dssp             TCCGGGCEEE-CCS-S-------HHHHHHHHHHHHTTTCCSEEEEECTTTCC
T ss_pred             CCCchhEEEE-cCC-C-------HHHHHHHHHHHHhcCCCcEEEEecccccc
Confidence            3322223333 322 1       22356778888888777789999999755

>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=97.27  E-value=0.00013  Score=75.72  Aligned_cols=114  Identities=20%  Similarity=0.315  Sum_probs=79.2

Q ss_pred             cccccCccccccceeeecccccc---ccceeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhc
Q psy210          233 DRESVNEPLLTGIKSIDSMIPIG---KGQRELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKY  309 (915)
Q Consensus       233 ~R~~~~~~l~TGi~aiD~l~pig---rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~  309 (915)
                      .|..+ +++.||..++|.++-.|   +|.=.-|+|++++|||+||++++++....+..|+|.=-....+.  ++.+.+  
T Consensus        31 ~~~~~-~~i~TGs~~lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~--~~a~~~--  105 (268)
T d1xp8a1          31 SKLDV-QVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDP--VYARAL--  105 (268)
T ss_dssp             CCCCC-CEECCSCHHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCH--HHHHHT--
T ss_pred             CCCCC-CeEcCCCHHHHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEECCccCCH--HHHHHh--
Confidence            34443 57999999999998755   48888999999999999999998875455566778766555543  344443  


Q ss_pred             cCC-cceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          310 YNC-MDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       310 ~~~-~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                       |+ .++. +++ ..+ . .+      .++.++|.+.+.+.--|||+||++.+.
T Consensus       106 -Gvd~d~i-~~~-~~~-~-~E------~~~~~~~~l~~~~~~~liIiDSi~al~  148 (268)
T d1xp8a1         106 -GVNTDEL-LVS-QPD-N-GE------QALEIMELLVRSGAIDVVVVDSVAALT  148 (268)
T ss_dssp             -TCCGGGC-EEE-CCS-S-HH------HHHHHHHHHHTTTCCSEEEEECTTTCC
T ss_pred             -CCCchhE-EEE-cCC-C-HH------HHHHHHHHHHhcCCCcEEEEecccccc
Confidence             66 4443 333 222 1 22      345678888877766689999998755

>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=97.22  E-value=0.00013  Score=75.59  Aligned_cols=110  Identities=21%  Similarity=0.347  Sum_probs=72.4

Q ss_pred             cccccccceeeecccc---cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCc-
Q psy210          663 NNILETGIKVIDLLCP---FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNV-  738 (915)
Q Consensus       663 ~e~l~TGir~ID~l~p---igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~-  738 (915)
                      -+.+.||+..+|.++-   +-+|+=..|+|++|+|||+|+.+++.+..+. ...+||+ -.|-.-.- ++.+.+   |+ 
T Consensus        32 ~~~isTG~~~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~-g~~~vyi-dtE~~~~~-~~a~~~---Gvd  105 (263)
T d1u94a1          32 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQRE-GKTCAFI-DAEHALDP-IYARKL---GVD  105 (263)
T ss_dssp             CCEECCSCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHT-TCCEEEE-ESSCCCCH-HHHHHT---TCC
T ss_pred             CCeEccCCHHHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcC-CCEEEEE-ccccccCH-HHHHHh---CCC
Confidence            3689999999998764   3388999999999999999999999988764 2344554 44433222 334444   33 


Q ss_pred             cccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          739 LDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       739 ~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      .++ ++++.+ + . .+      -++.+.+.+..++.--|+|+||++-+.
T Consensus       106 ~d~-v~~~~~-~-~-~E------~~~~~i~~l~~~~~~~liViDSi~al~  145 (263)
T d1u94a1         106 IDN-LLCSQP-D-T-GE------QALEICDALARSGAVDVIVVDSVAALT  145 (263)
T ss_dssp             GGG-CEEECC-S-S-HH------HHHHHHHHHHHHTCCSEEEEECGGGCC
T ss_pred             HHH-EEEecC-C-C-HH------HHHHHHHHHHhcCCCCEEEEECccccc
Confidence            344 333322 1 1 22      245566777766655578899999664

>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=96.97  E-value=0.00084  Score=66.20  Aligned_cols=65  Identities=23%  Similarity=0.250  Sum_probs=51.9

Q ss_pred             ccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHH
Q psy210          664 NILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGND  728 (915)
Q Consensus       664 e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e  728 (915)
                      +-+.|||..+|-++-  +-+|.-..|+|+||+|||+|+.+++.+...++...+.|+...+..++...
T Consensus         6 ~~i~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~   72 (242)
T d1tf7a1           6 AKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIK   72 (242)
T ss_dssp             CEECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHH
T ss_pred             CcccCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHH
Confidence            458999999999987  88999999999999999999999888655444445677766666555443

>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=96.60  E-value=0.00054  Score=68.76  Aligned_cols=50  Identities=24%  Similarity=0.214  Sum_probs=43.9

Q ss_pred             ccccccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          658 NQIFNNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +++.--+.+.|||.-+|.++-  +.+|+=+.|.|+||+|||+++.+++.+..
T Consensus        10 ~~~~~i~ri~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          10 KKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHHTCCEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HhhcCCCeECCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            444455679999999999988  88999999999999999999999998765

>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=96.58  E-value=0.00038  Score=57.09  Aligned_cols=39  Identities=41%  Similarity=0.651  Sum_probs=36.7

Q ss_pred             cchhhhhhhccccceeeeccccCccCcccCCeEEeCCCc
Q psy210          576 NISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP  614 (915)
Q Consensus       576 v~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~  614 (915)
                      .+.+.||+++++++.|+++.+++|+||++|++|..||.|
T Consensus        34 ~~~vlEV~qhlg~~~VR~IAl~~TdGL~RG~~V~~tG~P   72 (72)
T d2jdid2          34 TRLVLEVAQHLGESTVRTIAMDGTEGLVRGQKVLDSGAP   72 (72)
T ss_dssp             SCCEEEEEEEEETTEEEEEESSCCTTCBTTCEEEECSSS
T ss_pred             ceEEEEEeeecCCCeEEEEEecCccCccCCCEEEeCCCC
Confidence            457899999999999999999999999999999999976

>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=96.57  E-value=0.00036  Score=58.35  Aligned_cols=39  Identities=41%  Similarity=0.608  Sum_probs=36.6

Q ss_pred             cchhhhhhhccccceeeeccccCccCcccCCeEEeCCCc
Q psy210          576 NISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP  614 (915)
Q Consensus       576 v~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~  614 (915)
                      .+.++||++|++++.|+++.+++|+||++|++|..||.|
T Consensus        41 ~~lvlEV~qhlg~~~VR~IAm~sTdGL~RG~~V~dtG~P   79 (79)
T d1fx0b2          41 MNVTCEVQQLLGNNRVRAVAMSATDGLTRGMEVIDTGAP   79 (79)
T ss_dssp             CCCEEEEEECCSSSCEEEEESSCCTTCCTTCEEEECSSS
T ss_pred             eEEEEEEeEccCCCEEEEEEecCCcCccCCCEEEeCCCC
Confidence            457899999999999999999999999999999999976

>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=96.40  E-value=0.0023  Score=63.22  Aligned_cols=122  Identities=17%  Similarity=0.247  Sum_probs=72.7

Q ss_pred             ccccCccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc------CCCeEEEEEeeccchhh--HHHH
Q psy210          234 RESVNEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK------NKNVICIYVCIGQKISS--LINV  303 (915)
Q Consensus       234 R~~~~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~------~~~~~~V~~~iGer~~e--v~~~  303 (915)
                      |..--+++.|||..+|.++.  +-+|+-..|.|++|+|||+++++.+++..      ..+-.|+|.-..+....  ....
T Consensus         9 ~~~~~~~i~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~   88 (251)
T d1szpa2           9 RRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVSI   88 (251)
T ss_dssp             HHHSSCEECCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHHH
T ss_pred             HhcCCCeecCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHHH
Confidence            44445678999999999998  67899999999999999999999887642      23445777766554332  2222


Q ss_pred             HHHHhc--cCCcceEEEEEecCCCCHHHhhhhhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          304 INKLKY--YNCMDYTVVVAATAADSAAEQYISPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       304 ~~~l~~--~~~~~~tvvv~~~a~~~~~~r~~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                      .+.+..  .....+..++-....+.. +      .-....+.........+++.|++....
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~-~------~~~~~~~~~~~~~~~~~~~~ds~~~~~  142 (251)
T d1szpa2          89 AQRFGLDPDDALNNVAYARAYNADHQ-L------RLLDAAAQMMSESRFSLIVVDSVMALY  142 (251)
T ss_dssp             HHHTCCCHHHHGGGEEEEECCSTTTH-H------HHHHHTHHHHHHSCEEEEEEETGGGGG
T ss_pred             HHhcCCchhhhhcceEEEeccchhHH-H------HHHHHHHHHhhccccceeeehhhhhhh
Confidence            222211  111333333332222211 1      112222333344667788889887654

>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=96.25  E-value=0.0058  Score=60.70  Aligned_cols=51  Identities=20%  Similarity=0.064  Sum_probs=44.1

Q ss_pred             ccccccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          658 NQIFNNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +++.-.+.+.|||.-+|-++-  +-+|+=+.|.|+||+|||+++.+++.+...
T Consensus        11 ~~~~~~~ri~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~~   63 (258)
T d1v5wa_          11 EKRKMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQL   63 (258)
T ss_dssp             HHGGGCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTTS
T ss_pred             HhhcCCceecCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            344444679999999999987  999999999999999999999999987654

>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=96.24  E-value=0.00045  Score=58.19  Aligned_cols=38  Identities=39%  Similarity=0.610  Sum_probs=36.0

Q ss_pred             chhhhhhhccccceeeeccccCccCcccCCeEEeCCCc
Q psy210          577 ISINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP  614 (915)
Q Consensus       577 ~~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~  614 (915)
                      +.++||+++++++.|+++.+++|+||++|++|..||.|
T Consensus        45 ~lvlEV~qhlg~~~VR~IAm~~TdGL~RG~~V~dTG~P   82 (82)
T d1skye2          45 DLTLEVALHLGDDTVRTIAMASTDGLIRGMEVIDTGAP   82 (82)
T ss_dssp             EEEEEEEEEEETTEEEEEESSCCTTCCTTCEEEEEEEE
T ss_pred             eEEEEehhhcCCCeEEEEEecCccCccCCCEEEeCCCC
Confidence            57899999999999999999999999999999999865

>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=96.12  E-value=0.0034  Score=61.98  Aligned_cols=127  Identities=18%  Similarity=0.171  Sum_probs=76.5

Q ss_pred             ccccccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHhcC-----CcEEEEEEecCCCchH--HH
Q psy210          658 NQIFNNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH-----KGCSVFIGVGERSREG--ND  728 (915)
Q Consensus       658 ~r~~~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~-----~~~~v~~~iGer~~ev--~e  728 (915)
                      .|+.-.+.+.|||.-+|.++.  +.+|+=+.|.|+||+|||+|+.+++.+....+     ...++|+-.-+.....  ..
T Consensus         8 ~~~~~~~~i~TGi~~LD~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~   87 (251)
T d1szpa2           8 MRRSELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLVS   87 (251)
T ss_dssp             HHHHSSCEECCSCHHHHHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGHH
T ss_pred             HHhcCCCeecCCCHHHHhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHhhhhhhhccCCceEEEEeecchHHHHHHHH
Confidence            455566789999999999998  88999999999999999999999987654321     2456776544433322  22


Q ss_pred             HHHHhh--hcCccccEEEEEEcCCCChHhHHHHHHHHHHHHHHHHHCCCcEEEEecchhhHHHhh
Q psy210          729 FYHEMK--ESNVLDKVSLIYGQMNEPSGNRLRVALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAG  791 (915)
Q Consensus       729 ~~~~~~--~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~  791 (915)
                      ....+.  ......+..++-....+.. .      .-+...+.........+++.||+..+..+.
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~------~~~~~~~~~~~~~~~~~~~~ds~~~~~~~~  145 (251)
T d1szpa2          88 IAQRFGLDPDDALNNVAYARAYNADHQ-L------RLLDAAAQMMSESRFSLIVVDSVMALYRTD  145 (251)
T ss_dssp             HHHHTCCCHHHHGGGEEEEECCSTTTH-H------HHHHHTHHHHHHSCEEEEEEETGGGGGSCC
T ss_pred             HHHhcCCchhhhhcceEEEeccchhHH-H------HHHHHHHHHhhccccceeeehhhhhhhhhh
Confidence            222221  1122334333322222221 1      112222334445678888899998765443

>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=96.07  E-value=0.0014  Score=65.58  Aligned_cols=43  Identities=26%  Similarity=0.338  Sum_probs=39.1

Q ss_pred             ccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          239 EPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+.|||..+|.++-  +.+|+=+.|.|++|+|||+++++.+.+.
T Consensus        16 ~ri~TGi~~LD~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~   60 (254)
T d1pzna2          16 GRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV   60 (254)
T ss_dssp             CEECCSCHHHHHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CeECCCCHHHHHhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            458899999999988  7789999999999999999999998874

>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=96.05  E-value=0.006  Score=62.19  Aligned_cols=47  Identities=19%  Similarity=0.158  Sum_probs=40.0

Q ss_pred             ccccccceeeecccc-cccCCeeeeccCCCCChhhHHHHHHHHHHhcC
Q psy210          664 NILETGIKVIDLLCP-FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEH  710 (915)
Q Consensus       664 e~l~TGir~ID~l~p-igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~  710 (915)
                      ..+.||+..+|-++- +-+|+=+.|.|+||+|||+++.+++.|++.++
T Consensus        16 ~~i~TG~~~lD~~~~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~   63 (277)
T d1cr2a_          16 GLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAM   63 (277)
T ss_dssp             CBCCCSCTTHHHHHCSBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTS
T ss_pred             cccCCCchhHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhc
Confidence            468999999997653 56999999999999999999999999876443

>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=96.03  E-value=0.005  Score=61.15  Aligned_cols=46  Identities=20%  Similarity=0.251  Sum_probs=40.4

Q ss_pred             ccCccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          236 SVNEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       236 ~~~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      .--..+.|||..+|.++-  +-+|+-+.|.|++|+|||++|++.+.+.
T Consensus        14 ~~~~ri~TGi~~LD~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          14 KMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             GGCCCBCCSCHHHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             cCCceecCCCHHHHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            333568899999999987  7789999999999999999999998864

>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=96.01  E-value=0.00057  Score=67.82  Aligned_cols=49  Identities=20%  Similarity=0.057  Sum_probs=43.7

Q ss_pred             ccccccccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          660 IFNNNILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       660 ~~~~e~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +.....+.||+.-+|-++.  +.+|+=..|.|+||+|||+++.+++.++..
T Consensus        10 ~~~~~~i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~~   60 (258)
T d2i1qa2          10 RSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQN   60 (258)
T ss_dssp             HTTCCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTTC
T ss_pred             hCCCceecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            3445579999999999988  999999999999999999999999998764

>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=95.93  E-value=0.00098  Score=64.13  Aligned_cols=44  Identities=27%  Similarity=0.305  Sum_probs=40.6

Q ss_pred             cccccceeeecccc--cccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          665 ILETGIKVIDLLCP--FLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       665 ~l~TGir~ID~l~p--igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      -+.||++.+|-++-  +-+|+=..|.|+||+|||+|+.+++.+.+.
T Consensus         4 ri~TG~~~LD~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_           4 QITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             EECCSCHHHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTS
T ss_pred             EEcCCCHHHHHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHH
Confidence            47899999999998  889999999999999999999999988654

>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=95.73  E-value=0.0018  Score=62.23  Aligned_cols=43  Identities=28%  Similarity=0.455  Sum_probs=38.5

Q ss_pred             cccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          240 PLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       240 ~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      -+.||++.+|.++.  +-+|+=..|.|++|+|||++|++.+++..
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            36799999999998  77899999999999999999999888753

>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=95.53  E-value=0.018  Score=58.50  Aligned_cols=62  Identities=11%  Similarity=0.145  Sum_probs=47.8

Q ss_pred             ccccccceeeecccc-ccccceeeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEeeccchhhH
Q psy210          239 EPLLTGIKSIDSMIP-IGKGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIGQKISSL  300 (915)
Q Consensus       239 ~~l~TGi~aiD~l~p-igrGqr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~iGer~~ev  300 (915)
                      ..+.||+..+|.++- +.+|+=..|.|.+|+|||++++++..+. ...+..+.|....+..+++
T Consensus        16 ~~i~TG~~~lD~~~~G~~~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E~~~~~~   79 (277)
T d1cr2a_          16 GLLFSGCTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLEESVEET   79 (277)
T ss_dssp             CBCCCSCTTHHHHHCSBCTTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESSSCHHHH
T ss_pred             cccCCCchhHHHHhcCCCCCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEeeeccchhhH
Confidence            468999999998763 4479999999999999999988887764 3455556677766655544

>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=95.50  E-value=0.0024  Score=62.70  Aligned_cols=65  Identities=22%  Similarity=0.300  Sum_probs=49.8

Q ss_pred             cccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEeeccchhhHHHHH
Q psy210          240 PLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIGQKISSLINVI  304 (915)
Q Consensus       240 ~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~iGer~~ev~~~~  304 (915)
                      -+.|||..+|-++-  +-+|.-..|+|++|+|||++|++.+.+. ...+..+.|....+..+++....
T Consensus         7 ~i~TGi~~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~~~~~~~~~   74 (242)
T d1tf7a1           7 KMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQDIIKNA   74 (242)
T ss_dssp             EECCCCTTHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSCHHHHHHHH
T ss_pred             cccCCcHHHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCcccccccCCHHHHHHHH
Confidence            46799999999997  7789999999999999999998887653 22222356777777766654433

>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=95.25  E-value=0.014  Score=56.94  Aligned_cols=110  Identities=23%  Similarity=0.270  Sum_probs=62.3

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCC-----cEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHK-----GCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLR  758 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~-----~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~  758 (915)
                      ...++|+||||||+|+..+++.+...+.     +..||.+                            +.+.--+...++
T Consensus        45 n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l----------------------------d~~~LiAg~~~r   96 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL----------------------------DMGALVAGAKYR   96 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE----------------------------CHHHHHTTTCSH
T ss_pred             CeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEe----------------------------eHHHHhccCCcc
Confidence            5789999999999999999998765321     2334431                            111111111111


Q ss_pred             HHH--HHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEE
Q psy210          759 VAL--TGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAI  836 (915)
Q Consensus       759 ~~~--~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v  836 (915)
                      .-+  -...+-+.......++++++|++..+..|.+-        .   | .-++...|...++|      |.|..|++.
T Consensus        97 G~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~--------~---g-~~d~~~~Lkp~L~r------g~l~~Igat  158 (195)
T d1jbka_          97 GEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKA--------D---G-AMDAGNMLKPALAR------GELHCVGAT  158 (195)
T ss_dssp             HHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------------------CCCCHHHHHHHHHT------TSCCEEEEE
T ss_pred             HHHHHHHHHHHHHHhcCCCcEEEEcchHHHHhcCCCC--------C---C-cccHHHHHHHHHhC------CCceEEecC
Confidence            111  11222334445567899999999976544321        1   1 11345556666664      889999887


Q ss_pred             Eec
Q psy210          837 YVP  839 (915)
Q Consensus       837 ~~~  839 (915)
                      +.+
T Consensus       159 T~e  161 (195)
T d1jbka_         159 TLD  161 (195)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            665

>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=94.85  E-value=0.0036  Score=61.67  Aligned_cols=45  Identities=22%  Similarity=0.208  Sum_probs=40.6

Q ss_pred             Cccccccceeeecccc--ccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          238 NEPLLTGIKSIDSMIP--IGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       238 ~~~l~TGi~aiD~l~p--igrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      ...+.||+.-+|-++.  +.+|+=..|.|++|+|||+++++.+++..
T Consensus        13 ~~~i~TG~~~LD~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          13 VWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             CCEECCSCHHHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             CceecCCCHHHHHhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            4578999999999998  88899999999999999999999988753

>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=94.39  E-value=0.02  Score=56.33  Aligned_cols=97  Identities=15%  Similarity=0.124  Sum_probs=69.2

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA  760 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~  760 (915)
                      ||.-+-|.|.||+|||||+..+.+...+.. ...++.+-|.   ++++   .+.            ...+-+...|...+
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~~l~~~~-~~~~~~ldgD---~iR~---~l~------------~~l~ys~~~r~~~~   83 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEHQLVRDR-RVHAYRLDGD---NIRF---GLN------------KDLGFSEADRNENI   83 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHHHHH-CCCEEEECHH---HHTT---TTT------------TTCCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhc-CceEEEEcch---HHHH---hhc------------CCCCCChhHHHHHH
Confidence            566789999999999999999998664321 2345554443   2221   110            01245778888899


Q ss_pred             HHHHHHHHHHHHCCCcEEEEecchhhHHHhh-hhhhh
Q psy210          761 LTGLSIAEEFRNSGKDVLLFIDNIYRFTLAG-TEVSA  796 (915)
Q Consensus       761 ~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~-reis~  796 (915)
                      .....+|.++.++|..|++-..+..+..+.. |++..
T Consensus        84 ~r~~~~a~~~~~~g~~viv~~i~~~~~~R~~~r~i~~  120 (208)
T d1m7ga_          84 RRIAEVAKLFADSNSIAITSFISPYRKDRDTARQLHE  120 (208)
T ss_dssp             HHHHHHHHHHHHTTCEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCceeeecccccHHHHHHHHHHhh
Confidence            9999999999999999999999988766654 45443

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {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: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=94.30  E-value=0.13  Score=50.59  Aligned_cols=90  Identities=19%  Similarity=0.156  Sum_probs=48.9

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVALTGL  764 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~  764 (915)
                      +.++|++|+||||.+.-+|+...+++..|.++..=--|.--+ |=++.+.+  .+.=.+.++.+..++..    +   .-
T Consensus        12 i~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~Dt~R~gA~-eQL~~~a~--~l~v~~~~~~~~~d~~~----~---l~   81 (211)
T d2qy9a2          12 ILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAV-EQLQVWGQ--RNNIPVIAQHTGADSAS----V---IF   81 (211)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCEEEECCCTTCHHHH-HHHHHHHH--HTTCCEECCSTTCCHHH----H---HH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEecccccccch-hhhhhhhh--hcCCcccccccCCCHHH----H---HH
Confidence            567899999999999999988776554554444333344333 33333322  12222333333333221    1   22


Q ss_pred             HHHHHHHHCCCcEEEEecchh
Q psy210          765 SIAEEFRNSGKDVLLFIDNIY  785 (915)
Q Consensus       765 ~~Ae~f~~~g~~Vl~~~Ds~t  785 (915)
                      ...++.+.+++|+++| |.--
T Consensus        82 ~~~~~a~~~~~d~ilI-DTaG  101 (211)
T d2qy9a2          82 DAIQAAKARNIDVLIA-DTAG  101 (211)
T ss_dssp             HHHHHHHHTTCSEEEE-CCCC
T ss_pred             HHHHHHHHcCCCEEEe-ccCC
Confidence            2334555678887765 6543

>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=94.28  E-value=0.19  Score=49.16  Aligned_cols=93  Identities=23%  Similarity=0.277  Sum_probs=51.6

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecC-CCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGE-RSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLR  758 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGe-r~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~  758 (915)
                      ++++-+.++|++|+||||.+.-+|++.......+ .++.++- |.--+. -++.+-+  .+.=.+..+.+..++..    
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV-~lit~Dt~R~gA~e-QL~~~a~--~l~i~~~~~~~~~d~~~----   75 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKV-MFCAGDTFRAAGGT-QLSEWGK--RLSIPVIQGPEGTDPAA----   75 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCE-EEECCCCSSTTHHH-HHHHHHH--HHTCCEECCCTTCCHHH----
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcE-EEEEeccccccchh-hHhhccc--ccCceEEeccCCccHHH----
Confidence            3677789999999999999999998876544444 4555553 444433 3333322  12122232333333221    


Q ss_pred             HHHHHHHHHHHHHHCCCcEEEEecch
Q psy210          759 VALTGLSIAEEFRNSGKDVLLFIDNI  784 (915)
Q Consensus       759 ~~~~a~~~Ae~f~~~g~~Vl~~~Ds~  784 (915)
                         .+.....+.+.+++|++++ |.-
T Consensus        76 ---~~~~~~~~~~~~~~d~ilI-DTa   97 (207)
T d1okkd2          76 ---LAYDAVQAMKARGYDLLFV-DTA   97 (207)
T ss_dssp             ---HHHHHHHHHHHHTCSEEEE-CCC
T ss_pred             ---HHHHHHHHHHHCCCCEEEc-Ccc
Confidence               1222233445567887765 643

>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=94.21  E-value=0.015  Score=54.18  Aligned_cols=30  Identities=23%  Similarity=0.208  Sum_probs=24.7

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHhcCCcE
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAIEHKGC  713 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~  713 (915)
                      -+.|.|++|+|||||+..++..+..+...+
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~~~~~v   32 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKSSGVPV   32 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHTTCCC
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHCCCEE
Confidence            478999999999999999999887644333

>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=94.05  E-value=0.088  Score=55.28  Aligned_cols=39  Identities=18%  Similarity=0.168  Sum_probs=31.9

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      .|+.-|+||.|+||+|||||+..+++........+.|++
T Consensus        51 ~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavla   89 (327)
T d2p67a1          51 CGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIA   89 (327)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeeec
Confidence            578999999999999999999999998765433455554

>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=93.86  E-value=0.016  Score=54.31  Aligned_cols=25  Identities=32%  Similarity=0.506  Sum_probs=22.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHh
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      |++|.|++|+|||||+..|+..+..
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            7899999999999999999987654

>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=93.63  E-value=0.018  Score=58.17  Aligned_cols=36  Identities=19%  Similarity=0.302  Sum_probs=30.6

Q ss_pred             ceeee-cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          670 IKVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       670 ir~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      ..++| .=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        16 ~~al~~vsl~i~~Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          16 VTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEcceeeEEcCCCEEEEECCCCChHHHHHHHHhcC
Confidence            45665 4488999999999999999999999988753

>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=92.81  E-value=0.023  Score=56.91  Aligned_cols=35  Identities=20%  Similarity=0.240  Sum_probs=29.4

Q ss_pred             eee-ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          671 KVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       671 r~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .++ |.=+.+-+|+.++|.||+|+|||||+.+|+.-
T Consensus        14 ~~l~~isl~i~~Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          14 VVSKDINLDIHEGEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEeeeEEEEcCCCEEEEECCCCChHHHHHHHHhcC
Confidence            444 45578999999999999999999999988653

>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=92.74  E-value=0.021  Score=58.04  Aligned_cols=31  Identities=26%  Similarity=0.292  Sum_probs=27.6

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |.=+.|-+|+.++|+|++|+|||||+..|..
T Consensus        32 ~isl~i~~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          32 GLTFTLRPGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             ceEEEEcCCCEEEEECCCCCcHHHHHHHHhc
Confidence            4457899999999999999999999988775

>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=92.64  E-value=0.041  Score=50.64  Aligned_cols=25  Identities=24%  Similarity=0.385  Sum_probs=22.5

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhc
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIE  709 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~  709 (915)
                      ++|.|.+|+|||||+..++++....
T Consensus         5 i~itG~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHC
Confidence            6899999999999999999987654

>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=92.63  E-value=0.12  Score=55.53  Aligned_cols=110  Identities=25%  Similarity=0.289  Sum_probs=52.8

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcC-C----cEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCC-ChHhHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEH-K----GCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNE-PSGNRLR  758 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~-~----~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~-~~~~r~~  758 (915)
                      ..++|+||||||.|+..+++.+...+ +    +..||.+=..                     -+++.++.. .-.+|+ 
T Consensus        46 ~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~---------------------~l~ag~~~~g~~e~r~-  103 (387)
T d1qvra2          46 PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMG---------------------SLLAGAKYRGEFEERL-  103 (387)
T ss_dssp             CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC--------------------------------CHHHHH-
T ss_pred             CeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHh---------------------hhhcccCcchhHHHHH-
Confidence            78899999999999999998776532 1    2334432111                     112222211 111222 


Q ss_pred             HHHHHHHHHHHHHHCCCcEEEEecchhhHHHhhhhhhhhcCCCCCCCCCcchhhHHHHHHHHHhcCCCCCceeEEEEEEe
Q psy210          759 VALTGLSIAEEFRNSGKDVLLFIDNIYRFTLAGTEVSAMLGRTPSAVGYQPTLAEEMGKLQERISSTKNGTITSVQAIYV  838 (915)
Q Consensus       759 ~~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a~A~reis~~~ge~p~~~gyp~~l~~~l~~l~ERag~~~~GSiT~i~~v~~  838 (915)
                           ..+-+.......+++|++|++..+..|..--           | -.+++..|...+.|      |.|..|++.+.
T Consensus       104 -----~~i~~~~~~~~~~~ilfide~h~l~~~g~~~-----------g-~~d~a~~Lkp~L~r------g~~~~I~~tT~  160 (387)
T d1qvra2         104 -----KAVIQEVVQSQGEVILFIDELHTVVGAGKAE-----------G-AVDAGNMLKPALAR------GELRLIGATTL  160 (387)
T ss_dssp             -----HHHHHHHHTTCSSEEEEECCC-------------------------------HHHHHT------TCCCEEEEECH
T ss_pred             -----HHHHHHhccCCCceEEEeccHHHHhcCCCCC-----------C-cccHHHHHHHHHhC------CCcceeeecCH
Confidence                 2233444455568999999999765544211           1 02334445555554      88899888776


Q ss_pred             c
Q psy210          839 P  839 (915)
Q Consensus       839 ~  839 (915)
                      +
T Consensus       161 ~  161 (387)
T d1qvra2         161 D  161 (387)
T ss_dssp             H
T ss_pred             H
Confidence            5

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {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: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=92.59  E-value=0.029  Score=52.37  Aligned_cols=33  Identities=18%  Similarity=0.065  Sum_probs=26.3

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      ++|.|.+|+|||||+..+++.+....-.+.++.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~~~g~~v~vik   36 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAVREGWRVGTVK   36 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            479999999999999999998876433455553

>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=92.58  E-value=0.023  Score=56.98  Aligned_cols=34  Identities=15%  Similarity=0.227  Sum_probs=28.0

Q ss_pred             eeee-cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          671 KVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       671 r~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +++| .=+.+-+|+.++|+|++|+|||||+.+|+.
T Consensus        19 ~al~~isl~i~~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          19 YALKNVNLNIKEGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEeceEEEEcCCCEEEEECCCCCCcchhhHhccC
Confidence            4444 346889999999999999999999987664

>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=92.58  E-value=0.082  Score=51.98  Aligned_cols=24  Identities=25%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -+++.||||||||+++.-+++.+.
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~~   60 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASELQ   60 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHHT
T ss_pred             eEEEECCCCCcHHHHHHHHHhccC
Confidence            489999999999999998887653

>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=92.44  E-value=0.12  Score=52.71  Aligned_cols=53  Identities=21%  Similarity=0.154  Sum_probs=34.5

Q ss_pred             eeeecccccc--cCCeeeeccCCCCChhhHHHHHHHHH---HhcCCcEEEEEEecCCC
Q psy210          671 KVIDLLCPFL--KGGKIGLFGGAGVGKTVNMMELIRNI---AIEHKGCSVFIGVGERS  723 (915)
Q Consensus       671 r~ID~l~pig--kGQr~~I~~~~g~GKt~Ll~~i~~~~---~~~~~~~~v~~~iGer~  723 (915)
                      ++++.|....  ...-++|.|..|+|||||+..+.+..   ...+.+.++++-+....
T Consensus        31 ~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~   88 (277)
T d2a5yb3          31 RVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTA   88 (277)
T ss_dssp             HHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCS
T ss_pred             HHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCC
Confidence            3445544322  23457899999999999999988752   22345677777554433

>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=92.41  E-value=0.026  Score=58.23  Aligned_cols=32  Identities=25%  Similarity=0.424  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+.++|+|++|+|||||+..|+.-
T Consensus        54 ~isl~i~~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          54 NINLNIEKGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEEEEECTTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CeEEEEcCCCEEEEECCCCChHHHHHHHHhCC
Confidence            45578999999999999999999999988763

>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=92.38  E-value=0.029  Score=56.49  Aligned_cols=37  Identities=22%  Similarity=0.330  Sum_probs=30.4

Q ss_pred             cceeee-cccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          669 GIKVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       669 Gir~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +..++| .=+.+-+|+.++|+|++|+|||||+.+|+.-
T Consensus        18 ~~~al~~vsl~v~~Ge~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          18 NFTAVNKLNLTIKDGEFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             TEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CEEEEcceeEEECCCCEEEEECCCCChHHHHHHHHHcC
Confidence            345554 4478999999999999999999999988753

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {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 sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=92.38  E-value=0.41  Score=46.59  Aligned_cols=48  Identities=15%  Similarity=0.135  Sum_probs=32.9

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHh
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM  733 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~  733 (915)
                      +.++|++|+||||.+.-+|.+..+++..+ .++.++--.--..|-++.+
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~~~g~kV-~lit~Dt~R~gA~eQL~~~   60 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYKGKGRRP-LLVAADTQRPAAREQLRLL   60 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHHHTTCCE-EEEECCSSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCcE-EEEecccccchHHHHHHHH
Confidence            46789999999999999999887654443 4555664444444444444

>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=92.38  E-value=0.023  Score=55.64  Aligned_cols=32  Identities=22%  Similarity=0.418  Sum_probs=27.8

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .=+.+-+|+.++|.|+.|+|||||+..|+...
T Consensus        20 is~~i~~Gei~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          20 ITMTIEKGNVVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEEEETTCCEEEECCTTSSHHHHHHHHTTSS
T ss_pred             eEEEEcCCCEEEEECCCCChHHHHHHHHhccc
Confidence            34678999999999999999999999887643

>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=92.30  E-value=0.21  Score=45.38  Aligned_cols=22  Identities=32%  Similarity=0.437  Sum_probs=19.6

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.|.|+||+||||++..+++..
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998764

>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=92.17  E-value=0.026  Score=56.88  Aligned_cols=32  Identities=25%  Similarity=0.389  Sum_probs=28.0

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.|-+|++++|+|++|+|||||+..|..-
T Consensus        21 ~isl~i~~Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          21 NINLSIKQGEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHhc
Confidence            44567999999999999999999999888764

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {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: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=92.02  E-value=0.56  Score=45.80  Aligned_cols=52  Identities=19%  Similarity=0.096  Sum_probs=33.6

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEM  733 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~  733 (915)
                      +-.-+.++||+|+||||.+.-+|.+..+++.. +.++.++--.--..|-++.+
T Consensus        10 ~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~k-V~lit~Dt~R~gA~eQL~~~   61 (213)
T d1vmaa2          10 PPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKS-VVLAAADTFRAAAIEQLKIW   61 (213)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHTTCC-EEEEEECTTCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCc-eEEEeecccccchhHHHHHH
Confidence            33457889999999999999999887655444 44445553333333334443

>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=91.94  E-value=0.03  Score=52.03  Aligned_cols=24  Identities=25%  Similarity=0.469  Sum_probs=21.5

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .++.|+|++|+|||||+..++...
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            478999999999999999998764

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

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: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=91.87  E-value=0.077  Score=55.61  Aligned_cols=38  Identities=21%  Similarity=0.308  Sum_probs=31.1

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      ++.-++||.|+||+|||||+..+++...+....+-|++
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaVia   86 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLA   86 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHHHHhhcCCceeeee
Confidence            57889999999999999999999987665444565655

>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=91.77  E-value=0.029  Score=56.57  Aligned_cols=32  Identities=25%  Similarity=0.217  Sum_probs=27.8

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|++++|+|++|+|||||+..++.-
T Consensus        20 ~isl~i~~Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          20 DISFEAQPNSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EEEEEECTTEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             eeEEEEcCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            34467999999999999999999999888763

>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=91.77  E-value=0.03  Score=56.35  Aligned_cols=34  Identities=18%  Similarity=0.306  Sum_probs=28.5

Q ss_pred             eeee-cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          671 KVID-LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       671 r~ID-~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +|+| .=+.+-+|+.++|+|++|+|||||+.+|+-
T Consensus        19 ~al~~vsl~i~~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          19 QALNNVSLHVPAGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             EEEEEEEEEECSSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             EEeeceeEEEcCCCEEEEECCCCCCHHHHHHHHcC
Confidence            4443 446899999999999999999999988764

>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=91.76  E-value=0.13  Score=51.43  Aligned_cols=34  Identities=26%  Similarity=0.339  Sum_probs=28.7

Q ss_pred             eeecccccccCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          672 VIDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       672 ~ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +|+++.|   |+=..|+|++|+|||+|+.+++.+++.
T Consensus        22 li~G~~p---g~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          22 VLPNMVA---GTVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             EETTEET---TSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             HhCCccC---CcEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            4566654   679999999999999999999998764

>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=91.63  E-value=0.061  Score=49.63  Aligned_cols=30  Identities=23%  Similarity=0.125  Sum_probs=26.1

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcC
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEH  710 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~  710 (915)
                      +|.-+.|.|.||+||||++..+++.+...+
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~   34 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQG   34 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            578889999999999999999999876543

>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=91.59  E-value=0.032  Score=56.66  Aligned_cols=30  Identities=23%  Similarity=0.358  Sum_probs=26.3

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .=+.|-+|++++|+|++|+|||||+..|+.
T Consensus        34 isl~i~~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          34 INLKIPAGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             EEEEECTTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             eEEEEcCCCEEEEECCCCChHHHHHHHHhc
Confidence            335788999999999999999999987765

>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=91.53  E-value=0.024  Score=57.18  Aligned_cols=35  Identities=23%  Similarity=0.440  Sum_probs=29.9

Q ss_pred             ceee-ecccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          670 IKVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       670 ir~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +.++ |.=+.+-+|+.++|+|++|+|||||+.+|+.
T Consensus        18 ~~aL~~vsl~i~~Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          18 VVALDNVNINIENGERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             EEEEEEEEEEECTTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             EEEEeceEEEECCCCEEEEECCCCCcHHHHHHHHHc
Confidence            4555 4457899999999999999999999998875

>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=91.50  E-value=0.035  Score=56.49  Aligned_cols=36  Identities=22%  Similarity=0.308  Sum_probs=30.1

Q ss_pred             cceeeecc-cccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          669 GIKVIDLL-CPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       669 Gir~ID~l-~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +..++|.+ +.+-+|+.++|+|++|+|||||+..|+-
T Consensus        14 ~~~al~~vs~~i~~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          14 GHEVLKGVSLQARAGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TEEEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CEEEEcceeeEEcCCCEEEEECCCCCcHHHHHHHHHc
Confidence            34565544 7899999999999999999999988764

>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=91.46  E-value=0.03  Score=55.94  Aligned_cols=32  Identities=22%  Similarity=0.260  Sum_probs=28.2

Q ss_pred             ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          674 DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       674 D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.=+.+-+|+-++|+||+|+|||||+.+|+--
T Consensus        18 ~vs~~i~~Ge~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          18 NLSLKVESGEYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEEECTTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             eeEEEECCCCEEEEECCCCCcHHHHHHHHhcC
Confidence            34578999999999999999999999988753

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {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: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.27  E-value=0.14  Score=48.81  Aligned_cols=33  Identities=24%  Similarity=0.162  Sum_probs=26.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      +.++|.||+|||||+..|++.....+.++.++-
T Consensus         5 i~l~GlpgsGKSTla~~L~~~l~~~~~~~~~~~   37 (213)
T d1bifa1           5 IVMVGLPARGKTYISKKLTRYLNFIGVPTREFN   37 (213)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCCeEEc
Confidence            568899999999999999998776555665654

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

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 sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=90.93  E-value=0.44  Score=46.57  Aligned_cols=47  Identities=17%  Similarity=0.116  Sum_probs=27.2

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHE  732 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~  732 (915)
                      +.++||+|+||||.+.-+|.+...+... +.++.++--.--..|-++.
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~~~g~k-V~lit~Dt~R~ga~eQL~~   61 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYKKKGFK-VGLVGADVYRPAALEQLQQ   61 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHHHTTCC-EEEEECCCSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCc-eEEEEeeccccchhHHHHH
Confidence            6778999999999999999887655434 4455555433333333333

>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=90.51  E-value=0.19  Score=50.27  Aligned_cols=53  Identities=13%  Similarity=0.213  Sum_probs=35.2

Q ss_pred             eeeccccccccceeeeecCCCCChhHHHHHHHHhhc----------CCCeEEEEEeeccchhhHHH
Q psy210          247 SIDSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK----------NKNVICIYVCIGQKISSLIN  302 (915)
Q Consensus       247 aiD~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~----------~~~~~~V~~~iGer~~ev~~  302 (915)
                      .++.+.|   |+-..|+|++|+|||++++++..+..          .....++|........++.+
T Consensus        22 li~G~~p---g~~~~i~G~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~~~~~~~   84 (274)
T d1nlfa_          22 VLPNMVA---GTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDPPTAIHH   84 (274)
T ss_dssp             EETTEET---TSEEEEEESTTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSCHHHHHH
T ss_pred             HhCCccC---CcEEEEEeCCCCCHHHHHHHHHHHHHcCCCcccccccCCCceEEEeccchHHHHHH
Confidence            5666655   67889999999999999988755421          12234566666555554444

>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=90.48  E-value=0.059  Score=49.57  Aligned_cols=23  Identities=43%  Similarity=0.407  Sum_probs=20.8

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++.|.|+||+||||++..++...
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998765

>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=90.46  E-value=0.57  Score=45.73  Aligned_cols=28  Identities=29%  Similarity=0.329  Sum_probs=24.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      ...-+.|.|++|||||+++..+++++..
T Consensus        42 ~~~~lll~GppGtGKT~l~~~l~~~l~~   69 (276)
T d1fnna2          42 HYPRATLLGRPGTGKTVTLRKLWELYKD   69 (276)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHHTT
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHhc
Confidence            3467999999999999999999988754

>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=90.44  E-value=0.032  Score=56.68  Aligned_cols=30  Identities=23%  Similarity=0.334  Sum_probs=26.5

Q ss_pred             cccccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          675 LLCPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       675 ~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      .=+.|-+|++++|+|++|+|||||+..|..
T Consensus        37 isl~i~~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          37 INLSIEKGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECTTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             eEEEEcCCCEEEEECCCCCcHHHHHHHHHh
Confidence            346799999999999999999999987765

>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=90.41  E-value=0.037  Score=54.92  Aligned_cols=27  Identities=15%  Similarity=0.102  Sum_probs=23.4

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      .++-+.|.|++|+|||+|+..+++...
T Consensus        28 ~~~~i~i~G~~G~GKTsLl~~~~~~~~   54 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSIIKIGINELN   54 (283)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHT
T ss_pred             cCCEEEEEcCCCCcHHHHHHHHHHHCC
Confidence            467889999999999999999887653

>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=90.29  E-value=0.39  Score=44.47  Aligned_cols=22  Identities=27%  Similarity=0.555  Sum_probs=19.8

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.++|++|||||+|+..++.+
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHhcC
Confidence            6889999999999999988764

>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=90.28  E-value=0.062  Score=50.68  Aligned_cols=84  Identities=18%  Similarity=0.194  Sum_probs=48.9

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHHhcCCcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRVA  760 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~~  760 (915)
                      ||.-+.+.|.||+|||||+..+++.......+...+.  +   .+...   .+..            ..+.....+....
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~--~---d~~~~---~~~~------------~~~~~~~~~~~~~   77 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD--G---DNIRQ---GLNK------------NLGFSPEDREENV   77 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC--H---HHHTT---TTTT------------TCCSSHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh--H---Hhhhc---cccc------------ccchhhhHHHHHH
Confidence            6778889999999999999999998765433333221  1   11111   0100            1122333344444


Q ss_pred             HHHHHHHHHHHHCCCcEEEEecch
Q psy210          761 LTGLSIAEEFRNSGKDVLLFIDNI  784 (915)
Q Consensus       761 ~~a~~~Ae~f~~~g~~Vl~~~Ds~  784 (915)
                      ......++.+.+++..+.......
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~  101 (195)
T d1x6va3          78 RRIAEVAKLFADAGLVCITSFISP  101 (195)
T ss_dssp             HHHHHHHHHHHHTTCEEEEECCCC
T ss_pred             HHHHHHHHHHHhcCCccccccccc
Confidence            455566777777777776665543

>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=89.93  E-value=0.32  Score=47.55  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=20.2

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -+++.||||||||+++.-+++..
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999888765

>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=89.90  E-value=0.1  Score=51.23  Aligned_cols=27  Identities=30%  Similarity=0.438  Sum_probs=22.8

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      -+++.||+|||||++ ...+++..+.+.
T Consensus        37 ~~L~~GPpGtGKT~l-A~~la~~~~~~~   63 (238)
T d1in4a2          37 HVLLAGPPGLGKTTL-AHIIASELQTNI   63 (238)
T ss_dssp             CEEEESSTTSSHHHH-HHHHHHHHTCCE
T ss_pred             eEEEECCCCCcHHHH-HHHHHhccCCCc
Confidence            489999999999999 478888777665

>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=89.89  E-value=0.059  Score=54.13  Aligned_cols=37  Identities=24%  Similarity=0.325  Sum_probs=30.0

Q ss_pred             cceeeec-ccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          669 GIKVIDL-LCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       669 Gir~ID~-l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +..++|. =+.+-+|+-++|+||+|+|||||+..|+--
T Consensus        18 ~~~al~~vs~~i~~Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          18 AIHAIKGIDLKVPRGQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TEEEEEEEEEEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CEEEEeeeeEEECCCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3455543 478999999999999999999999887653

>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=89.77  E-value=0.067  Score=53.36  Aligned_cols=28  Identities=21%  Similarity=0.328  Sum_probs=25.4

Q ss_pred             cccccCCeeeeccCCCCChhhHHHHHHH
Q psy210          677 CPFLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       677 ~pigkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +.|-+|+-++|+|++|+|||||+..|+.
T Consensus        20 l~I~~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          20 GEVRAGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             EEEETTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             EEEcCCCEEEEECCCCCcHHHHHHHHhC
Confidence            3788999999999999999999988775

>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=89.75  E-value=0.1  Score=48.27  Aligned_cols=31  Identities=23%  Similarity=0.269  Sum_probs=24.6

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEE
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSV  715 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v  715 (915)
                      +.|.|++|+||||++..++......+..+.+
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~~~~~~~~~   34 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLRKEGVNYKM   34 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHTTTCCCEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCeEE
Confidence            5789999999999999999987654434333

>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=89.73  E-value=0.46  Score=43.99  Aligned_cols=22  Identities=27%  Similarity=0.567  Sum_probs=18.4

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+.++|++|||||+| +..+.+.
T Consensus         5 KivvvG~~~vGKTsl-i~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCL-LLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHH-HHHHHHS
T ss_pred             EEEEECCCCcCHHHH-HHHHhcC
Confidence            688999999999999 6666654

>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=89.61  E-value=0.088  Score=52.80  Aligned_cols=37  Identities=19%  Similarity=0.413  Sum_probs=30.1

Q ss_pred             ceeeec-cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          245 IKSIDS-MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       245 i~aiD~-l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      ..|+|. =+.+-+|+.++|+|++|+||||| +.+|+..-
T Consensus        16 ~~al~~vsl~i~~Ge~~~liG~sGaGKSTl-l~~i~gl~   53 (240)
T d1g2912          16 VTAVREMSLEVKDGEFMILLGPSGCGKTTT-LRMIAGLE   53 (240)
T ss_dssp             EEEEEEEEEEEETTCEEEEECSTTSSHHHH-HHHHHTSS
T ss_pred             EEEEcceeeEEcCCCEEEEECCCCChHHHH-HHHHhcCC
Confidence            345553 37788899999999999999999 78887753

>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=89.49  E-value=0.48  Score=46.60  Aligned_cols=92  Identities=10%  Similarity=0.109  Sum_probs=48.5

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhc----C-CcEEEEEEecCCCchHHHHHHHhhhcCccccEEEEEEcCCCChHhHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIE----H-KGCSVFIGVGERSREGNDFYHEMKESNVLDKVSLIYGQMNEPSGNRLRV  759 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~----~-~~~~v~~~iGer~~ev~e~~~~~~~~~~~~~~~vv~~t~d~~~~~r~~~  759 (915)
                      +.+.||||||||+++..+++.+...    . ....++.-+-........+.....+.+..      ......+.      
T Consensus        49 l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~------  116 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYP------IQVRGAPA------  116 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCC------CCCTTCCH------
T ss_pred             EEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhcccc------cccccchH------
Confidence            4567999999999999999875431    1 12344444444433333333333222211      01111111      


Q ss_pred             HHHHHHHHHHHHHCCCcEEEEecchhhHH
Q psy210          760 ALTGLSIAEEFRNSGKDVLLFIDNIYRFT  788 (915)
Q Consensus       760 ~~~a~~~Ae~f~~~g~~Vl~~~Ds~tr~a  788 (915)
                      ....-.+-+...+++..+++++|.+..+.
T Consensus       117 ~~~~~~l~~~~~~~~~~~~~iide~d~l~  145 (287)
T d1w5sa2         117 LDILKALVDNLYVENHYLLVILDEFQSML  145 (287)
T ss_dssp             HHHHHHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             HHHHHHHHHHHHhccCccccceeEEEEec
Confidence            11122233455567888888888777543

>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=89.42  E-value=0.091  Score=48.45  Aligned_cols=26  Identities=31%  Similarity=0.363  Sum_probs=22.7

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ||=++.|+|+||+||||++..++...
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            56689999999999999999888764

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, 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: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=89.14  E-value=0.21  Score=50.70  Aligned_cols=27  Identities=33%  Similarity=0.302  Sum_probs=23.8

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHHHh
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      -+.+.++|+||+|||+|+..+++.+..
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~ri~~   65 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAWRIVQ   65 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHHHHHh
Confidence            356899999999999999999998765

>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=89.05  E-value=0.13  Score=48.19  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=21.6

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHh
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      +||-|++|+|||||+..+......
T Consensus        25 IgI~G~~GSGKSTla~~L~~~l~~   48 (198)
T d1rz3a_          25 LGIDGLSRSGKTTLANQLSQTLRE   48 (198)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcc
Confidence            789999999999999999887664

>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=88.86  E-value=0.16  Score=50.89  Aligned_cols=23  Identities=22%  Similarity=0.183  Sum_probs=20.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+++.||||||||+|+..+|+.+
T Consensus        42 ~vLL~GppGtGKT~la~alA~~~   64 (246)
T d1d2na_          42 SVLLEGPPHSGKTALAAKIAEES   64 (246)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHhhcc
Confidence            48999999999999999998765

>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=88.78  E-value=0.1  Score=49.46  Aligned_cols=26  Identities=35%  Similarity=0.530  Sum_probs=23.5

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ||=|+.|+||||+||||++..++...
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHHHh
Confidence            67799999999999999999998765

>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=88.61  E-value=0.1  Score=50.76  Aligned_cols=30  Identities=33%  Similarity=0.391  Sum_probs=26.8

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+.++|.|+.|+||||| +.+|+..-
T Consensus        22 ~~i~~Gei~~l~G~NGsGKSTL-l~~i~gl~   51 (200)
T d1sgwa_          22 MTIEKGNVVNFHGPNGIGKTTL-LKTISTYL   51 (200)
T ss_dssp             EEEETTCCEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEcCCCEEEEECCCCChHHHH-HHHHhccc
Confidence            5677899999999999999999 89998853

>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=88.55  E-value=0.091  Score=47.35  Aligned_cols=22  Identities=32%  Similarity=0.412  Sum_probs=19.9

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +-|.|++|+||||+++.++..+
T Consensus         5 I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           5 IFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5688999999999999999876

>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=88.53  E-value=0.13  Score=47.70  Aligned_cols=23  Identities=30%  Similarity=0.614  Sum_probs=19.9

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhc
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |++|.|++|+||||| +..|+..-
T Consensus         2 ki~I~G~~G~GKSTL-l~~i~~~l   24 (178)
T d1ye8a1           2 KIIITGEPGVGKTTL-VKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHH-HHHHHHHH
T ss_pred             EEEEECCCCcHHHHH-HHHHHhcC
Confidence            689999999999999 77777753

>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=88.53  E-value=0.26  Score=46.35  Aligned_cols=22  Identities=23%  Similarity=0.256  Sum_probs=17.9

Q ss_pred             CeeeeccCCCCChhhHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +=+.+.|.||+||||++..++.
T Consensus        15 ~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          15 EVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CEEEEECCTTSSHHHHHHHHTG
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            3467899999999999987654

>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=88.37  E-value=0.092  Score=53.10  Aligned_cols=37  Identities=19%  Similarity=0.223  Sum_probs=30.6

Q ss_pred             cceee-ecccccccCCeeeeccCCCCChhhHHHHHHHH
Q psy210          669 GIKVI-DLLCPFLKGGKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       669 Gir~I-D~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |.+++ |.=+.+.+|+-++|+|++|+|||||+..|+--
T Consensus        16 ~~~aL~~vs~~v~~Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          16 EFKALDGVSISVNKGDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TEEEEEEECCEEETTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CeEEEcceEEEECCCCEEEEECCCCCcHHHHHHHHHCC
Confidence            45555 44568999999999999999999999887754

>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=88.36  E-value=0.11  Score=48.68  Aligned_cols=23  Identities=22%  Similarity=0.397  Sum_probs=20.9

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |+.|+|+||+||||++..++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998865

>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=88.32  E-value=0.1  Score=52.71  Aligned_cols=33  Identities=18%  Similarity=0.333  Sum_probs=27.8

Q ss_pred             eccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          249 DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       249 D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |.=+.+-+|++++|+|++|+||||| +.+|...-
T Consensus        32 ~isl~i~~Ge~vaivG~sGsGKSTL-l~li~gl~   64 (251)
T d1jj7a_          32 GLTFTLRPGEVTALVGPNGSGKSTV-AALLQNLY   64 (251)
T ss_dssp             EEEEEECTTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             ceEEEEcCCCEEEEECCCCCcHHHH-HHHHhccc
Confidence            3346788999999999999999999 78888753

>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=88.30  E-value=0.16  Score=51.03  Aligned_cols=22  Identities=32%  Similarity=0.351  Sum_probs=20.0

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++.||||||||+|+..+++..
T Consensus        45 iLl~GppGtGKT~la~aia~~~   66 (247)
T d1ixza_          45 VLLVGPPGVGKTHLARAVAGEA   66 (247)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEecCCCCChhHHHHHHHHHc
Confidence            7999999999999999999754

>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=88.08  E-value=0.11  Score=51.68  Aligned_cols=32  Identities=22%  Similarity=0.386  Sum_probs=27.6

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .=+.+-+|+.++|+|++|+||||| +.+|+.--
T Consensus        19 isl~i~~Gei~~liGpsGsGKSTL-l~~i~Gl~   50 (232)
T d2awna2          19 INLDIHEGEFVVFVGPSGCGKSTL-LRMIAGLE   50 (232)
T ss_dssp             EEEEECTTCEEEEECCTTSSHHHH-HHHHHTSS
T ss_pred             eEEEEcCCCEEEEECCCCChHHHH-HHHHhcCC
Confidence            446788899999999999999999 88887653

>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=87.81  E-value=0.1  Score=52.23  Aligned_cols=36  Identities=25%  Similarity=0.416  Sum_probs=29.1

Q ss_pred             eeeecc-cccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          671 KVIDLL-CPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       671 r~ID~l-~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++|.+ +.+-+|+-.||+|++|+|||||+..|+--.
T Consensus        16 ~vl~~vs~~v~~Gei~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          16 EILKGISFEIEEGEIFGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEccceeEEcCCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            444443 578899999999999999999998877543

>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=87.78  E-value=0.15  Score=51.01  Aligned_cols=33  Identities=18%  Similarity=0.209  Sum_probs=27.0

Q ss_pred             eecccccccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          673 IDLLCPFLKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       673 ID~l~pigkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +|.=+.++ ++.++|+||+|+|||||+.+|+.-.
T Consensus        16 ~~vs~~~~-~e~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          16 LNVDFEMG-RDYCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEEEEC-SSEEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEEeC-CEEEEEECCCCChHHHHHHHHHcCC
Confidence            46666776 4799999999999999999887643

>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=87.62  E-value=0.12  Score=49.19  Aligned_cols=26  Identities=27%  Similarity=0.560  Sum_probs=22.5

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |.+.+.|+||||+||||++..++...
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45678999999999999999998764

>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=87.57  E-value=0.32  Score=48.50  Aligned_cols=27  Identities=26%  Similarity=0.372  Sum_probs=22.4

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      .+++.|++|||||++ ...|+++.+..+
T Consensus        42 ~vLL~GppGtGKT~l-a~alA~~~~~~~   68 (246)
T d1d2na_          42 SVLLEGPPHSGKTAL-AAKIAEESNFPF   68 (246)
T ss_dssp             EEEEECSTTSSHHHH-HHHHHHHHTCSE
T ss_pred             EEEEECcCCCCHHHH-HHHHhhcccccc
Confidence            388999999999999 577888766654

>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=87.55  E-value=0.11  Score=51.99  Aligned_cols=31  Identities=26%  Similarity=0.337  Sum_probs=26.9

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|++++|+|++|+||||| +.+|...-
T Consensus        23 sl~i~~Ge~vaIvG~sGsGKSTL-l~ll~gl~   53 (241)
T d2pmka1          23 NLSIKQGEVIGIVGRSGSGKSTL-TKLIQRFY   53 (241)
T ss_dssp             EEEEETTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEEcCCCEEEEECCCCCCHHHH-HHHHHhcC
Confidence            35688899999999999999999 78888753

>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=87.45  E-value=0.56  Score=43.89  Aligned_cols=118  Identities=14%  Similarity=0.075  Sum_probs=53.6

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhhhhhhhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYISPYTGC  338 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~~~~~a~  338 (915)
                      =+.+.|.+|+||||+| ..+....+... +-.--++.+.+....+.+.|. .|   +.|++-++ +.....|.       
T Consensus        16 liil~G~pGsGKST~a-~~l~~~~~~~~-i~~D~~~~~~~~~~~~~~~l~-~g---~~vIiD~t-~~~~~~R~-------   81 (172)
T d1yj5a2          16 VVVAVGFPGAGKSTFI-QEHLVSAGYVH-VNRDTLGSWQRCVSSCQAALR-QG---KRVVIDNT-NPDVPSRA-------   81 (172)
T ss_dssp             EEEEECCTTSSHHHHH-HHHTGGGTCEE-EEHHHHCSHHHHHHHHHHHHH-TT---CCEEEESC-CCSHHHHH-------
T ss_pred             EEEEECCCCCCHHHHH-HHHHHhcCCEE-EchHHHHHHHHHHHHHHHHHH-CC---CCceeeCc-CCCHHHHH-------
Confidence            3568899999999995 44444322111 111122333333333333343 33   45555544 34444441       


Q ss_pred             hhHHHHHhcCCcEEEEeccchhHHHHHHHHHhhcCCCCCCCcCCCchhhhhhh
Q psy210          339 TIGEYFRDLGQDCLIIYDDLTKHAWAYRQISLLLRRPPGREAFPGDVFYLHSR  391 (915)
Q Consensus       339 tiAEy~r~~g~~Vlv~~Ddltr~a~A~reis~~~~~~p~~~gyp~~~~~~~~~  391 (915)
                      ...+.+++.|..|.+++=+... -.+.+-........+.....|..++..+.+
T Consensus        82 ~~~~~a~~~~~~~~~v~l~~~~-e~~~~Rn~~R~~~~~~~~~v~~~~~~~~~~  133 (172)
T d1yj5a2          82 RYIQCAKDAGVPCRCFNFCATI-EQARHNNRFREMTDPSHAPVSDMVMFSYRK  133 (172)
T ss_dssp             HHHHHHHHHTCCEEEEEECCCH-HHHHHHHHHHHHHCTTCCCCCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCEEEEEeCCCH-HHHHHHHHHhcccCcccCccHHHHHHHHHH
Confidence            2234455678776655433221 122222222223334444456555544433

>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=87.36  E-value=0.11  Score=52.42  Aligned_cols=29  Identities=28%  Similarity=0.447  Sum_probs=25.6

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|++++|+|++|+||||| +..|...
T Consensus        36 l~i~~Ge~iaivG~sGsGKSTL-l~ll~gl   64 (253)
T d3b60a1          36 LKIPAGKTVALVGRSGSGKSTI-ASLITRF   64 (253)
T ss_dssp             EEECTTCEEEEEECTTSSHHHH-HHHHTTT
T ss_pred             EEEcCCCEEEEECCCCChHHHH-HHHHhcc
Confidence            5688899999999999999999 7777764

>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=87.33  E-value=0.22  Score=49.45  Aligned_cols=36  Identities=22%  Similarity=0.354  Sum_probs=28.7

Q ss_pred             eeeec-cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          246 KSIDS-MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       246 ~aiD~-l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +|+|. =+.+-+|+.++|+|++||||||| +.+|+.--
T Consensus        19 ~al~~isl~i~~Ge~~~iiG~sGsGKSTL-l~~i~gl~   55 (230)
T d1l2ta_          19 YALKNVNLNIKEGEFVSIMGPSGSGKSTM-LNIIGCLD   55 (230)
T ss_dssp             EEEEEEEEEECTTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEeceEEEEcCCCEEEEECCCCCCcchh-hHhccCCC
Confidence            34433 35777899999999999999999 88888753

>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=87.23  E-value=0.13  Score=46.38  Aligned_cols=21  Identities=33%  Similarity=0.397  Sum_probs=17.7

Q ss_pred             eeeccCCCCChhhHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +.|.|+||+|||||+..++..
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            567999999999999887653

>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=87.09  E-value=0.4  Score=42.97  Aligned_cols=21  Identities=38%  Similarity=0.444  Sum_probs=15.9

Q ss_pred             eeeecCCCCChhHHHHHHHHhh
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.|.|++|+||||+| ..+..+
T Consensus         5 Iii~G~pGsGKTTla-~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWA-REFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHH-HHHHHH
T ss_pred             EEEECCCCCCHHHHH-HHHHHh
Confidence            467899999999995 444443

>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=87.04  E-value=0.31  Score=47.37  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=21.8

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHHh
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIAI  708 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~~  708 (915)
                      -+.|.||+|+|||+++..+++.+..
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~l~~   71 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARELFG   71 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHHHHG
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHh
Confidence            4899999999999999999986643

>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=86.98  E-value=0.13  Score=52.67  Aligned_cols=29  Identities=31%  Similarity=0.526  Sum_probs=26.0

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|+.++|+|++|+||||| +.+|...
T Consensus        57 l~i~~Ge~vaivG~nGsGKSTL-l~~i~Gl   85 (281)
T d1r0wa_          57 LNIEKGEMLAITGSTGSGKTSL-LMLILGE   85 (281)
T ss_dssp             EEECTTCEEEEEESTTSSHHHH-HHHHHTS
T ss_pred             EEEcCCCEEEEECCCCChHHHH-HHHHhCC
Confidence            5688899999999999999999 7888864

>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=86.63  E-value=0.14  Score=51.76  Aligned_cols=36  Identities=22%  Similarity=0.339  Sum_probs=29.2

Q ss_pred             eeeecc-ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          246 KSIDSM-IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       246 ~aiD~l-~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .++|.+ +.+-+|+.++|+|++|+||||| +.+|+.-.
T Consensus        16 ~al~~vs~~i~~GEi~~iiG~sGsGKSTL-l~~i~Gl~   52 (258)
T d1b0ua_          16 EVLKGVSLQARAGDVISIIGSSGSGKSTF-LRCINFLE   52 (258)
T ss_dssp             EEEEEEEEEECTTCEEEEECCTTSSHHHH-HHHHTTSS
T ss_pred             EEEcceeeEEcCCCEEEEECCCCCcHHHH-HHHHHcCc
Confidence            444433 7888999999999999999999 78887643

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {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 C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.60  E-value=0.16  Score=49.50  Aligned_cols=23  Identities=26%  Similarity=0.405  Sum_probs=20.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.+.||+|+|||+++..+++.+.
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~   61 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELL   61 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCchhhHHHHHHHHh
Confidence            78999999999999999998664

>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=86.46  E-value=0.14  Score=51.25  Aligned_cols=29  Identities=17%  Similarity=0.140  Sum_probs=26.0

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|++++|+|++|+||||| +..|...
T Consensus        23 l~i~~Ge~vaivG~sGsGKSTL-l~ll~gl   51 (242)
T d1mv5a_          23 FEAQPNSIIAFAGPSGGGKSTI-FSLLERF   51 (242)
T ss_dssp             EEECTTEEEEEECCTTSSHHHH-HHHHTTS
T ss_pred             EEEcCCCEEEEECCCCCCHHHH-HHHHHHh
Confidence            6788999999999999999999 7888764

>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=86.42  E-value=0.16  Score=45.73  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=20.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.|+|++|+|||+|+..++.+
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            6889999999999999988765

>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=86.19  E-value=0.22  Score=48.88  Aligned_cols=30  Identities=37%  Similarity=0.501  Sum_probs=22.6

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      .++.+.|.|++|+|||+| +..++++.....
T Consensus        28 ~~~~i~i~G~~G~GKTsL-l~~~~~~~~~~~   57 (283)
T d2fnaa2          28 RAPITLVLGLRRTGKSSI-IKIGINELNLPY   57 (283)
T ss_dssp             CSSEEEEEESTTSSHHHH-HHHHHHHHTCCE
T ss_pred             cCCEEEEEcCCCCcHHHH-HHHHHHHCCCCe
Confidence            467788999999999999 455666554443

>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=86.15  E-value=0.18  Score=49.67  Aligned_cols=29  Identities=21%  Similarity=0.211  Sum_probs=23.6

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -++..-+.+.||||+|||+++..+++...
T Consensus        49 ~~~~~~lll~GPpG~GKTt~a~~la~~~~   77 (253)
T d1sxja2          49 SGVFRAAMLYGPPGIGKTTAAHLVAQELG   77 (253)
T ss_dssp             TTSCSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHHHHH
Confidence            34445689999999999999999998653

>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=86.14  E-value=0.17  Score=45.48  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=20.3

Q ss_pred             CeeeeccCCCCChhhHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      +|++++|++++|||+|+..+..+
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            58999999999999999887753

>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=86.00  E-value=0.17  Score=47.43  Aligned_cols=23  Identities=26%  Similarity=0.553  Sum_probs=20.9

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |+.|+|+||+||||++..++...
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998765

>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=85.94  E-value=0.18  Score=47.33  Aligned_cols=23  Identities=26%  Similarity=0.419  Sum_probs=21.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |+.|+|+||+||||++..++...
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999999875

>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=85.71  E-value=0.33  Score=42.47  Aligned_cols=26  Identities=31%  Similarity=0.220  Sum_probs=21.3

Q ss_pred             cccCCeeeeccCCCCChhhHHHHHHH
Q psy210          679 FLKGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       679 igkGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      +-+||+..|.+++|+|||..+...+.
T Consensus         4 l~~~~~~il~~~tGsGKT~~~~~~~~   29 (140)
T d1yksa1           4 LKKGMTTVLDFHPGAGKTRRFLPQIL   29 (140)
T ss_dssp             TSTTCEEEECCCTTSSTTTTHHHHHH
T ss_pred             HHcCCcEEEEcCCCCChhHHHHHHHH
Confidence            45799999999999999977754444

>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=85.66  E-value=0.86  Score=45.91  Aligned_cols=40  Identities=15%  Similarity=0.175  Sum_probs=24.7

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhh---c--CCCeEEEEEeeccch
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQ---K--NKNVICIYVCIGQKI  297 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~---~--~~~~~~V~~~iGer~  297 (915)
                      ..-++|.|..|+||||||....-..   .  ..+. ++|+-+....
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~-~~Wv~vs~~~   88 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDS-IVWLKDSGTA   88 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSE-EEEEECCCCS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCce-EEEEEecCCC
Confidence            3457899999999999964443321   1  2233 4576665443

>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=85.42  E-value=0.17  Score=50.60  Aligned_cols=31  Identities=26%  Similarity=0.332  Sum_probs=26.6

Q ss_pred             cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          251 MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       251 l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      =+.+-+|+.++|+|++|+||||| +.+|.--.
T Consensus        25 sl~i~~Ge~~~iiG~sGsGKSTL-l~~i~Gl~   55 (240)
T d3dhwc1          25 SLHVPAGQIYGVIGASGAGKSTL-IRCVNLLE   55 (240)
T ss_dssp             EEEECSSCEEEEEESTTSSHHHH-HHHHTTSS
T ss_pred             eEEEcCCCEEEEECCCCCCHHHH-HHHHcCCc
Confidence            36778899999999999999999 78887643

>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=85.41  E-value=0.17  Score=50.21  Aligned_cols=23  Identities=26%  Similarity=0.239  Sum_probs=20.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +++.||||||||+|+..++....
T Consensus        35 ilL~GpPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          35 FLLGGQPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhh
Confidence            88999999999999999988654

>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=85.40  E-value=0.4  Score=48.20  Aligned_cols=22  Identities=23%  Similarity=0.359  Sum_probs=20.2

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++.||||||||+|+..+++.+
T Consensus        48 iLL~GppGtGKT~la~~iA~~~   69 (256)
T d1lv7a_          48 VLMVGPPGTGKTLLAKAIAGEA   69 (256)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEeeCCCCCCccHHHHHHHHHc
Confidence            7899999999999999999765

>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=85.34  E-value=0.22  Score=47.57  Aligned_cols=27  Identities=15%  Similarity=0.294  Sum_probs=23.3

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .|.=|+.|+|+||+||||++..++...
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHHH
Confidence            355689999999999999999998764

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {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: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=85.31  E-value=0.32  Score=47.47  Aligned_cols=32  Identities=19%  Similarity=0.229  Sum_probs=25.1

Q ss_pred             eeeccCCCCChhhHHHHHHHHHHhcCCcEEEEE
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIAIEHKGCSVFI  717 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~~  717 (915)
                      +-|.|++|+|||+|++.+++...+... -++|.
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~~~~-~~~~~   70 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKKRGY-RVIYS   70 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTC-CEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHHHhccCcc-ceEEe
Confidence            689999999999999999987765432 34555

>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=85.21  E-value=0.19  Score=47.09  Aligned_cols=23  Identities=22%  Similarity=0.320  Sum_probs=20.8

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |+.|+|+||+||||++..++...
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999999998765

>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=85.18  E-value=0.21  Score=45.68  Aligned_cols=25  Identities=24%  Similarity=0.302  Sum_probs=21.3

Q ss_pred             CCeeeeccCCCCChhhHHHHHHHHH
Q psy210          682 GGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       682 GQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++=+.|.|+||+||||++..+++..
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3446779999999999999999876

>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=85.07  E-value=0.46  Score=47.79  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=20.3

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +++.||+|||||+|+..++..+
T Consensus        44 iLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          44 VLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             EEEBCCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCcchhHHHHHHHHh
Confidence            9999999999999999998765

>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=85.04  E-value=0.14  Score=50.86  Aligned_cols=32  Identities=22%  Similarity=0.370  Sum_probs=28.1

Q ss_pred             ccccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          250 SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       250 ~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      .=+.+-+|+.++|+|++|+||||| +.+|+.--
T Consensus        19 vs~~i~~Ge~~~liGpsGaGKSTl-l~~l~Gl~   50 (229)
T d3d31a2          19 LSLKVESGEYFVILGPTGAGKTLF-LELIAGFH   50 (229)
T ss_dssp             EEEEECTTCEEEEECCCTHHHHHH-HHHHHTSS
T ss_pred             eEEEECCCCEEEEECCCCCcHHHH-HHHHhcCc
Confidence            447788999999999999999999 89888753

>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=85.00  E-value=0.37  Score=47.99  Aligned_cols=38  Identities=21%  Similarity=0.403  Sum_probs=30.0

Q ss_pred             ceeeec-cccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          245 IKSIDS-MIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       245 i~aiD~-l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      ..|+|. =+.+-+|+.++|+|++|+||||| +.+|...-.
T Consensus        19 ~~al~~vsl~v~~Ge~~~liGpsGaGKSTL-l~~i~Gl~~   57 (239)
T d1v43a3          19 FTAVNKLNLTIKDGEFLVLLGPSGCGKTTT-LRMIAGLEE   57 (239)
T ss_dssp             EEEEEEEEEEECTTCEEEEECCTTSSHHHH-HHHHHTSSC
T ss_pred             EEEEcceeEEECCCCEEEEECCCCChHHHH-HHHHHcCCC
Confidence            345443 36778899999999999999999 888887543

>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=84.99  E-value=0.21  Score=47.18  Aligned_cols=23  Identities=22%  Similarity=0.505  Sum_probs=20.7

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++.|+||||+||||++..|+...
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998865

>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=84.99  E-value=0.19  Score=47.17  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.7

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      |+.|+|+||+||||++..++...
T Consensus         4 rIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           4 RMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68899999999999999998764

>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=84.98  E-value=0.21  Score=51.60  Aligned_cols=27  Identities=30%  Similarity=0.305  Sum_probs=23.1

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ++.-+++.||||||||.|+..+|+.+.
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhccc
Confidence            456689999999999999999998753

>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=84.96  E-value=0.19  Score=47.51  Aligned_cols=23  Identities=17%  Similarity=0.205  Sum_probs=21.0

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      ++.|.||||+||||++..++...
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            68899999999999999998875

>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=84.94  E-value=0.28  Score=48.65  Aligned_cols=30  Identities=17%  Similarity=0.331  Sum_probs=25.8

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +.+-+|+-++|+|+.|+||||| +.+|+.-.
T Consensus        20 l~I~~Gei~~iiG~nGaGKSTL-l~~l~Gl~   49 (231)
T d1l7vc_          20 GEVRAGEILHLVGPNGAGKSTL-LARMAGMT   49 (231)
T ss_dssp             EEEETTCEEECBCCTTSSHHHH-HHHHHTSC
T ss_pred             EEEcCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            3677899999999999999999 78887643

>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=84.91  E-value=0.12  Score=51.90  Aligned_cols=36  Identities=33%  Similarity=0.465  Sum_probs=29.5

Q ss_pred             ceeee-ccccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          245 IKSID-SMIPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       245 i~aiD-~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.|+| .=+.+-+|+.++|+|++|+||||| +.+|+.-
T Consensus        18 ~~aL~~vsl~i~~Ge~~~iiG~sGsGKSTl-l~~i~gl   54 (242)
T d1oxxk2          18 VVALDNVNINIENGERFGILGPSGAGKTTF-MRIIAGL   54 (242)
T ss_dssp             EEEEEEEEEEECTTCEEEEECSCHHHHHHH-HHHHHTS
T ss_pred             EEEEeceEEEECCCCEEEEECCCCCcHHHH-HHHHHcC
Confidence            45553 346778899999999999999999 8888875

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

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 Sulfolobus acidocaldarius [TaxId: 2285]

Probab=84.47  E-value=0.34  Score=44.79  Aligned_cols=31  Identities=16%  Similarity=0.194  Sum_probs=24.0

Q ss_pred             eeccCCCCChhhHHHHHHHHHHhcCCcEEEE
Q psy210          686 GLFGGAGVGKTVNMMELIRNIAIEHKGCSVF  716 (915)
Q Consensus       686 ~I~~~~g~GKt~Ll~~i~~~~~~~~~~~~v~  716 (915)
                      .|.|++|+||||++..++.....++-.+.++
T Consensus         5 vi~G~~GsGKTT~~~~La~~L~~~~~~~~~~   35 (194)
T d1nksa_           5 IVTGIPGVGKSTVLAKVKEILDNQGINNKII   35 (194)
T ss_dssp             EEEECTTSCHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHcCCCEEEE
Confidence            4579999999999999999887654444443

>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=84.30  E-value=1  Score=40.84  Aligned_cols=22  Identities=23%  Similarity=0.605  Sum_probs=18.5

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+.++|++|+|||+| +..+.++
T Consensus         2 Kv~vvG~~~vGKTsL-i~r~~~~   23 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSL-ITRFMYD   23 (164)
T ss_dssp             EEEEEESTTSSHHHH-HHHHHHS
T ss_pred             EEEEECCCCcCHHHH-HHHHHhC
Confidence            789999999999999 6666653

>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=84.20  E-value=0.21  Score=45.75  Aligned_cols=21  Identities=24%  Similarity=0.359  Sum_probs=16.8

Q ss_pred             eeeeecCCCCChhHHHHHHHHh
Q psy210          259 RELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      .+.|.|++|+|||||+ ..+++
T Consensus         3 ~v~ItG~~GtGKTtl~-~~i~~   23 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLI-HKASE   23 (189)
T ss_dssp             CEEEESCCSSCHHHHH-HHHHH
T ss_pred             EEEEECCCCCcHHHHH-HHHHH
Confidence            4789999999999995 45554

>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=83.78  E-value=0.23  Score=49.59  Aligned_cols=37  Identities=30%  Similarity=0.443  Sum_probs=29.3

Q ss_pred             ceeeec-cccccccceeeeecCCCCChhHHHHHHHHhhc
Q psy210          245 IKSIDS-MIPIGKGQRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       245 i~aiD~-l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      ..++|. =+.+-+|+-.+|+|+.|+||||| +.+|...-
T Consensus        19 ~~al~~vs~~i~~Gei~~liGpnGaGKSTl-~~~i~Gl~   56 (240)
T d1ji0a_          19 IHAIKGIDLKVPRGQIVTLIGANGAGKTTT-LSAIAGLV   56 (240)
T ss_dssp             EEEEEEEEEEEETTCEEEEECSTTSSHHHH-HHHHTTSS
T ss_pred             EEEEeeeeEEECCCCEEEEECCCCCcHHHH-HHHHhCCC
Confidence            344433 36788899999999999999999 78887653

>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=83.77  E-value=0.21  Score=45.89  Aligned_cols=25  Identities=20%  Similarity=0.454  Sum_probs=20.3

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      .++.|+|++||||||| ...+++.-+
T Consensus         8 K~I~i~G~~GsGKTTl-a~~La~~~~   32 (192)
T d1lw7a2           8 KTVAILGGESSGKSVL-VNKLAAVFN   32 (192)
T ss_dssp             EEEEEECCTTSHHHHH-HHHHHHHTT
T ss_pred             eEEEEECCCCCCHHHH-HHHHHHHhC
Confidence            4789999999999999 467776543

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=83.65  E-value=1.4  Score=42.17  Aligned_cols=24  Identities=17%  Similarity=0.230  Sum_probs=21.5

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      -+++.||+|+|||+++..+++.+.
T Consensus        26 ~lLl~Gp~G~GKtt~a~~~a~~l~   49 (207)
T d1a5ta2          26 ALLIQALPGMGDDALIYALSRYLL   49 (207)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCcHHHHHHHHHHhcc
Confidence            488999999999999999998764

>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=83.48  E-value=0.28  Score=43.94  Aligned_cols=24  Identities=29%  Similarity=0.537  Sum_probs=20.6

Q ss_pred             ceeeeecCCCCChhHHHHHHHHhhc
Q psy210          258 QRELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       258 qr~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      +|++++|++++|||+| +..+.+..
T Consensus         1 ~KI~liG~~nvGKSSL-ln~l~~~~   24 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTL-LHMLKNDR   24 (166)
T ss_dssp             CEEEEECSTTSSHHHH-HHHHHHSC
T ss_pred             CEEEEECCCCCCHHHH-HHHHhCCC
Confidence            4899999999999999 77777754

>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=83.45  E-value=0.76  Score=44.60  Aligned_cols=38  Identities=24%  Similarity=0.301  Sum_probs=24.2

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEeec
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVCIG  294 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~iG  294 (915)
                      +++-+.++|+.|+||||.+.. ++++ ...+-++.++.+.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaK-LA~~~~~~g~kV~lit~D   43 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAK-LGRYYQNLGKKVMFCAGD   43 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHH-HHHHHHTTTCCEEEECCC
T ss_pred             CCEEEEEECCCCCCHHHHHHH-HHHHHHHCCCcEEEEEec
Confidence            567788999999999998533 3443 2223334455554

>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=83.35  E-value=0.2  Score=46.05  Aligned_cols=23  Identities=26%  Similarity=0.224  Sum_probs=18.6

Q ss_pred             CeeeeccCCCCChhhHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      .=+.|.|++|+||||++..+++.
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            33678899999999999877653

>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=83.34  E-value=1.4  Score=43.00  Aligned_cols=90  Identities=14%  Similarity=0.029  Sum_probs=49.2

Q ss_pred             eeeecCCCCChhHHHHHHHHhh-------cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhhh
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQ-------KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQYI  332 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~-------~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~~  332 (915)
                      +.+.|++|||||++ +..++++       ......++|.-+-........+.......+...      .....+.. +  
T Consensus        49 l~l~GppGtGKT~l-~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~-~--  118 (287)
T d1w5sa2          49 YGSIGRVGIGKTTL-AKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPI------QVRGAPAL-D--  118 (287)
T ss_dssp             EECTTCCSSSHHHH-HHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCC------CCTTCCHH-H--
T ss_pred             EEeECCCCCCHHHH-HHHHHHHHHhhcccccCCceeeeeccccccchhhHHHHHhhhccccc------ccccchHH-H--
Confidence            34569999999999 5666664       233455666666655555444444443322210      00111111 1  


Q ss_pred             hhhhhhhhHHHHHhcCCcEEEEeccchhHH
Q psy210          333 SPYTGCTIGEYFRDLGQDCLIIYDDLTKHA  362 (915)
Q Consensus       333 ~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a  362 (915)
                         .--.+-+...+++..+++++|.+..+.
T Consensus       119 ---~~~~l~~~~~~~~~~~~~iide~d~l~  145 (287)
T d1w5sa2         119 ---ILKALVDNLYVENHYLLVILDEFQSML  145 (287)
T ss_dssp             ---HHHHHHHHHHHHTCEEEEEEESTHHHH
T ss_pred             ---HHHHHHHHHHhccCccccceeEEEEec
Confidence               111223344567888888888887764

>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=83.27  E-value=0.27  Score=46.60  Aligned_cols=27  Identities=26%  Similarity=0.412  Sum_probs=22.9

Q ss_pred             ccCCeeeeccCCCCChhhHHHHHHHHH
Q psy210          680 LKGGKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       680 gkGQr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      -++.-+.|+||||+||||++..++...
T Consensus         6 ~~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           6 KKSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             HTSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            356778999999999999999888753

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

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 EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=83.19  E-value=3.4  Score=38.28  Aligned_cols=22  Identities=27%  Similarity=0.590  Sum_probs=19.2

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +++|+|.+++||||| +..+.++
T Consensus        25 ~I~lvG~~n~GKSTL-in~L~g~   46 (195)
T d1svia_          25 EIALAGRSNVGKSSF-INSLINR   46 (195)
T ss_dssp             EEEEEEBTTSSHHHH-HHHHHTC
T ss_pred             EEEEECCCCCCHHHH-HHHhcCC
Confidence            688999999999999 7888753

>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=82.98  E-value=0.26  Score=46.68  Aligned_cols=23  Identities=30%  Similarity=0.582  Sum_probs=20.5

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.|+||||+||||++..++...
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998754

>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=82.72  E-value=0.21  Score=40.27  Aligned_cols=35  Identities=29%  Similarity=0.437  Sum_probs=32.6

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCC
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGK  613 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~  613 (915)
                      +..++++++.+.+.++.|+++..|+.||+|++||+
T Consensus        36 ~~GlalnL~e~~VgvVllg~~~~i~eG~~V~rTG~   70 (71)
T d2jdia2          36 LKGMSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGA   70 (71)
T ss_dssp             CEEEEEEECSSCEEEEESSCGGGCCTTCEEECCCC
T ss_pred             CEEEEEeecccEEEEEEECCCCccCCCCEEEeccc
Confidence            45788999999999999999999999999999986

>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=82.59  E-value=0.29  Score=44.25  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.5

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.|+|++|+|||+|+..+..+
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            6889999999999999887753

>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=82.50  E-value=0.31  Score=45.20  Aligned_cols=24  Identities=33%  Similarity=0.386  Sum_probs=21.0

Q ss_pred             CeeeeccCCCCChhhHHHHHHHHH
Q psy210          683 GKIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       683 Qr~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.+-++|++|+||||++..++..+
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~L   26 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARAL   26 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            456789999999999999999875

>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=82.44  E-value=0.27  Score=44.82  Aligned_cols=22  Identities=32%  Similarity=0.302  Sum_probs=19.1

Q ss_pred             eeeccCCCCChhhHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      +.|.|++|+||||++..+++..
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            5667999999999999998865

>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=82.34  E-value=0.71  Score=44.44  Aligned_cols=21  Identities=29%  Similarity=0.589  Sum_probs=16.4

Q ss_pred             eeeeecCCCCChhHHHHHHHHh
Q psy210          259 RELIIGDRQTGKTTIAIDTIIN  280 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~  280 (915)
                      ...++|++|+|||+++ +-+++
T Consensus        45 n~lLvG~pGVGKTalv-~~LA~   65 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIV-EGLAQ   65 (195)
T ss_dssp             EEEEECCTTSCHHHHH-HHHHH
T ss_pred             CeEEEecCCcccHHHH-HHHHH
Confidence            5679999999999994 44443

>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=82.28  E-value=0.29  Score=46.83  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=20.6

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +.|.||||+||+|++..|+.+..
T Consensus         6 I~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            68899999999999999998763

>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=82.04  E-value=0.25  Score=39.97  Aligned_cols=36  Identities=19%  Similarity=0.228  Sum_probs=33.1

Q ss_pred             hhhhhhccccceeeeccccCccCcccCCeEEeCCCc
Q psy210          579 INKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP  614 (915)
Q Consensus       579 i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~  614 (915)
                      ...++++++.+.+.++.|++...|+.||.|+.||+.
T Consensus        36 ~~G~alnLe~d~VgvVllg~~~~i~~G~~V~rTG~v   71 (72)
T d1fx0a2          36 TIGIALNLESNNVGVVLMGDGLMIQEGSSVKATGRI   71 (72)
T ss_dssp             CEEEEEEECSSEEEEEECSCGGGCCTTCEEECCCCC
T ss_pred             CeEEEEeccCCEEEEEEECCCCccCCCCEEEecccc
Confidence            457889999999999999999999999999999874

>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=81.88  E-value=0.32  Score=44.86  Aligned_cols=24  Identities=29%  Similarity=0.333  Sum_probs=20.9

Q ss_pred             eeeeccCCCCChhhHHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      |+-+.|.+|+||||+...++..+.
T Consensus         3 ~IvliG~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             cEEEECCCCCCHHHHHHHHHHHhC
Confidence            567889999999999999998763

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

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: Campylobacter jejuni [TaxId: 197]

Probab=81.88  E-value=0.33  Score=44.83  Aligned_cols=23  Identities=26%  Similarity=0.401  Sum_probs=20.4

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.|+|+||+||||+...++...
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHHh
Confidence            36788999999999999999876

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

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: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=81.85  E-value=0.41  Score=46.36  Aligned_cols=23  Identities=35%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      ++|+|++|+|||||+..+.++..
T Consensus         3 i~v~G~~GsGKTTLl~~ll~~~~   25 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFGRYLE   25 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHT
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHh
Confidence            57899999999999999998764

>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=81.79  E-value=0.95  Score=44.96  Aligned_cols=26  Identities=19%  Similarity=0.362  Sum_probs=21.6

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      +++.|++|||||++ ...|++..+..+
T Consensus        45 iLl~GppGtGKT~l-a~aia~~~~~~~   70 (247)
T d1ixza_          45 VLLVGPPGVGKTHL-ARAVAGEARVPF   70 (247)
T ss_dssp             EEEECCTTSSHHHH-HHHHHHHTTCCE
T ss_pred             EEEecCCCCChhHH-HHHHHHHcCCCE
Confidence            78999999999999 588887765554

>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=81.56  E-value=0.24  Score=45.59  Aligned_cols=24  Identities=33%  Similarity=0.393  Sum_probs=20.7

Q ss_pred             cCCeeeeccCCCCChhhHHHHHHH
Q psy210          681 KGGKIGLFGGAGVGKTVNMMELIR  704 (915)
Q Consensus       681 kGQr~~I~~~~g~GKt~Ll~~i~~  704 (915)
                      |--|++++|.+|+|||+|+..+..
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            445899999999999999988765

>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=81.44  E-value=0.37  Score=48.52  Aligned_cols=29  Identities=31%  Similarity=0.468  Sum_probs=25.6

Q ss_pred             ccccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          252 IPIGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       252 ~pigrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      +.+-+|++++|+|++|+||||| +..|...
T Consensus        39 l~i~~Ge~vaivG~sGsGKSTL-l~ll~gl   67 (255)
T d2hyda1          39 LSIEKGETVAFVGMSGGGKSTL-INLIPRF   67 (255)
T ss_dssp             EEECTTCEEEEECSTTSSHHHH-HTTTTTS
T ss_pred             EEEcCCCEEEEECCCCCcHHHH-HHHHHhc
Confidence            6788899999999999999999 6777764

>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=81.28  E-value=0.53  Score=46.05  Aligned_cols=30  Identities=17%  Similarity=0.233  Sum_probs=24.6

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      ...-+++.|++|||||++ ..+++++.+.++
T Consensus        51 ~~~~lll~GPpG~GKTt~-a~~la~~~~~~~   80 (253)
T d1sxja2          51 VFRAAMLYGPPGIGKTTA-AHLVAQELGYDI   80 (253)
T ss_dssp             SCSEEEEECSTTSSHHHH-HHHHHHHTTCEE
T ss_pred             CCceEEEECCCCCCHHHH-HHHHHHHHHhhh
Confidence            345588999999999999 688999877664

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

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 sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=81.22  E-value=2.2  Score=41.32  Aligned_cols=35  Identities=26%  Similarity=0.170  Sum_probs=16.4

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeEEEEEeec
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVICIYVCIG  294 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~~V~~~iG  294 (915)
                      +.++|+.|+||||.+...-+..+..+-++.++.+.
T Consensus        15 i~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit~D   49 (211)
T d1j8yf2          15 IMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVGAD   49 (211)
T ss_dssp             EEEECSCCC----HHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCceEEEEee
Confidence            56789999999998533322222222334455554

>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=81.01  E-value=1.3  Score=45.91  Aligned_cols=27  Identities=22%  Similarity=0.279  Sum_probs=22.8

Q ss_pred             ccccceeeeecCCCCChhHHHHHHHHhh
Q psy210          254 IGKGQRELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       254 igrGqr~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      -|+.-++||.|++|+||||| ++.++++
T Consensus        51 ~~~~~~IgitG~pGaGKSTL-i~~l~~~   77 (327)
T d2p67a1          51 CGNTLRLGVTGTPGAGKSTF-LEAFGML   77 (327)
T ss_dssp             CSCSEEEEEEECTTSCHHHH-HHHHHHH
T ss_pred             cCCceEEEeeCCCCCCHHHH-HHHHHHH
Confidence            46788999999999999999 6776653

>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=80.95  E-value=0.41  Score=48.03  Aligned_cols=39  Identities=33%  Similarity=0.538  Sum_probs=30.7

Q ss_pred             cceee-eccccccccceeeeecCCCCChhHHHHHHHHhhcC
Q psy210          244 GIKSI-DSMIPIGKGQRELIIGDRQTGKTTIAIDTIINQKN  283 (915)
Q Consensus       244 Gi~ai-D~l~pigrGqr~~I~g~~g~GKt~l~l~~i~~~~~  283 (915)
                      |.+++ |.=+.+.+|+-.+|+|+.|+||||| +.+|...-.
T Consensus        16 ~~~aL~~vs~~v~~Gei~~liG~nGaGKSTL-l~~i~Gl~~   55 (254)
T d1g6ha_          16 EFKALDGVSISVNKGDVTLIIGPNGSGKSTL-INVITGFLK   55 (254)
T ss_dssp             TEEEEEEECCEEETTCEEEEECSTTSSHHHH-HHHHTTSSC
T ss_pred             CeEEEcceEEEECCCCEEEEECCCCCcHHHH-HHHHHCCCc
Confidence            34454 4446788899999999999999999 788887543

>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=80.89  E-value=2.4  Score=39.55  Aligned_cols=22  Identities=27%  Similarity=0.265  Sum_probs=19.7

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      ++.|+|.+++|||+|+-.+..+
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            7899999999999999888754

>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=80.76  E-value=0.47  Score=46.68  Aligned_cols=27  Identities=33%  Similarity=0.486  Sum_probs=22.8

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCeE
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNVI  287 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~~  287 (915)
                      +++.|++|||||+| ...|++....++.
T Consensus        35 ilL~GpPGtGKT~l-a~~la~~~~~~~~   61 (273)
T d1gvnb_          35 FLLGGQPGSGKTSL-RSAIFEETQGNVI   61 (273)
T ss_dssp             EEEECCTTSCTHHH-HHHHHHHTTTCCE
T ss_pred             EEEECCCCCCHHHH-HHHHHHHhhcceE
Confidence            88999999999999 4888887766753

>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=80.70  E-value=2.9  Score=40.26  Aligned_cols=38  Identities=18%  Similarity=0.227  Sum_probs=26.9

Q ss_pred             cceeeeecCCCCChhHHHHHHHHhh--cCCCeEEEEEeecc
Q psy210          257 GQRELIIGDRQTGKTTIAIDTIINQ--KNKNVICIYVCIGQ  295 (915)
Q Consensus       257 Gqr~~I~g~~g~GKt~l~l~~i~~~--~~~~~~~V~~~iGe  295 (915)
                      ...++|.|++|||||++ +..++++  ...+..+++.-+-.
T Consensus        43 ~~~lll~GppGtGKT~l-~~~l~~~l~~~~~~~~~~~~~~~   82 (276)
T d1fnna2          43 YPRATLLGRPGTGKTVT-LRKLWELYKDKTTARFVYINGFI   82 (276)
T ss_dssp             CCEEEEECCTTSSHHHH-HHHHHHHHTTSCCCEEEEEETTT
T ss_pred             CCceEEECCCCCCHHHH-HHHHHHHHhcccCCcEEEecchh
Confidence            46789999999999999 5777775  33445555554443

>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=80.68  E-value=0.22  Score=40.58  Aligned_cols=37  Identities=27%  Similarity=0.367  Sum_probs=33.4

Q ss_pred             hhhhhhhccccceeeeccccCccCcccCCeEEeCCCc
Q psy210          578 SINKVQQQIGENIVRTIAFGNTNGIKRNTIVVDTGKP  614 (915)
Q Consensus       578 ~i~ev~~~l~~~~v~l~~~~~~~gl~~G~~V~~tg~~  614 (915)
                      .+..++.+++.+.+.++.|++...|+.||+|++||+.
T Consensus        38 g~~GlvlnLe~d~VgvVllg~~~~i~~G~~V~rTg~v   74 (75)
T d1skyb2          38 AVMGMALNLEENNVGIVILGPYTGIKEGDEVRRTGRI   74 (75)
T ss_dssp             SCEEEEEEEETTEEEEEESSCCSSCCTTCEEEEEEEE
T ss_pred             CCEEEEEeccCcEEEEEEECCCCcccCCCEEEecccc
Confidence            3557889999999999999999999999999999864

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {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: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=80.49  E-value=0.51  Score=45.92  Aligned_cols=32  Identities=31%  Similarity=0.449  Sum_probs=22.9

Q ss_pred             eeeecCCCCChhHHHHHHHHhh-cCCCeEEEEEe
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQ-KNKNVICIYVC  292 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~-~~~~~~~V~~~  292 (915)
                      +-|.|++|+|||+| ++++++. ...+..++|.-
T Consensus        39 l~l~G~~G~GKTHL-l~A~~~~~~~~~~~~~~~~   71 (213)
T d1l8qa2          39 IFIYGSVGTGKTHL-LQAAGNEAKKRGYRVIYSS   71 (213)
T ss_dssp             EEEECSSSSSHHHH-HHHHHHHHHHTTCCEEEEE
T ss_pred             EEEECCCCCcHHHH-HHHHHHHhccCccceEEec
Confidence            57999999999999 7888875 22333345553

>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=80.45  E-value=0.31  Score=44.71  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.6

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.++|++|+|||+|+..+..+
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            6889999999999999988764

>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=80.44  E-value=0.33  Score=47.52  Aligned_cols=23  Identities=35%  Similarity=0.654  Sum_probs=21.2

Q ss_pred             eeeeccCCCCChhhHHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRNI  706 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~~  706 (915)
                      .+.|.||+|+|||+++..+++.+
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~l   57 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLESI   57 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHhh
Confidence            48999999999999999999876

>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=80.42  E-value=0.71  Score=44.65  Aligned_cols=94  Identities=18%  Similarity=0.195  Sum_probs=62.3

Q ss_pred             ccceeeeecCCCCChhHHHHHHHHhh----cCCCeEEEEEeeccchhhHHHHHHHHhccCCcceEEEEEecCCCCHHHhh
Q psy210          256 KGQRELIIGDRQTGKTTIAIDTIINQ----KNKNVICIYVCIGQKISSLINVINKLKYYNCMDYTVVVAATAADSAAEQY  331 (915)
Q Consensus       256 rGqr~~I~g~~g~GKt~l~l~~i~~~----~~~~~~~V~~~iGer~~ev~~~~~~l~~~~~~~~tvvv~~~a~~~~~~r~  331 (915)
                      +|.-+-|.|-+|+|||||| ..+.+.    ...++   +.+-|..-|      +.|.            ..-+-+...|.
T Consensus        23 kg~vIwltGlsGsGKTTia-~~L~~~l~~~~~~~~---~~ldgD~iR------~~l~------------~~l~ys~~~r~   80 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLA-VELEHQLVRDRRVHA---YRLDGDNIR------FGLN------------KDLGFSEADRN   80 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHH-HHHHHHHHHHHCCCE---EEECHHHHT------TTTT------------TTCCSSHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHH-HHHHHHHHHhcCceE---EEEcchHHH------Hhhc------------CCCCCChhHHH
Confidence            4777999999999999995 444432    22332   334443221      1111            01234567787


Q ss_pred             hhhhhhhhhHHHHHhcCCcEEEEeccchhHHHHH-HHHHhh
Q psy210          332 ISPYTGCTIGEYFRDLGQDCLIIYDDLTKHAWAY-RQISLL  371 (915)
Q Consensus       332 ~~~~~a~tiAEy~r~~g~~Vlv~~Ddltr~a~A~-reis~~  371 (915)
                      ........+|.++.++|..|++-..+..+..+.+ |++...
T Consensus        81 ~~~~r~~~~a~~~~~~g~~viv~~i~~~~~~R~~~r~i~~~  121 (208)
T d1m7ga_          81 ENIRRIAEVAKLFADSNSIAITSFISPYRKDRDTARQLHEV  121 (208)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEEECCCCCHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhccCCceeeecccccHHHHHHHHHHhhh
Confidence            8888888999999999999999988888776654 555443

>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=80.38  E-value=1  Score=45.03  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=21.8

Q ss_pred             eeeecCCCCChhHHHHHHHHhhcCCCe
Q psy210          260 ELIIGDRQTGKTTIAIDTIINQKNKNV  286 (915)
Q Consensus       260 ~~I~g~~g~GKt~l~l~~i~~~~~~~~  286 (915)
                      +++.|++|||||++ ...|++..+..+
T Consensus        48 iLL~GppGtGKT~l-a~~iA~~~~~~~   73 (256)
T d1lv7a_          48 VLMVGPPGTGKTLL-AKAIAGEAKVPF   73 (256)
T ss_dssp             EEEECCTTSCHHHH-HHHHHHHHTCCE
T ss_pred             EEeeCCCCCCccHH-HHHHHHHcCCCE
Confidence            78999999999999 688888765554

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {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: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=80.31  E-value=0.37  Score=46.24  Aligned_cols=23  Identities=26%  Similarity=0.556  Sum_probs=20.7

Q ss_pred             eeeccCCCCChhhHHHHHHHHHH
Q psy210          685 IGLFGGAGVGKTVNMMELIRNIA  707 (915)
Q Consensus       685 ~~I~~~~g~GKt~Ll~~i~~~~~  707 (915)
                      +||.|++|+|||||+..++....
T Consensus         5 IgI~G~~gSGKSTla~~L~~~l~   27 (213)
T d1uj2a_           5 IGVSGGTASGKSSVCAKIVQLLG   27 (213)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhc
Confidence            78999999999999999988654

>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=80.19  E-value=1.8  Score=39.42  Aligned_cols=22  Identities=23%  Similarity=0.528  Sum_probs=18.6

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      |+.|+|+++||||+| +..+.++
T Consensus         6 Ki~lvG~~~vGKTsl-i~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSI-MWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHH-HHHHHHS
T ss_pred             EEEEECCCCcCHHHH-HHHHHhC
Confidence            688999999999999 6666653

>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=80.08  E-value=3.1  Score=38.72  Aligned_cols=22  Identities=23%  Similarity=0.522  Sum_probs=19.5

Q ss_pred             eeeeecCCCCChhHHHHHHHHhh
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQ  281 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~  281 (915)
                      ++.|+|.+++|||+| +..+.++
T Consensus         5 ~V~lvG~~n~GKTSL-ln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSL-LTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHH-HHHHHHS
T ss_pred             EEEEECCCCCCHHHH-HHHHhCC
Confidence            678999999999999 8888765

>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=80.08  E-value=0.32  Score=44.76  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=19.7

Q ss_pred             eeeeccCCCCChhhHHHHHHHH
Q psy210          684 KIGLFGGAGVGKTVNMMELIRN  705 (915)
Q Consensus       684 r~~I~~~~g~GKt~Ll~~i~~~  705 (915)
                      |+.++|++|+|||+|+..+..+
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            6889999999999999988764

>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=80.02  E-value=0.43  Score=42.71  Aligned_cols=23  Identities=35%  Similarity=0.452  Sum_probs=19.4

Q ss_pred             eeeeecCCCCChhHHHHHHHHhhc
Q psy210          259 RELIIGDRQTGKTTIAIDTIINQK  282 (915)
Q Consensus       259 r~~I~g~~g~GKt~l~l~~i~~~~  282 (915)
                      |+.|+|+++||||+| +..+..+.
T Consensus         2 kivlvG~~~vGKSsL-i~~l~~~~   24 (160)
T d1r8sa_           2 RILMVGLDAAGKTTI-LYKLKLGE   24 (160)
T ss_dssp             EEEEECSTTSSHHHH-HHHHHHHC
T ss_pred             EEEEECCCCCCHHHH-HHHHhcCC
Confidence            688999999999999 77777653