Citrus Sinensis ID: 003366

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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------
Protein Sequence
MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIELSSSSESNSGSDSDDVNEDAEGAGDKSGRPNKRRKMPQDLEVVLPVGFLEPLPAPERLPAAAGNDKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSRHKITDSSHSDKHQLHSNQRWEGKDSKRLPEASNYGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTPSIRAGR
Secondary Structure (PSIPRED)
cccccHHHHHHccccccccccccccccccccEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccHHHcccccccccHHHHHHHHHccccHHHcccccEEEEEEEEEcccccEEEEEEEccccccHHHHHHHHccccccccccccccccccccccccccccccEEEEEcEEcccccccccEEEEEEcHHHHHHcccccEEEEEEEcccccccEEEEEcccHHHHHHHHHHHHHccccccHHHHHHHHccccccEEEEEEEEcccccccccccccccccccccccccccccHHHHccccccccccccccccccccHHHHcccccccccEEEEEcEEcccccHHHHHccccEEEccccccccccccccccEEEEEEEEcccccccccccEEEEEEccccccccccccccccccccEEEEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEcccccccccccccccccccccEEEEEccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccEEEEcHHHHccccccccHHHHHHHHHHHccccccccccEEEEEEEEEEcccccEEEEEEEccccccHHHHHHHHHccccccccccccEEEcccccccccccccccEEEEEcccccccccccEEEEEHHHHHHHHcccccEEEEcccccccccccEEEEcccHHHHHHHHHHHHHccccccHHHHHHHHHHccccccEEEEEEEcccccccEEEcccccccHEEEccccccccccccccccccccccccHHHHHHHHHHHHHHccccccEEEEEccEEccHHHHHHcccccEEEEcccccccccccHccEEEEEEEEEcccccccEEEEEEEEEEcccEEEcEEEEcccccccccEEEEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccEcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
MNVNVKREILETClttaepkqndsvsnkLVPFielssssesnsgsdsddvnedaegagdksgrpnkrrkmpqdlevvlpvgfleplpaperlpaaagndkaVSVGLQSCKQFWkagdyegapsggwefstggmdhvrvhpkflhsnatSHKWALGAFAELLDNSldevcngatysnidmlinrkdgsrmlliedngggmnpdkmrhcmslgysakskaantigqygngfktstmrLGADVIVFScccgkdgksptrsiglLSYTFLrstgkedivvpmldyegsQQEWKKIIRSSLDDWNRNVETIvqwspfsseadLLHQFNLMKDHGTRIIIYNLweddqglleldfdsdkhdiqlrgvnrdeQNIKMaqhypnsrhflTYRHSLRSYASILYLrlppgfriiirgkdvehhnivndmmlskkvtyrpqpgasgiptdlhMAVDVTIGFVkdakhhidvqgfnvyhknrlikpfwrlwnasgsdgrgvIGVLEanfvepahdkqgfeRTTVLARLEARLIQMQKDYwnnncheigyaprrykkYIKDSYdreisskksypsrhkitdsshsdkhqlhsnqrwegkdskrlpeasnygdrkghesskgkykmktpvkyregasvseplspsaedasdddMHVMVTARGANGSSQKILAAEKsfgkdglhrthpsaclvdsesqqdgasggssvrpfmpsqskgsevnypehflsdcslganlgQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEkmktpsiragr
Flexible Loop (DISEMBL)
MNVNVKREILETclttaepkqndsvsnKLVPFIELSsssesnsgsdsddvnedaegagdksgrpnkrrkmpqDLEVVLPVGFLEPLPAPERLPAAAGNDKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGkdgksptrsigLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFvepahdkqgferTTVLARLEARLIQMQkdywnnncheigyaprrykKYIKDSYDReisskksypsrhkitdsshsdkhqlhsnqrwegkdskrlpeasnygdrkghesskgkykmktpvkyregasvseplspsaedasddDMHVMVTArgangssqkILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRlekkegelqeereRCRSLEAQLKVMQQTIEELNKEQESLidifaeerdrrereeenlrkkikdasdtiQDLLDKikllekmktpsiragr
Low Complexity Region (SEG)
MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIELssssesnsgsdsddvnedAEGAGDKSGRPNKRRKMPQDLEVVLPVGFleplpaperlpaaaGNDKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSRHKITDSSHSDKHQLHSNQRWEGKDSKRLPEASNYGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHelkkrlekkegelqeererCRSLEAQLKVMQQTIEELNKEQESLIDIFAeerdrrereeeNLRKKIKDASDTIQDLLDKIKLLEKMKTPSIRAGR
Disordered region (IsUnstruct)
**************************************************************************EVVLPVGFLEP**************KAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIE*************CMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNR**QNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKD*************************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISOPRED)
*****KR*ILETC****************************************************************LPVGFLE*********************LQSCKQFWKAGDYEG****************RVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGY*AK******IGQ*GNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLR*********************LTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDR*********************************************************************************************************************************************************************************************************************************************************************************
Disordered Region (DISEMBL)
MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIEL********************************RKMPQDLEVVLPVGFLEPLPAPERLPAAAGNDKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSY************************************************************KMKTPVK******************SDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLV*****************FMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKK**********CRSLEAQLKVMQQTIEELNKEQESLIDIFAEER***********KKIKDASDTIQDLLDKIKLLEKMK********
Disordered Region (DISPRO)
*NVNVKREILETCLTTA******SVSNKLVP***************************************************************************QSCKQFW*******APSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVN**********HYP*SRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAP**************************************H*NQ**********************************************************************************************************************************FLSDCSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK**********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIELSSSSESNSGSDSDDVNEDAEGAGDKSGRPNKRRKMPQDLEVVLPVGFLEPLPAPERLPAAAGNDKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSRHKITDSSHSDKHQLHSNQRWEGKDSKRLPEASNYGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxKTPSIRAGR
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	826	2.2.26 [Sep-21-2011]
Q8BMD7	928	MORC family CW-type zinc	no	no	0.458	0.408	0.334	2e-52
Q14149	939	MORC family CW-type zinc	yes	no	0.427	0.375	0.349	4e-52
Q8TE76	937	MORC family CW-type zinc	no	no	0.450	0.397	0.329	1e-50
Q9WVL5	950	MORC family CW-type zinc	no	no	0.449	0.390	0.257	7e-34
Q9Y6X9	1032	MORC family CW-type zinc	no	no	0.309	0.248	0.323	8e-34
Q86VD1	984	MORC family CW-type zinc	no	no	0.451	0.379	0.276	1e-33
Q69ZX6	1030	MORC family CW-type zinc	no	no	0.297	0.238	0.330	4e-33
Q8C5W4	1022	MORC family CW-type zinc	no	no	0.311	0.251	0.311	8e-33

>sp|Q8BMD7|MORC4_MOUSE MORC family CW-type zinc finger protein 4 OS=Mus musculus GN=Morc4 PE=2 SV=2

 Score =  207 bits (528), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 140/419 (33%), Positives = 220/419 (52%), Gaps = 40/419 (9%)

Query: 138 VHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGG 197
           + P++L SN++SH     A AELLDN++D   +  T   ID+   +K     L   D+G 
Sbjct: 35  MSPRYLQSNSSSHTRPFSAIAELLDNAVDPDVSARTVF-IDVEEVKKKPC--LTFTDDGC 91

Query: 198 GMNPDKMRHCMSLGYSAK--SKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPT 255
           GM P K+   +S G++ K   K+   IG +GNGFK+ +MRLG D +VF+    K+G   T
Sbjct: 92  GMTPHKLHRMLSFGFTDKVIKKSQRPIGVFGNGFKSGSMRLGKDALVFT----KNGN--T 145

Query: 256 RSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSE 315
            ++GLLS T+L     + ++VP++ +  SQQ  K I+    +D   ++E I+ +S F+ E
Sbjct: 146 LAVGLLSQTYLECIQAQAVIVPIVPF--SQQNKKMIV---TEDSLPSLEAILNYSIFNCE 200

Query: 316 ADLLHQFNLMK-DHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIK-MAQH 373
            DLL QF+ +    GTR++I+N+  +  G  ELDFD+D++DI +   + +E+ I  +   
Sbjct: 201 KDLLSQFDAIPGKKGTRVLIWNIRRNKDGKSELDFDTDQYDILVSDFDAEEKEIGGVTSE 260

Query: 374 YPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPG 433
            P + +      SLR++ SILY++  P  +I +R K V    I   +   +   Y+P   
Sbjct: 261 LPETEY------SLRAFCSILYMK--PRMKIFLRQKKVTTQMIAKSLANVEYDIYKP--- 309

Query: 434 ASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRL---WNASGSDGRGV 490
                T  +  V +T GF    K+H    G  +YH NRLIK F +       +  +G GV
Sbjct: 310 -----TSTNKQVRITFGF--SCKYHNQF-GVMMYHNNRLIKAFEKAGCQLKPTCGEGVGV 361

Query: 491 IGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKD 549
           IGV+E NF++PA++KQ FE T         L +    YW     +  + P    + I D
Sbjct: 362 IGVIECNFLKPAYNKQDFEYTKEYRLTINALARKLNAYWKEKISQENFEPLPTSRRIPD 420

Mus musculus (taxid: 10090)

>sp|Q14149|MORC3_HUMAN MORC family CW-type zinc finger protein 3 OS=Homo sapiens GN=MORC3 PE=1 SV=3

 Score =  207 bits (526), Expect = 4e-52,   Method: Compositional matrix adjust.
 Identities = 142/406 (34%), Positives = 211/406 (51%), Gaps = 53/406 (13%)

Query: 140 PKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGM 199
           PKFLH+N+TSH W   A AEL+DN+ D   N         +IN       L   DNG GM
Sbjct: 16  PKFLHTNSTSHTWPFSAVAELIDNAYDPDVNAKQIWIDKTVIN---DHICLTFTDNGNGM 72

Query: 200 NPDKMRHCMSLGYSAKSKAAN--TIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRS 257
             DK+   +S G+S K        +G YGNGFK+ +MRLG D IVF+    K+G+S   S
Sbjct: 73  TSDKLHKMLSFGFSDKVTMNGHVPVGLYGNGFKSGSMRLGKDAIVFT----KNGES--MS 126

Query: 258 IGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEAD 317
           +GLLS T+L     E +VVP++ +   +Q        +L +   ++  I++ S FS+E  
Sbjct: 127 VGLLSQTYLEVIKAEHVVVPIVAFNKHRQ------MINLAESKASLAAILEHSLFSTEQK 180

Query: 318 LLHQFN-LMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQL----------RGVNRDEQ 366
           LL + + ++   GTRIII+NL    +   E DF+ DK+DI++          +G  + E 
Sbjct: 181 LLAELDAIIGKKGTRIIIWNL-RSYKNATEFDFEKDKYDIRIPEDLDEITGKKGYKKQE- 238

Query: 367 NIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKV 426
             +M Q  P S       +SLR+Y SILYL+  P  +II+RG+ V+   +   +   ++ 
Sbjct: 239 --RMDQIAPES------DYSLRAYCSILYLK--PRMQIILRGQKVKTQLVSKSLAYIERD 288

Query: 427 TYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNA--SG 484
            YRP+         L   V +T GF    K H    G  +YH+NRLIK + ++     + 
Sbjct: 289 VYRPKF--------LSKTVRITFGFNCRNKDHY---GIMMYHRNRLIKAYEKVGCQLRAN 337

Query: 485 SDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWN 530
           + G GV+G++E NF++P H+KQ F+ T         L +   DYWN
Sbjct: 338 NMGVGVVGIIECNFLKPTHNKQDFDYTNEYRLTITALGEKLNDYWN 383

Homo sapiens (taxid: 9606)

>sp|Q8TE76|MORC4_HUMAN MORC family CW-type zinc finger protein 4 OS=Homo sapiens GN=MORC4 PE=1 SV=2

 Score =  201 bits (512), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 137/416 (32%), Positives = 220/416 (52%), Gaps = 44/416 (10%)

Query: 122 PSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLD-EVCNGATYSNIDML 180
           P GG +    G+    + P++L SN++SH     A AELLDN++D +V     + +++ +
Sbjct: 21  PGGGPQ--AFGIRLSTMSPRYLQSNSSSHTRPFSAIAELLDNAVDPDVSARTVFIDVEEV 78

Query: 181 INRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAK--SKAANTIGQYGNGFKTSTMRLGA 238
            N+      L   D+G GM P K+   +S G++ K   K+   IG +GNGFK+ +MRLG 
Sbjct: 79  KNKS----CLTFTDDGCGMTPHKLHRMLSFGFTDKVIKKSQCPIGVFGNGFKSGSMRLGK 134

Query: 239 DVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDD 298
           D +VF+    K+G   T ++GLLS T+L     + ++VP++ +  +QQ  K II    +D
Sbjct: 135 DALVFT----KNGG--TLTVGLLSQTYLECVQAQAVIVPIVPF--NQQNKKMII---TED 183

Query: 299 WNRNVETIVQWSPFSSEADLLHQFNLMK-DHGTRIIIYNLWEDDQGLLELDFDSDKHDIQ 357
              ++E I+ +S F+ E DLL QF+ +    GTR++I+N+  +  G  ELDFD+D++DI 
Sbjct: 184 SLPSLEAILNYSIFNRENDLLAQFDAIPGKKGTRVLIWNIRRNKNGKSELDFDTDQYDIL 243

Query: 358 LRGVNRDEQNIK-MAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNI 416
           +   + +E+    +    P + +      SLR++  ILY++  P  +I +R K V    I
Sbjct: 244 VSDFDTEEKMTGGVTSELPETEY------SLRAFCGILYMK--PRMKIFLRQKKVTTQMI 295

Query: 417 VNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPF 476
              +   +  TY+P        T  +  V +T GF     +     G  +YH NRLIK F
Sbjct: 296 AKSLANVEYDTYKP--------TFTNKQVRITFGFSCKNSNQF---GIMMYHNNRLIKSF 344

Query: 477 WRL---WNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYW 529
            ++      +  +G GVIGV+E NF++PA++KQ FE T         L Q    YW
Sbjct: 345 EKVGCQVKPTRGEGVGVIGVIECNFLKPAYNKQDFEYTKEYRLTINALAQKLNAYW 400

Homo sapiens (taxid: 9606)

>sp|Q9WVL5|MORC1_MOUSE MORC family CW-type zinc finger protein 1 OS=Mus musculus GN=Morc1 PE=2 SV=1

 Score =  146 bits (368), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 123/477 (25%), Positives = 200/477 (41%), Gaps = 106/477 (22%)

Query: 133 MDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRK-DGSRMLL 191
           +   ++H  F+H+N+T+H +  GA AELLDN+ D    GA   ++  + N    G  ML 
Sbjct: 7   LQRAKLHLDFIHANSTTHSFLFGALAELLDNARDA---GAVRLDVFSVDNETLQGGFMLC 63

Query: 192 IEDNGGGMNPDKMRHCMSLGYSAKSKAA-NTIGQYGNGFKTSTMRLGADVIVFSCCCGKD 250
             D+G GM+PD+    +  G S K  +    IGQYGNG K+ +MR+G D I+F+      
Sbjct: 64  FLDDGCGMSPDEASDVIYFGTSKKRLSTLKFIGQYGNGLKSGSMRIGKDCILFT------ 117

Query: 251 GKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDD----WNRNVETI 306
            K  T +    S TF    G  ++VVP+         W    R S+ D    +   +  I
Sbjct: 118 KKEETMTCLFFSQTFCEKEGLTEVVVPI-------PSWLTRTRESITDDPQKFFTELSII 170

Query: 307 VQWSPFSSEADLLHQFNLMKDH-GTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDE 365
            ++SPF +EA+L+ QF+++    GT +IIYNL     G  ELD  +DK DI +       
Sbjct: 171 FKYSPFKTEAELMQQFDMIYGRCGTLLIIYNLKLLLSGEPELDVTTDKEDILM------- 223

Query: 366 QNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKK 425
              +  +  P  R F       R+Y ++LY    P  +I I+ K V+  ++   +   +K
Sbjct: 224 --AEAPEEIPERRSF-------RAYTAVLYFE--PRMKIFIQAKRVQTKHLCYSLYKPRK 272

Query: 426 VTYRPQPGASGIPTDLH-------------------------MAVDVTIGFVKDAKHHID 460
             Y          T++                          +A+  T   ++ A   +D
Sbjct: 273 YQYTTSSFKGKFKTEVQKAEEAVKRAELLFKEVQAKVNQPDRIALSSTQDALQKALQDVD 332

Query: 461 VQ-------------------------------GFNVYHKNRLIKPFWRL---WNASGSD 486
            +                               G  +Y  NRLIK + ++          
Sbjct: 333 TKHKSLRQKQRALRKARTLSLFFGVNTEDQHQAGMFIYSNNRLIKMYEKVGPQLKMKSLL 392

Query: 487 GRGVIGVLEANF--VEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPR 541
           G G+IG++      +EP+H+KQ F    +  +    L+++   Y    C +IG + R
Sbjct: 393 GAGIIGIVNIPLETMEPSHNKQEF----LNVQEYNHLLKVMGQYLIQYCKDIGISNR 445

Required for spermatogenesis.

Mus musculus (taxid: 10090)

>sp|Q9Y6X9|MORC2_HUMAN MORC family CW-type zinc finger protein 2 OS=Homo sapiens GN=MORC2 PE=1 SV=2

 Score =  146 bits (368), Expect = 8e-34,   Method: Compositional matrix adjust.
 Identities = 94/291 (32%), Positives = 150/291 (51%), Gaps = 35/291 (12%)

Query: 131 GGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKD---GS 187
             ++  ++  ++LH+N+T+H++  GA AEL+DN+ D     A  + ID+   R++   G 
Sbjct: 7   SSLNRAQLTFEYLHTNSTTHEFLFGALAELVDNARD-----ADATRIDIYAERREDLRGG 61

Query: 188 RMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANT-IGQYGNGFKTSTMRLGADVIVFSCC 246
            ML   D+G GM+P      +  G SAK    +T IGQYGNG K+ +MR+G D I+F+  
Sbjct: 62  FMLCFLDDGAGMDPSDAASVIQFGKSAKRTPESTQIGQYGNGLKSGSMRIGKDFILFT-- 119

Query: 247 CGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETI 306
                K  T +   LS TF    G ++++VP+  +    +E    +  +++ +    E I
Sbjct: 120 ----KKEDTMTCLFLSRTFHEEEGIDEVIVPLPTWNARTRE---PVTDNVEKFAIETELI 172

Query: 307 VQWSPFSSEADLLHQF-NLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDE 365
            ++SPF +E +++ QF  +  D GT +II+NL   D G  ELD  S+  DIQ        
Sbjct: 173 YKYSPFRTEEEVMTQFMKIPGDSGTLVIIFNLKLMDNGEPELDIISNPRDIQ-------- 224

Query: 366 QNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNI 416
               MA+  P        R S R+YA++LY+   P  RI I G  V+   +
Sbjct: 225 ----MAETSPEGTK--PERRSFRAYAAVLYID--PRMRIFIHGHKVQTKRL 267

May act as a transcriptional repressor. Down-regulates CA9 expression.

Homo sapiens (taxid: 9606)

>sp|Q86VD1|MORC1_HUMAN MORC family CW-type zinc finger protein 1 OS=Homo sapiens GN=MORC1 PE=2 SV=2

 Score =  145 bits (366), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 134/485 (27%), Positives = 204/485 (42%), Gaps = 112/485 (23%)

Query: 132 GMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRK-DGSRML 190
            +   ++   F+H+N+T+H +  GA AELLDN+ D    GA   ++  + N K  G  ML
Sbjct: 7   ALQRAQLRLDFIHANSTTHSFLFGALAELLDNARDA---GAERLDVFSVDNEKLQGGFML 63

Query: 191 LIEDNGGGMNPDKMRHCMSLGYSAKSKAA-NTIGQYGNGFKTSTMRLGADVIVFSCCCGK 249
              D+G GM+P++    +  G S K  +    IGQYGNG K+ +MR+G D I+F+     
Sbjct: 64  CFLDDGCGMSPEEASDIIYFGRSKKRLSTLKFIGQYGNGLKSGSMRIGKDFILFT----- 118

Query: 250 DGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDD----WNRNVET 305
             K  T +    S TF       ++VVPM         W    R S+ D    +   +  
Sbjct: 119 -KKEETMTCVFFSQTFCEEESLSEVVVPM-------PSWLIRTRESVTDDPQKFAMELSI 170

Query: 306 IVQWSPFSSEADLLHQFNLMKDH-GTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRD 364
           I ++SPF +EA+L+ QF+++    GT ++IYNL     G  ELD  +DK DI + G   D
Sbjct: 171 IYKYSPFKTEAELMQQFDVIYGKCGTLLVIYNLKLLLNGEPELDVKTDKEDILMAGALED 230

Query: 365 EQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSK 424
                    +P        R S R+Y S+LY    P  RI I+ K V+  ++   +   +
Sbjct: 231 ---------FPA-------RWSFRAYTSVLYFN--PWMRIFIQAKRVKTKHLCYCLYRPR 272

Query: 425 KVTYRPQPGASGIPTDLHM---AVDVTIGFVKDAKHHI--------------------DV 461
           K  Y           ++     AV +    +K+A+  +                    DV
Sbjct: 273 KYLYVTSSFKGAFKDEVKKAEEAVKIAESILKEAQIKVNQCDRTSLSSAKDVLQRALEDV 332

Query: 462 Q-----------------------GFNV----------YHKNRLIKPFWRL---WNASGS 485
           +                       G NV          Y  NRLIK   ++         
Sbjct: 333 EAKQKNLKEKQRELKTARTLSLFYGVNVENRSQAGMFIYSNNRLIKMHEKVGSQLKLKSL 392

Query: 486 DGRGVIGVLEA--NFVEPAHDKQGF----ERTTVLARLEARLIQMQKDYWNNN------C 533
            G GV+G++      +EP+H+KQ F    E   +L  +   L+Q  KD   NN      C
Sbjct: 393 LGAGVVGIVNIPLEVMEPSHNKQEFLNVQEYNHLLKVMGQYLVQYCKDTGINNRNLTLFC 452

Query: 534 HEIGY 538
           +E GY
Sbjct: 453 NEFGY 457

Required for spermatogenesis.

Homo sapiens (taxid: 9606)

>sp|Q69ZX6|MOR2A_MOUSE MORC family CW-type zinc finger protein 2A OS=Mus musculus GN=Morc2a PE=1 SV=2

 Score =  144 bits (362), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 93/281 (33%), Positives = 146/281 (51%), Gaps = 35/281 (12%)

Query: 141 KFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKD---GSRMLLIEDNGG 197
           ++LH+N+T+H++  GA AEL+DN+ D     A  + ID+   R++   G  ML   D+G 
Sbjct: 17  EYLHTNSTTHEFLFGALAELVDNARD-----ADATRIDIYAERREDLRGGFMLCFLDDGA 71

Query: 198 GMNPDKMRHCMSLGYSAKSKAANT-IGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTR 256
           GM+P      +  G SAK    +T IGQYGNG K+ +MR+G D I+F+       K  T 
Sbjct: 72  GMDPSDAASVIQFGKSAKRTPESTQIGQYGNGLKSGSMRIGKDFILFT------KKEDTM 125

Query: 257 SIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEA 316
           +   LS TF    G ++++VP+  +    +E    I  +++ +    E + ++SPF +E 
Sbjct: 126 TCLFLSRTFHEEEGIDEVIVPLPTWNARTRE---PITDNVEKFAIETELVYKYSPFHTEE 182

Query: 317 DLLHQF-NLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYP 375
            +++QF  +  + GT +II+NL   D G  ELD  S+  DIQ            MA+  P
Sbjct: 183 QVMNQFMKIPGNSGTLVIIFNLKLMDNGEPELDIISNPKDIQ------------MAETSP 230

Query: 376 NSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNI 416
                   R S R+YA++LY+   P  RI I G  V+   +
Sbjct: 231 EGTK--PERRSFRAYAAVLYID--PRMRIFIHGHKVQTKRL 267

Mus musculus (taxid: 10090)

>sp|Q8C5W4|MOR2B_MOUSE MORC family CW-type zinc finger protein 2B OS=Mus musculus GN=Morc2b PE=2 SV=2

 Score =  142 bits (359), Expect = 8e-33,   Method: Compositional matrix adjust.
 Identities = 91/292 (31%), Positives = 154/292 (52%), Gaps = 35/292 (11%)

Query: 142 FLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKD---GSRMLLIEDNGGG 198
           +LH+N+T+H +  GA AEL+DN+ D     A  + ID+   +++   G  ML   DNG G
Sbjct: 18  YLHTNSTTHAFLFGALAELIDNARD-----ADATRIDIYAEKREDLQGGFMLCFLDNGVG 72

Query: 199 MNPDKMRHCMSLGYSAKSKAANT-IGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRS 257
           M+P+ + + +  G SAK    +T IG+YGNG K+ +MR+G D I+F+       K  T S
Sbjct: 73  MDPNDVINVIQFGKSAKRTPESTQIGRYGNGLKSGSMRIGKDFILFT------KKENTMS 126

Query: 258 IGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEAD 317
              LS TF    G ++++VP+  +    +E    +  +++ +    E I ++SPF +E +
Sbjct: 127 CLFLSRTFHEEEGIDEVIVPLPTWNSQTRE---PVTDNMEKFAIETELIYKYSPFHTEEE 183

Query: 318 LLHQFNLMK-DHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPN 376
           ++ QF  +    GT ++I+NL   D G  ELD  S+  DI++  ++  ++ +K       
Sbjct: 184 VMTQFTKISGTSGTLVVIFNLKLTDNGEPELDVTSNPKDIRMAEIS--QEGVK------- 234

Query: 377 SRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTY 428
                  RHS  +YA++LY+   P  RI I G  V+   +   +   +K T+
Sbjct: 235 -----PERHSFCAYAAVLYID--PRMRIFIHGHKVQTKKLCCCLYKPRKYTF 279

Mus musculus (taxid: 10090)

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	826
255540135	816	zinc finger protein, putative [Ricinus c	0.960	0.971	0.654	0.0
297734460	830	unnamed protein product [Vitis vinifera]	0.956	0.951	0.612	0.0
224119746	862	predicted protein [Populus trichocarpa]	0.869	0.832	0.648	0.0
356527801	820	PREDICTED: uncharacterized protein LOC10	0.938	0.945	0.596	0.0
359491569	2234	PREDICTED: uncharacterized protein LOC10	0.806	0.298	0.659	0.0
449440961	824	PREDICTED: uncharacterized protein LOC10	0.952	0.955	0.609	0.0
240256429	819	Histidine kinase-, DNA gyrase B-, and HS	0.918	0.926	0.545	0.0
9757986	823	unnamed protein product [Arabidopsis tha	0.905	0.908	0.543	0.0
449501464	794	PREDICTED: uncharacterized LOC101222073	0.679	0.706	0.696	0.0
356511518	809	PREDICTED: uncharacterized protein LOC10	0.704	0.719	0.671	0.0

>gi|255540135|ref|XP_002511132.1| zinc finger protein, putative [Ricinus communis] gi|223550247|gb|EEF51734.1| zinc finger protein, putative [Ricinus communis]

 Score = 1034 bits (2674), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 556/849 (65%), Positives = 625/849 (73%), Gaps = 56/849 (6%)

Query: 1   MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIELSSSSESNSGSDSDDVNEDAEGA--- 57
           M++ VKREI+ET  T    + NDSV       IELSSSS S+S S SD  +E   GA   
Sbjct: 1   MDIPVKREIVETFGTADSNRGNDSVLPGPPVLIELSSSSSSSSSSSSDSDSESDNGARFF 60

Query: 58  GDKSGRPNKRRKMPQDLEVVLPVGFLEPL---PAPERLPAAAGNDKAVSVGLQSCKQFWK 114
            +  G   K+RK+ ++L VVLPVGFL PL   PA   L    GND    +  QSCKQFWK
Sbjct: 61  PNGEGISKKKRKL-EELGVVLPVGFLAPLNQVPAEAMLTTVQGNDNVCLID-QSCKQFWK 118

Query: 115 AGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATY 174
           AGDYEGAP G W+ STGGMDHVRVHPKFLHSNATSHKWALGAFAELLDN+LDEVC GATY
Sbjct: 119 AGDYEGAPCGDWDLSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNALDEVCYGATY 178

Query: 175 SNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTM 234
            NIDML N KDGSRMLLIEDNGGGM+PDKMR CMSLGYSAKSK ANTIGQYGNGFKTSTM
Sbjct: 179 VNIDMLANWKDGSRMLLIEDNGGGMDPDKMRQCMSLGYSAKSKVANTIGQYGNGFKTSTM 238

Query: 235 RLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRS 294
           RLGADVIVFS C GKDGKSPT+SIGLLSYTFLRSTGKEDIVVPMLDYE   QEW K+IRS
Sbjct: 239 RLGADVIVFSRCPGKDGKSPTQSIGLLSYTFLRSTGKEDIVVPMLDYERKGQEWNKMIRS 298

Query: 295 SLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKH 354
           S  DWNRNVETIVQWSPFSSEADLL QFNLM DHGTRI+IYNLWEDD+G LELDFD+D H
Sbjct: 299 SSGDWNRNVETIVQWSPFSSEADLLRQFNLMSDHGTRIVIYNLWEDDEGSLELDFDTDPH 358

Query: 355 DIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHH 414
           DIQLRGVNRDE+NI+MA+ +PNSRHFLTYRHSLRSYASILYLRLPP FRII+RGKDVEHH
Sbjct: 359 DIQLRGVNRDEKNIQMAKEFPNSRHFLTYRHSLRSYASILYLRLPPCFRIILRGKDVEHH 418

Query: 415 NIVNDMMLSKKVTYRPQPGASGIPTDL---HMAVDVTIGFVKDAKHHIDVQGFNVYHKNR 471
           NIVNDMMLS+++TYRPQ  A G+  D    HMA  VTIGFVKDAKHHIDVQGFNVYHKNR
Sbjct: 419 NIVNDMMLSQEITYRPQ-SADGVAKDFNLNHMAAIVTIGFVKDAKHHIDVQGFNVYHKNR 477

Query: 472 LIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNN 531
           LIKPFWRLWNA+GSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARL+QMQK YW+ 
Sbjct: 478 LIKPFWRLWNAAGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLVQMQKTYWST 537

Query: 532 NCHEIGYAPRRYKKYIKDSYD-------REISSK-KSYPSRHKITDSSHSDKHQLHSNQR 583
           NCH+IGYAPRR K++I +S D        ++SS+ K Y +      SS SDK   H+NQ 
Sbjct: 538 NCHKIGYAPRRNKRFINESTDGGSSPDYSQVSSQSKKYSALRGKGLSSLSDKFYSHANQN 597

Query: 584 WEGKDSKRLPEASNYGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHV 643
             GK S    +  N     GH SS G    KT            P SPS  D  D+D H+
Sbjct: 598 -GGKRSDTFAKNGNPAYANGHVSSNGSDGTKTSTGSGRKTHSKAPSSPSLHDVDDNDAHI 656

Query: 644 MVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSK 703
            +  R                 +DGLH    S+ L D+  Q               SQSK
Sbjct: 657 ALPTR-----------------QDGLHMVRLSSPLEDTTQQ-----------AVTRSQSK 688

Query: 704 GSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKEGELQEER------ERCRSLEAQ 757
             +V+  +H L +  L  N+ +LKQEN EL++RL+K+E E Q E        +C+SLE Q
Sbjct: 689 AGKVDNSQHVLPESDL-CNINELKQENQELRERLKKREAEFQGEMMHGSMCNKCKSLEIQ 747

Query: 758 LKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           L+  QQ IEELNKEQESLIDIF+EERDRR++EEENLRKK KDAS+TIQ LLDK++LLEKM
Sbjct: 748 LQEAQQKIEELNKEQESLIDIFSEERDRRDKEEENLRKKYKDASNTIQQLLDKVRLLEKM 807

Query: 818 KTPSIRAGR 826
           K+P+ RA R
Sbjct: 808 KSPNYRAER 816

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297734460|emb|CBI15707.3| unnamed protein product [Vitis vinifera]

 Score =  987 bits (2552), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 528/862 (61%), Positives = 633/862 (73%), Gaps = 72/862 (8%)

Query: 2   NVNVKREILETCLTTAEPKQNDSVSNKLVPFIELSSSSESNSGSDSDDVNEDAEGAGDKS 61
           +  VK+EI+E      +P +ND VS K VP IELSSS  S+S   SD  ++DA  +G K 
Sbjct: 3   DARVKQEIVEFA-QALQPNRNDDVS-KSVPLIELSSSDSSDSSDSSDSDDDDATVSGRKR 60

Query: 62  GRPNK-------RRKMPQDLEVVLPVGFLEP---------LPAPERLPAAAGNDKAVS-- 103
            R +        ++K    L +VLP+GFL+P         +P     P A     + +  
Sbjct: 61  FRVSSGLEGVLSKKKKLDGLGIVLPLGFLDPLPPEEPPALVPKAVTSPTAVAQRSSTANR 120

Query: 104 -VGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLD 162
            +  QSCK FWKAG+YEGAP G ++ S GG+DHVRVHPKFLHSNATSHKWALGAFAELLD
Sbjct: 121 NLVEQSCKLFWKAGEYEGAPGGDFDSSAGGLDHVRVHPKFLHSNATSHKWALGAFAELLD 180

Query: 163 NSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTI 222
           NSLDE+CNGATY N+DML N+KDG+RMLLIEDNGGGM+P+KMR CMSLGYSAKSK ANTI
Sbjct: 181 NSLDEICNGATYVNVDMLENKKDGNRMLLIEDNGGGMDPEKMRQCMSLGYSAKSKIANTI 240

Query: 223 GQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYE 282
           GQYGNGFKTSTMRLGADVIVFS CCGKDGKSPT+SIGLLSYTFLRSTGKEDIVVPM+DYE
Sbjct: 241 GQYGNGFKTSTMRLGADVIVFSRCCGKDGKSPTQSIGLLSYTFLRSTGKEDIVVPMIDYE 300

Query: 283 GSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQ 342
              +EW K+IRSS  DWN+NVETI+QWSPFSSE DLL QFN +K+HGTRIIIYNLWEDD 
Sbjct: 301 KGGREWNKMIRSSASDWNKNVETIMQWSPFSSELDLLRQFNFIKEHGTRIIIYNLWEDDP 360

Query: 343 GLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGF 402
           G LELDFD+D  DIQ+RGVNRDE+NI+MA+ +PNSRHFLTYRHSLRSYASILYLRLPPGF
Sbjct: 361 GQLELDFDTDPKDIQIRGVNRDEKNIQMAKQFPNSRHFLTYRHSLRSYASILYLRLPPGF 420

Query: 403 RIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQ 462
           RII+RGKDVEHHN+VNDMM++++VTYRPQP A G+P DL+M   VTIGFVKDAKHHIDVQ
Sbjct: 421 RIILRGKDVEHHNVVNDMMMTQEVTYRPQPSADGVPKDLNMVAVVTIGFVKDAKHHIDVQ 480

Query: 463 GFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLI 522
           GFNVYHKNRLIKPFWRLWNA+GSDGRGVIGVLEANFVEPAHDKQGFERT VL+RLE RL+
Sbjct: 481 GFNVYHKNRLIKPFWRLWNAAGSDGRGVIGVLEANFVEPAHDKQGFERTIVLSRLETRLL 540

Query: 523 QMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREIS----------SKKSYPSRHKITDSSH 572
           QMQK YW   CH+IGYAPRR KK I +S  RE S           KK   +    T  S+
Sbjct: 541 QMQKTYWTTYCHKIGYAPRRNKKLINESA-RETSPDYLPQTPSQPKKKVGASSGKTPLSN 599

Query: 573 SDKHQLHSNQRWEGKDSKRLPEASNYGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPS 632
            DKH  HSN +  G++ +R PE        GH SSK + +   P + R+  S   P SPS
Sbjct: 600 LDKHASHSNHKQGGRELERTPETVYQSHGNGHASSKQEKRTHMPTRPRKEQSSLVPSSPS 659

Query: 633 AEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGS 692
           AED  DDD+  ++  R ANG   K   A  SFG+DG H+                     
Sbjct: 660 AEDVDDDDVPAVLPEREANGRVHKASHANNSFGEDG-HQI-------------------- 698

Query: 693 SVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKE--------GEL 744
           S R    SQSKG +VN   + L+       L QL++EN ELK+RL++KE        G+L
Sbjct: 699 STR----SQSKGDDVNGNSNSLA-------LEQLREENCELKERLKRKEGDTVVALRGDL 747

Query: 745 QEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTI 804
           ++ERE+C+ LE +L+  +Q IE++NKEQ+SLIDIF+EERDRR+ EEENLRKK+++AS+TI
Sbjct: 748 EKEREKCKLLETELQEARQKIEDMNKEQDSLIDIFSEERDRRDIEEENLRKKLREASNTI 807

Query: 805 QDLLDKIKLLEKMKTPSIRAGR 826
           Q+LL+++++LEKMKTP+ ++ R
Sbjct: 808 QELLERVRVLEKMKTPNGKSER 829

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119746|ref|XP_002318152.1| predicted protein [Populus trichocarpa] gi|222858825|gb|EEE96372.1| predicted protein [Populus trichocarpa]

 Score =  945 bits (2442), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 482/743 (64%), Positives = 563/743 (75%), Gaps = 25/743 (3%)

Query: 72  QDLEVVLPVGFLEPLPAP---------ERLPAAAGNDKAVSVGLQSCKQFWKAGDYEGAP 122
           +DL VVLP+GFL P+  P         E +   +   + VS+  QS KQFWKAGDYEGAP
Sbjct: 82  EDLGVVLPLGFLAPITPPPDSETPSEAEMMAVESTESRRVSLTGQSSKQFWKAGDYEGAP 141

Query: 123 SGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLIN 182
              W+ S GGMDHVRVHPKFLHSNATSHKWALGAFAELLDN+LDE  NGA + NIDM+ +
Sbjct: 142 RANWDSSFGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNALDEFGNGARFVNIDMVES 201

Query: 183 RKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIV 242
           +KD SRMLLIEDNGGGM+PDK+R CMSLGYSAKSK ANTIGQYGNGFKTSTMRLGADVIV
Sbjct: 202 KKDQSRMLLIEDNGGGMDPDKLRQCMSLGYSAKSKVANTIGQYGNGFKTSTMRLGADVIV 261

Query: 243 FSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRN 302
           FS C GKDGK PT+SIGLLSYTFLRSTGKEDIVVPMLDYE   +EW ++ RSS  DWNRN
Sbjct: 262 FSRCQGKDGKFPTQSIGLLSYTFLRSTGKEDIVVPMLDYERKGREWSRMGRSSTGDWNRN 321

Query: 303 VETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVN 362
           VETIV WSPFSSEADLL QF LM DHGTRIIIYNLWEDDQG+LELDFDSD HDIQLRGVN
Sbjct: 322 VETIVHWSPFSSEADLLRQFKLMSDHGTRIIIYNLWEDDQGMLELDFDSDPHDIQLRGVN 381

Query: 363 RDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMML 422
           RDE++I+MA+ +PNSRHFLTYRHSLR+Y SILYLRLPP FRII+RGKDVEHHNIVNDMML
Sbjct: 382 RDEKHIQMAKEFPNSRHFLTYRHSLRNYTSILYLRLPPSFRIILRGKDVEHHNIVNDMML 441

Query: 423 SKKVTYRPQPGASGIPTDLH-MAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWN 481
           S+++TYRPQPGA  +P D + M   VTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWN
Sbjct: 442 SQEITYRPQPGADSVPKDTNQMTAVVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWN 501

Query: 482 ASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPR 541
           A+GSDGRGVIGVLEANF+EPAHDKQGFERTTVLARLEARL+QMQK YW  +C  + Y   
Sbjct: 502 AAGSDGRGVIGVLEANFIEPAHDKQGFERTTVLARLEARLVQMQKHYW--HCLLLLYT-- 557

Query: 542 RYKKYIKDSYDREISSKKSYPSRHKITDSSHSDKHQLHSNQRWEGKDSKRLPEASNYGDR 601
            ++ ++       IS K  +P+     D       Q  S +++    SK  P  SN G  
Sbjct: 558 SFESFLITPL--LISHKVVFPNEENSPDDLPPTSSQ--SKKKYTSLSSKISPSHSNRGYV 613

Query: 602 KGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAE 661
            G+  +KG  + KTP    +    S P  P+ +++S+DD HV +  R ANGS+Q+     
Sbjct: 614 SGNAFNKGNIRTKTPTNLGKNTVSSGPSPPAQDESSEDDEHVALPMREANGSAQETTPTN 673

Query: 662 KSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGA 721
           KSF K+GL +T  S+ L DS SQQD  SGG++V+    SQ K  +V+  +H L +  +  
Sbjct: 674 KSFDKNGLPKTWSSSYLEDSGSQQDCMSGGATVQIGTRSQPKVGDVDKRDHALPESDMHV 733

Query: 722 NLGQLKQENHELKKRLEKKEGELQEER------ERCRSLEAQLKVMQQTIEELNKEQESL 775
            L  LKQEN ELK+RL+K EGE Q +       E+C+SLE QL+  QQ +EELNKEQESL
Sbjct: 734 -LAHLKQENRELKERLQKLEGETQGKYMSGFQCEKCKSLEIQLQEAQQKLEELNKEQESL 792

Query: 776 IDIFAEERDRREREEENLRKKIK 798
           IDIF+EERDRR++EEE+LRKK+K
Sbjct: 793 IDIFSEERDRRDQEEESLRKKLK 815

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356527801|ref|XP_003532495.1| PREDICTED: uncharacterized protein LOC100816702 [Glycine max]

 Score =  936 bits (2420), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 508/852 (59%), Positives = 605/852 (71%), Gaps = 77/852 (9%)

Query: 1   MNVNVKREILETCLTTAEPKQNDSVSNKLVP--FIELSSSSESNSGSDSDDVNEDAEGAG 58
           M+V VK E+LET + T E +  ++V + L P   IELS S       DS   N    GA 
Sbjct: 1   MDVCVKEEVLETPIVT-ERRPRNAVVSALPPGLVIELSDSDTDEGDLDSVVANA-VNGAT 58

Query: 59  DKSGRPNKRRKMPQDLEVVLPVGFL----------------EPLPAPERLPAAAGNDKAV 102
            +S  P+K+R+  +   VVLPVGFL                  LPAPE    +A    A 
Sbjct: 59  VES--PSKKRRTSEAGGVVLPVGFLTPLPPAPVPVPPPAAVLSLPAPEWASNSASRVNAS 116

Query: 103 -SVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELL 161
            S  L S KQFWKAGDY+GAP GG   ST GMDHVRVHPKFLHSNATSHKWALGAFAELL
Sbjct: 117 KSFSLNSSKQFWKAGDYDGAPLGGSGSSTVGMDHVRVHPKFLHSNATSHKWALGAFAELL 176

Query: 162 DNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANT 221
           DNSLDEVCNGATY N+DMLIN+KDG+RMLL+EDNGGGM+P+KMR CMSLGYS KSK ANT
Sbjct: 177 DNSLDEVCNGATYVNVDMLINKKDGTRMLLVEDNGGGMDPEKMRQCMSLGYSMKSKMANT 236

Query: 222 IGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDY 281
           IGQYGNGFKTSTMRLGADVIVFS   GKDGKS T+SIGLLSYTFLRSTGKEDIVVPMLDY
Sbjct: 237 IGQYGNGFKTSTMRLGADVIVFSRYPGKDGKSSTQSIGLLSYTFLRSTGKEDIVVPMLDY 296

Query: 282 EGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDD 341
           E   QEW KIIR+SLDDWN+NVETIVQWSPFS+EADLL QFNL+KDHGTR+IIYNLWEDD
Sbjct: 297 ERRGQEWNKIIRTSLDDWNKNVETIVQWSPFSNEADLLLQFNLVKDHGTRVIIYNLWEDD 356

Query: 342 QGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPG 401
           QG LELDFD D HDIQ+RGVNRDE+NI+M++ +PNSRHFLTYRHSLRSY SILYLRLP G
Sbjct: 357 QGQLELDFDEDPHDIQIRGVNRDEKNIQMSKEFPNSRHFLTYRHSLRSYTSILYLRLPSG 416

Query: 402 FRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASG-IPTDLHMAVDVTIGFVKDAKHHID 460
           FRII+RGKD+ HHNIVNDMM+S++VTYRPQ G  G +P D +M   VTIGFVKDA HH+D
Sbjct: 417 FRIILRGKDILHHNIVNDMMMSQEVTYRPQAGVDGLLPKDSNMVAVVTIGFVKDAVHHVD 476

Query: 461 VQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEAR 520
           V GFNVYHKNRLIKPFWR+WN +GS GRGVIGVLEANFVEPAHDKQGFERT VL+RLE++
Sbjct: 477 VSGFNVYHKNRLIKPFWRIWNPAGSGGRGVIGVLEANFVEPAHDKQGFERTLVLSRLESK 536

Query: 521 LIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSRHKITDSSHSDKHQLHS 580
           LIQMQK YW+ NCH+IGYA  R K  I+D  D+E +S   +P      +SS S +     
Sbjct: 537 LIQMQKKYWSTNCHKIGYASNRSKIQIRDYADKE-ASPDYFP------ESSQSKR----- 584

Query: 581 NQRWEGKDSKRLPEASN----YGDRKGHESSKGKYKMKTPVKYREGASVSEP----LSPS 632
             ++   D K  P  S+    + D+K  +    KY     + Y+ G S   P     S S
Sbjct: 585 --KYSTMDDKATPLTSDKLRSHSDQKRIQKQTDKY-----IAYKNGQSSVSPRRRMQSLS 637

Query: 633 AEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGS 692
            + +SDD++  ++  +     +QKI  AEKSF K+       + C       QD  S G 
Sbjct: 638 EQSSSDDEVSEVLPKK----KTQKISTAEKSFEKE-------NGC------SQDTTSRGK 680

Query: 693 SVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKE--------GEL 744
           S +    S+ +G  VN  E   SD  L   L QLK+EN ELK+RL++KE         +L
Sbjct: 681 SSQYTRGSKLEGKSVNDGEQPPSDNDL-LTLEQLKKENRELKERLQRKEEDILGQVLQDL 739

Query: 745 QEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTI 804
           Q E++RC+SLE QL   ++ +EELN EQE+LID+FAEERDRR+ EE+ LR K+++AS+TI
Sbjct: 740 QHEKDRCKSLETQLIDAEKKLEELNNEQETLIDVFAEERDRRDAEEKKLRNKLEEASNTI 799

Query: 805 QDLLDKIKLLEK 816
           ++LLDK + LE+
Sbjct: 800 RELLDKTRKLER 811

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359491569|ref|XP_002280533.2| PREDICTED: uncharacterized protein LOC100266246 [Vitis vinifera]

 Score =  927 bits (2396), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 473/717 (65%), Positives = 556/717 (77%), Gaps = 51/717 (7%)

Query: 128  FSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGS 187
             S GG+DHVRVHPKFLHSNATSHKWALGAFAELLDNSLDE+CNGATY N+DML N+KDG+
Sbjct: 1550 ISVGGLDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEICNGATYVNVDMLENKKDGN 1609

Query: 188  RMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCC 247
            RMLLIEDNGGGM+P+KMR CMSLGYSAKSK ANTIGQYGNGFKTSTMRLGADVIVFS CC
Sbjct: 1610 RMLLIEDNGGGMDPEKMRQCMSLGYSAKSKIANTIGQYGNGFKTSTMRLGADVIVFSRCC 1669

Query: 248  GKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIV 307
            GKDGKSPT+SIGLLSYTFLRSTGKEDIVVPM+DYE   +EW K+IRSS  DWN+NVETI+
Sbjct: 1670 GKDGKSPTQSIGLLSYTFLRSTGKEDIVVPMIDYEKGGREWNKMIRSSASDWNKNVETIM 1729

Query: 308  QWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQN 367
            QWSPFSSE DLL QFN +K+HGTRIIIYNLWEDD G LELDFD+D  DIQ+RGVNRDE+N
Sbjct: 1730 QWSPFSSELDLLRQFNFIKEHGTRIIIYNLWEDDPGQLELDFDTDPKDIQIRGVNRDEKN 1789

Query: 368  IKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVT 427
            I+MA+ +PNSRHFLTYRHSLRSYASILYLRLPPGFRII+RGKDVEHHN+VNDMM++++VT
Sbjct: 1790 IQMAKQFPNSRHFLTYRHSLRSYASILYLRLPPGFRIILRGKDVEHHNVVNDMMMTQEVT 1849

Query: 428  YRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDG 487
            YRPQP A G+P DL+M   VTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNA+GSDG
Sbjct: 1850 YRPQPSADGVPKDLNMVAVVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNAAGSDG 1909

Query: 488  RGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYI 547
            RGVIGVLEANFVEPAHDKQGFERT VL+RLE RL+QMQK YW   CH+IGYAPRR KK I
Sbjct: 1910 RGVIGVLEANFVEPAHDKQGFERTIVLSRLETRLLQMQKTYWTTYCHKIGYAPRRNKKLI 1969

Query: 548  KDSYDREIS----------SKKSYPSRHKITDSSHSDKHQLHSNQRWEGKDSKRLPEASN 597
             +S  RE S           KK   +    T  S+ DKH  HSN +  G++ +R PE   
Sbjct: 1970 NES-ARETSPDYLPQTPSQPKKKVGASSGKTPLSNLDKHASHSNHKQGGRELERTPETVY 2028

Query: 598  YGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKI 657
                 GH SSK + +   P + R+  S   P SPSAED  DDD+  ++  R ANG   K 
Sbjct: 2029 QSHGNGHASSKQEKRTHMPTRPRKEQSSLVPSSPSAEDVDDDDVPAVLPEREANGRVHKA 2088

Query: 658  LAAEKSFGKDGLHRTHPSACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDC 717
              A  SFG+DG H+                     S R    SQSKG +VN   + L+  
Sbjct: 2089 SHANNSFGEDG-HQI--------------------STR----SQSKGDDVNGNSNSLA-- 2121

Query: 718  SLGANLGQLKQENHELKKRLEKKE--------GELQEERERCRSLEAQLKVMQQTIEELN 769
                 L QL++EN ELK+RL++KE        G+L++ERE+C+ LE +L+  +Q IE++N
Sbjct: 2122 -----LEQLREENCELKERLKRKEGDTVVALRGDLEKEREKCKLLETELQEARQKIEDMN 2176

Query: 770  KEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTPSIRAGR 826
            KEQ+SLIDIF+EERDRR+ EEENLRKK+++AS+TIQ+LL+++++LEKMKTP+ ++ R
Sbjct: 2177 KEQDSLIDIFSEERDRRDIEEENLRKKLREASNTIQELLERVRVLEKMKTPNGKSER 2233

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449440961|ref|XP_004138252.1| PREDICTED: uncharacterized protein LOC101222073 [Cucumis sativus]

 Score =  891 bits (2302), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 519/852 (60%), Positives = 614/852 (72%), Gaps = 65/852 (7%)

Query: 1   MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIELSSSSESNSGSDSDDVNEDAEGAGDK 60
           M  +VK+E++E  L       N   SN    FIELSS SES+S     +V +   G   +
Sbjct: 1   METSVKQELIEP-LPLQRTSNNHEASNSSPTFIELSSDSESDSEDSEQEVVDGILGVDTR 59

Query: 61  S--------GRPNKRRKMPQDLEVVLPVGFLEPLPAPER------LPAAAGNDKAVSVGL 106
           S        G P+K+R++  +LEVV P+GFL P    E+      LP +A        G 
Sbjct: 60  SVVPPNDVDGGPSKKRRL-NELEVVKPLGFLAPASLDEKHSMAVILPPSAEAGTVQETGT 118

Query: 107 Q-----SCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELL 161
                 +CKQFWKAGDYEGAP   WE ++GGMDHVRVHPKFLHSNATSHKWALGAFAELL
Sbjct: 119 SKANGSACKQFWKAGDYEGAPCSNWESTSGGMDHVRVHPKFLHSNATSHKWALGAFAELL 178

Query: 162 DNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANT 221
           DNSLDEV +GAT+ NIDML+N+KD ++MLLIEDNGGGM+P+KMRHCMSLGYS K+K A+T
Sbjct: 179 DNSLDEVSSGATHVNIDMLVNKKDRTKMLLIEDNGGGMSPEKMRHCMSLGYSEKTKLADT 238

Query: 222 IGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDY 281
           IGQYGNGFKTSTMRLGADVIVFS CCG+ GKS T+SIGLLSYTFLRSTGKEDIVVPMLDY
Sbjct: 239 IGQYGNGFKTSTMRLGADVIVFSRCCGQYGKSGTQSIGLLSYTFLRSTGKEDIVVPMLDY 298

Query: 282 EGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDD 341
           E    EW KI+RSSL+DWN+NV+T+VQWSPF++EA+LL QF +MKDHGTRIIIYNLWEDD
Sbjct: 299 ERKGGEWVKIVRSSLNDWNKNVDTVVQWSPFANEAELLRQFYMMKDHGTRIIIYNLWEDD 358

Query: 342 QGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPG 401
           QG LELDFD+D HDIQ+RGVNRDE++I+MA+ +PNSRHFLTYRHSLRSYASILYLRLPP 
Sbjct: 359 QGQLELDFDTDPHDIQIRGVNRDEKSIQMAKKFPNSRHFLTYRHSLRSYASILYLRLPPC 418

Query: 402 FRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPT------DLHMAVDVTIGFVKDA 455
           FRII+RG+DVEHHNIVNDMM+S++VTYRPQPGA G  T       + M   VTIGFVKDA
Sbjct: 419 FRIILRGRDVEHHNIVNDMMISQEVTYRPQPGADGAGTVGKDTNVILMVAVVTIGFVKDA 478

Query: 456 KHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLA 515
           KHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLA
Sbjct: 479 KHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLA 538

Query: 516 RLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREIS----SKKSYPSRHKITDSS 571
           RLEARLIQMQK YW + CH+IGYAPRR  K    + DRE S    S +  P   K + S 
Sbjct: 539 RLEARLIQMQKTYWCSYCHKIGYAPRRIDKPNSRTPDRESSPDDYSSQPPPQSKKKSTSF 598

Query: 572 HSDKHQLHSNQRWEGKDSKRLPEASNYGDRKGH-ESSKGKYKMKTP--VKYREGASVSEP 628
              K     ++ + GK++++  +  ++  R G+  SSK K    TP   K R   S SEP
Sbjct: 599 GGTK----PDKIYLGKETEKFQKTKDF--RYGNMHSSKEKNGSMTPDSEKSRTRPSSSEP 652

Query: 629 LSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVDSESQQDGA 688
            SPS  +   D+ H       ANG+       E   G D   R   S+    S++QQ G 
Sbjct: 653 PSPSGLEVRVDNHH----GGQANGTGN-----ETFHGNDVSMRMKASSNGGVSQAQQGGL 703

Query: 689 SGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKE---GELQ 745
                      ++ KG + N  E   S   L   L QLK+EN ELK+RL++KE   G+LQ
Sbjct: 704 -----------AKPKGGDTNDSERSPSSSDLHM-LQQLKEENEELKERLKRKEADHGKLQ 751

Query: 746 EERE-RCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTI 804
           +ERE RC+SLE+QL   +  IEEL+KEQESLIDIF+EERDRRE EE NLRKK+K+AS+TI
Sbjct: 752 DERERRCKSLESQLTAAELKIEELSKEQESLIDIFSEERDRRETEEHNLRKKLKEASNTI 811

Query: 805 QDLLDKIKLLEK 816
           Q+LLDKI++LEK
Sbjct: 812 QELLDKIQILEK 823

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|240256429|ref|NP_199891.4| Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase family protein [Arabidopsis thaliana] gi|332008608|gb|AED95991.1| Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase family protein [Arabidopsis thaliana]

 Score =  838 bits (2166), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 466/855 (54%), Positives = 571/855 (66%), Gaps = 96/855 (11%)

Query: 5   VKRE--ILETCLTTAEPKQNDSVSNKLVP----FIELSSSSE-SNSGSDSDDVNE----D 53
           VK+E  +  + L+T +P    +  NK +P     IELSSS+E S  G + D++ E    D
Sbjct: 5   VKQENPVTTSTLSTWKP----AARNKTIPPPESVIELSSSNEGSELGENLDEIAEIQSVD 60

Query: 54  AEGAGDKSGRPNKRRKM----PQDLEVVLPVGFLEPL------PAPERLPAAAGNDKAVS 103
             G  D SG    R        + L V++P    E L       A   LPA   N  A  
Sbjct: 61  RTGGDDVSGTKRARSDSIASPAKRLAVMIPDDDEEFLLSTTSGQAILALPATPCNVVAAP 120

Query: 104 VGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDN 163
               SCKQFWKAGDYEG   G WE S GG DHVRVHPKFLHSNATSHKW+LGAFAELLDN
Sbjct: 121 SSWGSCKQFWKAGDYEGTSGGDWEVSAGGFDHVRVHPKFLHSNATSHKWSLGAFAELLDN 180

Query: 164 SLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIG 223
           +LDEV +GAT+ N+DM+ NRKDGS+M+LIEDNGGGMNP+KMRHCMSLGYSAKSK A+TIG
Sbjct: 181 ALDEVRSGATFVNVDMIQNRKDGSKMILIEDNGGGMNPEKMRHCMSLGYSAKSKLADTIG 240

Query: 224 QYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEG 283
           QYGNGFKTSTMRLGADVIVFS C GKDGKS T+SIGLLSYTFL+STGKEDIVVPMLDYE 
Sbjct: 241 QYGNGFKTSTMRLGADVIVFSRCLGKDGKSSTQSIGLLSYTFLKSTGKEDIVVPMLDYER 300

Query: 284 SQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQG 343
              EW  I RSS+ DW +NVET+VQWSP+++E +LL QFNLMK HGTRIIIYNLWEDD+G
Sbjct: 301 RDSEWCPITRSSVSDWEKNVETVVQWSPYATEEELLCQFNLMKKHGTRIIIYNLWEDDEG 360

Query: 344 LLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFR 403
           +LELDFD+D HDIQLRGVNRD++NI MA  +PNSRH+LTY+HSLRSYASILYL++   FR
Sbjct: 361 MLELDFDTDPHDIQLRGVNRDDKNIVMASQFPNSRHYLTYKHSLRSYASILYLKISHEFR 420

Query: 404 IIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIP--TDLH-------------MAVDVT 448
           II+RGKDVEHHNIVNDMM ++K+TYRP+  A G    ++L+             ++  VT
Sbjct: 421 IILRGKDVEHHNIVNDMMQTEKITYRPKEAADGCAKYSNLYNLKIWLLVLHVSQLSAVVT 480

Query: 449 IGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGF 508
           IGFVKDAKHH+DVQGFNVYHKNRLIKPFWR+WNA+GSDGRGVIGVLEANFVEPAHDKQGF
Sbjct: 481 IGFVKDAKHHVDVQGFNVYHKNRLIKPFWRIWNAAGSDGRGVIGVLEANFVEPAHDKQGF 540

Query: 509 ERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSRHKIT 568
           ERTTVL+RLEARL+ MQKDYW + CH+IGYA R+ +K  KD                  T
Sbjct: 541 ERTTVLSRLEARLLHMQKDYWRSKCHKIGYAKRQGRKSAKD------------------T 582

Query: 569 DSSHSDKHQLHSNQRWEGKDSKRLPEASNYGDRKGHESSKGKY---KMKTPV---KYREG 622
           +    D+                  E+S   D KG  SS+ +      KTP    ++   
Sbjct: 583 EKDTEDR------------------ESSPEFDPKGSASSRKRTVPSSFKTPTAAPRFNTP 624

Query: 623 ASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVD-S 681
            + SE  +P +         V V+      SS+K      SF K         A  V+ +
Sbjct: 625 TAASEKFNPRSNVNGGGKGSVKVSKDIGYKSSEKGGKLGNSFSKSNKRAKPQGARAVEVT 684

Query: 682 ESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKE 741
            S  D     S  R       K SE+  P+      S    L QL+QEN+EL++RL+KKE
Sbjct: 685 NSDDDYDCDSSPERNVTELPGKSSELPKPQ------SGPRTLSQLEQENNELRERLDKKE 738

Query: 742 -------GELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLR 794
                   +L+ ERE  ++LEA+++ ++  ++E++KEQ SLID+FAE+RDRR++EEENLR
Sbjct: 739 EVFLLLQKDLRRERELRKTLEAEVETLKNKLKEMDKEQASLIDVFAEDRDRRDKEEENLR 798

Query: 795 KKIKDASDTIQDLLD 809
            K+++AS+TIQ L+D
Sbjct: 799 IKLEEASNTIQKLID 813

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9757986|dbj|BAA96991.2| unnamed protein product [Arabidopsis thaliana]

 Score =  824 bits (2129), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 459/844 (54%), Positives = 561/844 (66%), Gaps = 96/844 (11%)

Query: 5   VKRE--ILETCLTTAEPKQNDSVSNKLVP----FIELSSSSE-SNSGSDSDDVNE----D 53
           VK+E  +  + L+T +P    +  NK +P     IELSSS+E S  G + D++ E    D
Sbjct: 5   VKQENPVTTSTLSTWKP----AARNKTIPPPESVIELSSSNEGSELGENLDEIAEIQSVD 60

Query: 54  AEGAGDKSGRPNKRRKM----PQDLEVVLPVGFLEPL------PAPERLPAAAGNDKAVS 103
             G  D SG    R        + L V++P    E L       A   LPA   N  A  
Sbjct: 61  RTGGDDVSGTKRARSDSIASPAKRLAVMIPDDDEEFLLSTTSGQAILALPATPCNVVAAP 120

Query: 104 VGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDN 163
               SCKQFWKAGDYEG   G WE S GG DHVRVHPKFLHSNATSHKW+LGAFAELLDN
Sbjct: 121 SSWGSCKQFWKAGDYEGTSGGDWEVSAGGFDHVRVHPKFLHSNATSHKWSLGAFAELLDN 180

Query: 164 SLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIG 223
           +LDEV +GAT+ N+DM+ NRKDGS+M+LIEDNGGGMNP+KMRHCMSLGYSAKSK A+TIG
Sbjct: 181 ALDEVRSGATFVNVDMIQNRKDGSKMILIEDNGGGMNPEKMRHCMSLGYSAKSKLADTIG 240

Query: 224 QYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEG 283
           QYGNGFKTSTMRLGADVIVFS C GKDGKS T+SIGLLSYTFL+STGKEDIVVPMLDYE 
Sbjct: 241 QYGNGFKTSTMRLGADVIVFSRCLGKDGKSSTQSIGLLSYTFLKSTGKEDIVVPMLDYER 300

Query: 284 SQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQG 343
              EW  I RSS+ DW +NVET+VQWSP+++E +LL QFNLMK HGTRIIIYNLWEDD+G
Sbjct: 301 RDSEWCPITRSSVSDWEKNVETVVQWSPYATEEELLCQFNLMKKHGTRIIIYNLWEDDEG 360

Query: 344 LLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFR 403
           +LELDFD+D HDIQLRGVNRD++NI MA  +PNSRH+LTY+HSLRSYASILYL++   FR
Sbjct: 361 MLELDFDTDPHDIQLRGVNRDDKNIVMASQFPNSRHYLTYKHSLRSYASILYLKISHEFR 420

Query: 404 IIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIP--TDLH-------------MAVDVT 448
           II+RGKDVEHHNIVNDMM ++K+TYRP+  A G    ++L+             ++  VT
Sbjct: 421 IILRGKDVEHHNIVNDMMQTEKITYRPKEAADGCAKYSNLYNLKIWLLVLHVSQLSAVVT 480

Query: 449 IGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGF 508
           IGFVKDAKHH+DVQGFNVYHKNRLIKPFWR+WNA+GSDGRGVIGVLEANFVEPAHDKQGF
Sbjct: 481 IGFVKDAKHHVDVQGFNVYHKNRLIKPFWRIWNAAGSDGRGVIGVLEANFVEPAHDKQGF 540

Query: 509 ERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSRHKIT 568
           ERTTVL+RLEARL+ MQKDYW + CH+IGYA R+ +K  KD                  T
Sbjct: 541 ERTTVLSRLEARLLHMQKDYWRSKCHKIGYAKRQGRKSAKD------------------T 582

Query: 569 DSSHSDKHQLHSNQRWEGKDSKRLPEASNYGDRKGHESSKGKY---KMKTPV---KYREG 622
           +    D+                  E+S   D KG  SS+ +      KTP    ++   
Sbjct: 583 EKDTEDR------------------ESSPEFDPKGSASSRKRTVPSSFKTPTAAPRFNTP 624

Query: 623 ASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHPSACLVD-S 681
            + SE  +P +         V V+      SS+K      SF K         A  V+ +
Sbjct: 625 TAASEKFNPRSNVNGGGKGSVKVSKDIGYKSSEKGGKLGNSFSKSNKRAKPQGARAVEVT 684

Query: 682 ESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKE 741
            S  D     S  R       K SE+  P+      S    L QL+QEN+EL++RL+KKE
Sbjct: 685 NSDDDYDCDSSPERNVTELPGKSSELPKPQ------SGPRTLSQLEQENNELRERLDKKE 738

Query: 742 -------GELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLR 794
                   +L+ ERE  ++LEA+++ ++  ++E++KEQ SLID+FAE+RDRR++EEENLR
Sbjct: 739 EVFLLLQKDLRRERELRKTLEAEVETLKNKLKEMDKEQASLIDVFAEDRDRRDKEEENLR 798

Query: 795 KKIK 798
            K++
Sbjct: 799 IKLE 802

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449501464|ref|XP_004161374.1| PREDICTED: uncharacterized LOC101222073 [Cucumis sativus]

 Score =  816 bits (2109), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/589 (69%), Positives = 467/589 (79%), Gaps = 28/589 (4%)

Query: 1   MNVNVKREILETCLTTAEPKQNDSVSNKLVPFIELSSSSESNSGSDSDDVNEDAEGAGDK 60
           M  +VK+E++E  L       N   SN    FIELSS SES+S     +V +   G   +
Sbjct: 1   METSVKQELIEP-LPLQRTSNNHEASNSSPTFIELSSDSESDSEDSEQEVVDGILGVDTR 59

Query: 61  S--------GRPNKRRKMPQDLEVVLPVGFLEPLPAPER------LPAAAGNDKAVSVGL 106
           S        G P+K+R++  +LEVV P+GFL P    E+      LP +A        G 
Sbjct: 60  SVVPPNDVDGGPSKKRRL-NELEVVKPLGFLAPASLDEKHSMAVILPPSAEAGTVQETGT 118

Query: 107 Q-----SCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELL 161
                 +CKQFWKAGDYEGAP   WE ++GGMDHVRVHPKFLHSNATSHKWALGAFAELL
Sbjct: 119 SKANGSACKQFWKAGDYEGAPCSNWESTSGGMDHVRVHPKFLHSNATSHKWALGAFAELL 178

Query: 162 DNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANT 221
           DNSLDEV +GAT+ NIDML+N+KD ++MLLIEDNGGGM+P+KMRHCMSLGYS K+K A+T
Sbjct: 179 DNSLDEVSSGATHVNIDMLVNKKDRTKMLLIEDNGGGMSPEKMRHCMSLGYSEKTKLADT 238

Query: 222 IGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDY 281
           IGQYGNGFKTSTMRLGADVIVFS CCG+ GKS T+SIGLLSYTFLRSTGKEDIVVPMLDY
Sbjct: 239 IGQYGNGFKTSTMRLGADVIVFSRCCGQYGKSGTQSIGLLSYTFLRSTGKEDIVVPMLDY 298

Query: 282 EGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDD 341
           E    EW KI+RSSL+DWN+NV+T+VQWSPF++EA+LL QF +MKDHGTRIIIYNLWEDD
Sbjct: 299 ERKGGEWVKIVRSSLNDWNKNVDTVVQWSPFANEAELLRQFYMMKDHGTRIIIYNLWEDD 358

Query: 342 QGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPG 401
           QG LELDFD+D HDIQ+RGVNRDE++I+MA+ +PNSRHFLTYRHSLRSYASILYLRLPP 
Sbjct: 359 QGQLELDFDTDPHDIQIRGVNRDEKSIQMAKKFPNSRHFLTYRHSLRSYASILYLRLPPC 418

Query: 402 FRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPT------DLHMAVDVTIGFVKDA 455
           FRII+RG+DVEHHNIVNDMM+S++VTYRPQPGA G  T       + M   VTIGFVKDA
Sbjct: 419 FRIILRGRDVEHHNIVNDMMISQEVTYRPQPGADGAGTVGKDTNVILMVAVVTIGFVKDA 478

Query: 456 KHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLA 515
           KHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLA
Sbjct: 479 KHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLA 538

Query: 516 RLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYPSR 564
           RLEARLIQMQK YW + CH+IGYAPRR  K    + DRE SS   Y S+
Sbjct: 539 RLEARLIQMQKTYWCSYCHKIGYAPRRIDKPNSRTPDRE-SSPDDYSSQ 586

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356511518|ref|XP_003524472.1| PREDICTED: uncharacterized protein LOC100786679 [Glycine max]

 Score =  810 bits (2091), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 413/615 (67%), Positives = 472/615 (76%), Gaps = 33/615 (5%)

Query: 1   MNVNVKREILETCLTTAEPKQNDSVSNKLVP--FIELSSS-SESNSGSDSDDVNEDA-EG 56
           M+V VK E+LET + T E +    V +   P   IELS S ++ + G D D    +A  G
Sbjct: 30  MDVCVKEEVLETPIVT-ERRPRTGVVSAPPPGSVIELSDSDTDEDEGHDLDSAVANAVNG 88

Query: 57  AGDKSGRPNKRRKMPQDLEVVLPVGF----------------LEPLPAPERLP--AAAGN 98
           A      P+K+R+  +   VVLPVGF                +  LPAPE      A+  
Sbjct: 89  ASSSVESPSKKRRTSEAGGVVLPVGFLTPLPPAPAPTPPPTAVLSLPAPEWASNSTASRA 148

Query: 99  DKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFA 158
           + + S+ L S KQFWKAGDY+GAP GG   ST GMDHVRVHPKFLHSNATSHKWALGA A
Sbjct: 149 NASKSLSLNSSKQFWKAGDYDGAPLGGSGSSTVGMDHVRVHPKFLHSNATSHKWALGALA 208

Query: 159 ELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA 218
           ELLDNSLDEVC+GATY N+DML N+KDG+RMLLIEDNGGGM+P+KMR CMSLGYS KSK 
Sbjct: 209 ELLDNSLDEVCSGATYVNVDMLTNKKDGTRMLLIEDNGGGMDPEKMRQCMSLGYSVKSKM 268

Query: 219 ANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPM 278
           ANTIGQYGNGFKTSTMRLGADVIVFS   GKD KS ++SIGLLSYTFLRSTGKEDIVVPM
Sbjct: 269 ANTIGQYGNGFKTSTMRLGADVIVFSRYPGKDMKSSSQSIGLLSYTFLRSTGKEDIVVPM 328

Query: 279 LDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLW 338
           LDYE   QEW KIIR+SLDDW++NVETIVQWSPFS+EADLL QFNL+KDHGTR+IIYNLW
Sbjct: 329 LDYERRGQEWNKIIRTSLDDWDKNVETIVQWSPFSNEADLLRQFNLVKDHGTRVIIYNLW 388

Query: 339 EDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRL 398
           EDDQG LELDFD D HDIQ+RGVNRDE+NI+MA+ +PNSRHFLTYRHSLRSYASILYLRL
Sbjct: 389 EDDQGQLELDFDEDPHDIQIRGVNRDEKNIQMAKEFPNSRHFLTYRHSLRSYASILYLRL 448

Query: 399 PPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASG-IPTDLHMAVDVTIGFVKDAKH 457
           PPGFRII+RGKD+ HHNIVNDMM+S++VTYRPQ G  G +P D +M   VTIGFVKDA H
Sbjct: 449 PPGFRIILRGKDILHHNIVNDMMMSQEVTYRPQAGVDGLLPKDSNMVAVVTIGFVKDAVH 508

Query: 458 HIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARL 517
           HIDV GFNVYHKNRLIKPFWR+WN +GS GRGVIGVLEANFVEPAHDKQGFERT VL+RL
Sbjct: 509 HIDVSGFNVYHKNRLIKPFWRIWNPAGSGGRGVIGVLEANFVEPAHDKQGFERTLVLSRL 568

Query: 518 EARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREIS---------SKKSYPSRHKIT 568
           E++LIQMQK YW+ NC++IGYA  R K  I+DS D+E S         SK+ Y +     
Sbjct: 569 ESKLIQMQKKYWSTNCYKIGYASNRSKIQIRDSADKEASADYFPESSQSKRKYSTTDGKA 628

Query: 569 DSSHSDKHQLHSNQR 583
               SDK   +SNQ+
Sbjct: 629 PPLTSDKLHSYSNQK 643

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	826
TAIR|locus:2117358	707	AT4G24970 [Arabidopsis thalian	0.585	0.684	0.746	3.8e-216
TAIR|locus:2163320	819	AT5G50780 [Arabidopsis thalian	0.549	0.554	0.742	7.7e-207
TAIR|locus:2179837	708	AT5G13130 [Arabidopsis thalian	0.530	0.618	0.644	2.8e-165
TAIR|locus:2122264	635	CRT1 "compromised recognition	0.509	0.662	0.517	4.7e-116
TAIR|locus:2122254	626	CRH1 "CRT1 Homologue 1" [Arabi	0.508	0.670	0.511	3.2e-113
TAIR|locus:2011226	663	DMS11 "DEFECTIVE IN MERISTEM S	0.5	0.622	0.516	5.5e-109
TAIR|locus:2122244	486	AT4G36270 "AT4G36270" [Arabido	0.389	0.662	0.446	7.2e-68
ZFIN|ZDB-GENE-060929-544	422	zgc:152774 "zgc:152774" [Danio	0.473	0.926	0.334	8.9e-51
ZFIN|ZDB-GENE-030131-1502	1079	morc3a "MORC family CW-type zi	0.450	0.344	0.353	1.5e-50
ZFIN|ZDB-GENE-040801-98	763	morc3b "MORC family CW-type zi	0.273	0.296	0.361	1.1e-42

TAIR|locus:2117358 AT4G24970 [Arabidopsis thaliana (taxid:3702)]

 Score = 1955 (693.3 bits), Expect = 3.8e-216, Sum P(2) = 3.8e-216
 Identities = 368/493 (74%), Positives = 415/493 (84%)

Query:   109 CKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEV 168
             CKQFWKAGDYEGA    W+ S+GG DHVRVHPKFLHSNATSHKWALGAFAELLDN+LDEV
Sbjct:   135 CKQFWKAGDYEGAAGDNWDLSSGGFDHVRVHPKFLHSNATSHKWALGAFAELLDNALDEV 194

Query:   169 CNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG 228
              +GATY  +DML N K G+RMLLIEDNGGGM+P+KMR CMSLGYSAKSK ANTIGQYGNG
Sbjct:   195 ASGATYVKVDMLENNKGGNRMLLIEDNGGGMDPEKMRQCMSLGYSAKSKLANTIGQYGNG 254

Query:   229 FKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEW 288
             FKTSTMRLGADVIVFS C GKDGKS T+SIGLLSYTFLRSTGKEDIVVPMLDYE    EW
Sbjct:   255 FKTSTMRLGADVIVFSRCPGKDGKSSTQSIGLLSYTFLRSTGKEDIVVPMLDYERRDPEW 314

Query:   289 KKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELD 348
              KIIRSS  DW++NVETI+QWSPFSSE DLLHQF+LMKD GTRIIIYNLWEDDQG+LELD
Sbjct:   315 SKIIRSSTRDWDKNVETIIQWSPFSSEEDLLHQFDLMKDRGTRIIIYNLWEDDQGMLELD 374

Query:   349 FDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRG 408
             FD+D +DIQLRGVNR+E+NIKMA  +PNSRHFLTY+HSLRSY SILYLR+PPGFRII+RG
Sbjct:   375 FDADPYDIQLRGVNREERNIKMASQFPNSRHFLTYKHSLRSYVSILYLRIPPGFRIILRG 434

Query:   409 KDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYH 468
              DVEHH++VNDMM ++++TYRPQ  + G+ T+  M+  V IGFVKDAKHH+DVQGFNVYH
Sbjct:   435 IDVEHHSVVNDMMQTEQITYRPQSESYGVVTN--MSAIVIIGFVKDAKHHVDVQGFNVYH 492

Query:   469 KNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDY 528
             KNRLIKPFWR+WNA+GSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLE+RL+QMQK Y
Sbjct:   493 KNRLIKPFWRIWNATGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLESRLVQMQKTY 552

Query:   529 WNNNCHEIGYAPRRYKK--YIKDSYDREISSKKSYPSRHKI----TDSSHSDKHQLHSNQ 582
             W+ NCH+IGYAPRR +K  Y  D+ D    + +  PS  K     +D  +S  +  H+  
Sbjct:   553 WSTNCHKIGYAPRRREKSAYGYDNRDSSPENDREGPSSIKTPTPASDKFYSSSYPNHNGD 612

Query:   583 RW-EGKDSKRLPE 594
                 GKD  RL E
Sbjct:   613 NGVSGKDGARLQE 625

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2163320 AT5G50780 [Arabidopsis thaliana (taxid:3702)]

 Score = 1877 (665.8 bits), Expect = 7.7e-207, Sum P(2) = 7.7e-207
 Identities = 349/470 (74%), Positives = 400/470 (85%)

Query:   108 SCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDE 167
             SCKQFWKAGDYEG   G WE S GG DHVRVHPKFLHSNATSHKW+LGAFAELLDN+LDE
Sbjct:   125 SCKQFWKAGDYEGTSGGDWEVSAGGFDHVRVHPKFLHSNATSHKWSLGAFAELLDNALDE 184

Query:   168 VCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGN 227
             V +GAT+ N+DM+ NRKDGS+M+LIEDNGGGMNP+KMRHCMSLGYSAKSK A+TIGQYGN
Sbjct:   185 VRSGATFVNVDMIQNRKDGSKMILIEDNGGGMNPEKMRHCMSLGYSAKSKLADTIGQYGN 244

Query:   228 GFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQE 287
             GFKTSTMRLGADVIVFS C GKDGKS T+SIGLLSYTFL+STGKEDIVVPMLDYE    E
Sbjct:   245 GFKTSTMRLGADVIVFSRCLGKDGKSSTQSIGLLSYTFLKSTGKEDIVVPMLDYERRDSE 304

Query:   288 WKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLEL 347
             W  I RSS+ DW +NVET+VQWSP+++E +LL QFNLMK HGTRIIIYNLWEDD+G+LEL
Sbjct:   305 WCPITRSSVSDWEKNVETVVQWSPYATEEELLCQFNLMKKHGTRIIIYNLWEDDEGMLEL 364

Query:   348 DFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIR 407
             DFD+D HDIQLRGVNRD++NI MA  +PNSRH+LTY+HSLRSYASILYL++   FRII+R
Sbjct:   365 DFDTDPHDIQLRGVNRDDKNIVMASQFPNSRHYLTYKHSLRSYASILYLKISHEFRIILR 424

Query:   408 GKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTD------------LH---MAVDVTIGFV 452
             GKDVEHHNIVNDMM ++K+TYRP+  A G                LH   ++  VTIGFV
Sbjct:   425 GKDVEHHNIVNDMMQTEKITYRPKEAADGCAKYSNLYNLKIWLLVLHVSQLSAVVTIGFV 484

Query:   453 KDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTT 512
             KDAKHH+DVQGFNVYHKNRLIKPFWR+WNA+GSDGRGVIGVLEANFVEPAHDKQGFERTT
Sbjct:   485 KDAKHHVDVQGFNVYHKNRLIKPFWRIWNAAGSDGRGVIGVLEANFVEPAHDKQGFERTT 544

Query:   513 VLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKDSYDREISSKKSYP 562
             VL+RLEARL+ MQKDYW + CH+IGYA R+ +K  KD+ +++   ++S P
Sbjct:   545 VLSRLEARLLHMQKDYWRSKCHKIGYAKRQGRKSAKDT-EKDTEDRESSP 593

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2179837 AT5G13130 [Arabidopsis thaliana (taxid:3702)]

 Score = 1547 (549.6 bits), Expect = 2.8e-165, Sum P(2) = 2.8e-165
 Identities = 285/442 (64%), Positives = 352/442 (79%)

Query:   110 KQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVC 169
             +QFWKAGD + A       S      VRVHP+FLH+NATSHKWALGA AELLDNSLDEV 
Sbjct:    76 RQFWKAGDDDEAAPVPLYCSNDAA--VRVHPQFLHANATSHKWALGALAELLDNSLDEVS 133

Query:   170 NGATYSNIDMLINRKDG-SRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG 228
             NGATY ++D  IN++DG S +L++EDNGGGMNP   R C+SLGYS K   AN +GQYGNG
Sbjct:   134 NGATYVHVDSTINKRDGKSSILIVEDNGGGMNPSTFRECLSLGYSRKRNMANRVGQYGNG 193

Query:   229 FKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEW 288
             FKTSTMRLGAD IVFS   G +G +PT+SIG+LSYTFL  T K + +VP +DYE    +W
Sbjct:   194 FKTSTMRLGADAIVFSRSRGINGNNPTQSIGMLSYTFLYETRKCEAIVPTVDYELVDNKW 253

Query:   289 KKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELD 348
             K+I+ +S ++W  N+ETI++WSP+ S+ DLL QFN +++ GTRI+IYNLWEDD+G +ELD
Sbjct:   254 KEIVYNSTNEWLDNLETILRWSPYLSQQDLLDQFNHLEEQGTRIVIYNLWEDDEGKMELD 313

Query:   349 FDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRG 408
             FD+D HDIQLRGVNRDE+NI MA+ YPNSRHFLTYRHSLRSYASILYL+ P  FRII+RG
Sbjct:   314 FDTDPHDIQLRGVNRDEKNIDMAKTYPNSRHFLTYRHSLRSYASILYLKRPDNFRIILRG 373

Query:   409 KDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYH 468
             +DVEHH++++DMM  ++ TY+P       P    M   + +GFVKDA HHID+QGFNVYH
Sbjct:   374 EDVEHHSVLDDMMKIEEKTYKPMRSPEW-PDQEEMVASLKLGFVKDAHHHIDIQGFNVYH 432

Query:   469 KNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDY 528
             KNRLIKPFWR+WNA+GSDGRGVIG+LEANF++PAH+KQGFERT VLA+LE+RL+  QK+Y
Sbjct:   433 KNRLIKPFWRVWNAAGSDGRGVIGILEANFIQPAHNKQGFERTVVLAKLESRLVTHQKNY 492

Query:   529 WNNNCHEIGYAPRRYKKYIKDS 550
             W++ CHEIGYAPRR +K  + S
Sbjct:   493 WSSRCHEIGYAPRRKQKNYESS 514

GO:0005524 "ATP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2122264 CRT1 "compromised recognition of TCV 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1127 (401.8 bits), Expect = 4.7e-116, Sum P(2) = 4.7e-116
 Identities = 223/431 (51%), Positives = 296/431 (68%)

Query:   109 CKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEV 168
             C+ FWKAG+    PS     + G ++H RVHPKFLHSNATSHKWA GA AELLDN++DE+
Sbjct:    58 CRSFWKAGENFVIPSSVTLTAIGMVEHARVHPKFLHSNATSHKWAFGAIAELLDNAVDEI 117

Query:   169 CNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG 228
              NGAT   ID +   KD +  L+ +DNGGGM+P+ +R CMSLGYS+K K+  TIGQYGNG
Sbjct:   118 QNGATVVKIDKINIVKDNTPALVFQDNGGGMDPNGIRKCMSLGYSSK-KSNTTIGQYGNG 176

Query:   229 FKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEW 288
             FKTSTMRLGAD +VFS    + GKS T+SIGLLSYTFLR TG++D++VPM+D++ S    
Sbjct:   177 FKTSTMRLGADAMVFSRST-RGGKS-TQSIGLLSYTFLRKTGQDDVIVPMIDFDISSDSP 234

Query:   289 KKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELD 348
             + II  S  DW+ N+  +++WSPFS+  +LL QF  +  HGT++IIYNLW +D+G+ EL 
Sbjct:   235 QPIIYGSPGDWSTNLNILLKWSPFSTMVELLQQFEDIGTHGTKVIIYNLWLNDEGIYELS 294

Query:   349 FDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHF-LTYRHSLRSYASILYLRLPPGFRIIIR 407
             FD D  DI+LR  N  +     A+      H    YRHSLR+Y S+LYL+    F+II+R
Sbjct:   295 FDDDDVDIRLRDENAQDGKRLHAKTLEVRSHISYRYRHSLRAYISMLYLKKFKNFKIILR 354

Query:   408 GKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVY 467
             G  V   NI ++    + + Y+PQ  A     D + A  + +GF+K+A   + + GFNVY
Sbjct:   355 GVSVAQFNIADEFRHPETIMYKPQAAA----VD-YAATGIKVGFIKEAPK-LPICGFNVY 408

Query:   468 HKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKD 527
             HKNRLI+PFW++     + G GV+GVLEANF+EPAHDKQ FER+++  RLEARL ++  D
Sbjct:   409 HKNRLIRPFWKVVLEGSTRGNGVMGVLEANFIEPAHDKQDFERSSLFLRLEARLKRITSD 468

Query:   528 YWNNNCHEIGY 538
             YW N+CH  GY
Sbjct:   469 YWQNHCHIFGY 479

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005515 "protein binding" evidence=IPI

GO:0005768 "endosome" evidence=IDA

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IGI

GO:0031935 "regulation of chromatin silencing" evidence=IMP

TAIR|locus:2122254 CRH1 "CRT1 Homologue 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 1117 (398.3 bits), Expect = 3.2e-113, P = 3.2e-113
 Identities = 221/432 (51%), Positives = 301/432 (69%)

Query:   109 CKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEV 168
             C+ FWKAGDY   P+     + G ++H RVHP+FLHSNATSHKWA GA AELLDN++DE+
Sbjct:    50 CRSFWKAGDYFVIPNVVTPTAPGMLEHARVHPRFLHSNATSHKWAFGAIAELLDNAVDEI 109

Query:   169 CNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG 228
              NGAT+  ID +   KD S  L+ +D+GGGM+P  +R CMSLGYS+K K+  TIGQYGNG
Sbjct:   110 QNGATFVKIDKINIVKDNSPALVFQDDGGGMDPAGLRKCMSLGYSSK-KSNTTIGQYGNG 168

Query:   229 FKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEW 288
             FKTSTMRLGAD IVFS    + G S T+S+G+LSYTFLR TG++D+ VPM+D + S++  
Sbjct:   169 FKTSTMRLGADAIVFSRST-RGGTS-TQSVGILSYTFLRKTGQDDVTVPMIDIDISKERP 226

Query:   289 KKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELD 348
             + II  S +DW  N+E +++WSPFS+E +LL QF  +  HGT++IIYNLW +D+G+ EL 
Sbjct:   227 QPIIYGSPEDWAANLEILLKWSPFSTEDELLQQFEDVGTHGTKVIIYNLWLNDEGIYELS 286

Query:   349 FDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTY--RHSLRSYASILYLRLPPGFRIII 406
             FD D+ DI+LR  + ++   ++       R  ++Y  R+SLR+YAS+LYL+    F+III
Sbjct:   287 FDDDEEDIRLRDESVNDGK-RLHHKILELRSHISYHLRYSLRAYASMLYLKKFKNFKIII 345

Query:   407 RGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNV 466
             RG  VE  NI +     + + Y+P        T    + ++ IGFVK+A   + + GFNV
Sbjct:   346 RGIPVEQFNIADGFRFPEIIKYKPHTA-----TTEQASTEIKIGFVKEAPK-LAICGFNV 399

Query:   467 YHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQK 526
             YHKNRLI+PFW++     S G GV+GVLEANF+EPAHDKQ FER+++  RLEARL ++  
Sbjct:   400 YHKNRLIRPFWKVTMGGDSTGHGVVGVLEANFIEPAHDKQDFERSSLFQRLEARLKKIVY 459

Query:   527 DYWNNNCHEIGY 538
              YW ++CH +GY
Sbjct:   460 SYWYSHCHLLGY 471

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2011226 DMS11 "DEFECTIVE IN MERISTEM SILENCING 11" [Arabidopsis thaliana (taxid:3702)]

 Score = 1077 (384.2 bits), Expect = 5.5e-109, P = 5.5e-109
 Identities = 223/432 (51%), Positives = 298/432 (68%)

Query:   109 CKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEV 168
             C+QFWKAG Y    S   +    G +++ VHP FLHSNATSHKWA GA AELLDN++DE+
Sbjct:    86 CRQFWKAGSYNDELSSKSQ-QPNGKNYLHVHPMFLHSNATSHKWAFGAVAELLDNAVDEI 144

Query:   169 CNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG 228
              NGAT+  +D   N +DG+  LLI+D+GGGM+P  MRHCM  G+S K K+ + IG+YGNG
Sbjct:   145 QNGATFVIVDKTTNPRDGATALLIQDDGGGMDPQAMRHCMGFGFSDK-KSDSAIGRYGNG 203

Query:   229 FKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPMLDYE--GSQQ 286
             FKTSTMRLGADVIVFS       ++ T+SIGLLSYT+L  TG + IVVP+LDYE   S  
Sbjct:   204 FKTSTMRLGADVIVFSR--HSKNQTLTQSIGLLSYTYLTRTGHDRIVVPILDYEFNASAG 261

Query:   287 EWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLE 346
             E+K +     + +  ++  +++WSPFS+EA+LL QF+ +  HGT++IIYN+W +    LE
Sbjct:   262 EFKTL--QDREHFISSLSILLEWSPFSTEAELLQQFDDVGPHGTKVIIYNMWLNSDAKLE 319

Query:   347 LDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIII 406
             LDFDS   DI + G  + +   K+   +  SR    + +SLR Y SILYLR+P  F+II+
Sbjct:   320 LDFDSVAEDILIEGSIK-KTGSKIVNDHIASR----FSYSLRVYLSILYLRIPETFKIIL 374

Query:   407 RGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNV 466
             RGK VEHHN+ +D+M  + + Y+PQ  A+G    L   V  TIGF+K+A   +++ GF V
Sbjct:   375 RGKVVEHHNVADDLMHPQYILYKPQ--AAGSEEAL---VVTTIGFLKEAPK-VNLHGFCV 428

Query:   467 YHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQK 526
             YHKNRLI PFW++ N S S GRGV+GVLEANFVEP H+KQ FE+T +L +LE RL +M  
Sbjct:   429 YHKNRLIMPFWQVINYSSSRGRGVVGVLEANFVEPTHNKQDFEKTVLLQKLENRLKEMTV 488

Query:   527 DYWNNNCHEIGY 538
             +YW+ +C  IGY
Sbjct:   489 EYWSCHCVLIGY 500

GO:0005634 "nucleus" evidence=ISM

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0031935 "regulation of chromatin silencing" evidence=IMP

GO:0016887 "ATPase activity" evidence=IDA

GO:0080188 "RNA-directed DNA methylation" evidence=IMP

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0009855 "determination of bilateral symmetry" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0010051 "xylem and phloem pattern formation" evidence=RCA

GO:0031048 "chromatin silencing by small RNA" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

GO:0048439 "flower morphogenesis" evidence=RCA

GO:0048519 "negative regulation of biological process" evidence=RCA

TAIR|locus:2122244 AT4G36270 "AT4G36270" [Arabidopsis thaliana (taxid:3702)]

 Score = 689 (247.6 bits), Expect = 7.2e-68, P = 7.2e-68
 Identities = 156/349 (44%), Positives = 219/349 (62%)

Query:   199 MNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSI 258
             M+PD +R CMSLGYS+K K+  TIGQYGNGFKTSTMRLGAD IVF+    + GKS T+S+
Sbjct:     1 MDPDGLRKCMSLGYSSK-KSNTTIGQYGNGFKTSTMRLGADDIVFTRST-RGGKS-TQSV 57

Query:   259 GLLSYTFLRSTGKEDIVVPMLDY------EGSQQEWKKIIRSSLDDWNRNVETIVQWSPF 312
             GLLSYTFLR TG++D+VVPM+ Y      + S++  + II  S +DW  ++E I++WSPF
Sbjct:    58 GLLSYTFLRKTGQDDVVVPMIRYAMQIDIDTSKERPQPIIYGSAEDWAASLEIILKWSPF 117

Query:   313 SSEADLLHQFNLMKDHGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQ 372
             S+E +L  Q +++       + +        L ++     K  I    +N DE   +++ 
Sbjct:   118 STEGELWQQRSVL-------LTFLFPSSTHQLEDIGTHGTKVIIYNLWLN-DEGIYELSF 169

Query:   373 HYPNSRHFL---TYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYR 429
             H  N    L   +   S R+YAS+LYL+    F+II+RG  VE  NI +++ L + + Y 
Sbjct:   170 HDDNEDIRLRDESVHDSKRAYASMLYLKRFNNFKIILRGIPVEQFNIADELRLPETIKYN 229

Query:   430 PQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRG 489
             P       PT+      + +GF+K+A   + V GFNVYHKNRLI+PFW++       G G
Sbjct:   230 PHTTKEKAPTE------IKVGFIKEAPK-LAVCGFNVYHKNRLIRPFWKVTMGGERRGSG 282

Query:   490 VIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGY 538
             V+GVLEANF+EPAHDKQ FER+++  RLEARL ++  +YWN +CH  GY
Sbjct:   283 VVGVLEANFIEPAHDKQDFERSSLFQRLEARLKKIVSNYWNTHCHVFGY 331

GO:0005524 "ATP binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-060929-544 zgc:152774 "zgc:152774" [Danio rerio (taxid:7955)]

 Score = 529 (191.3 bits), Expect = 8.9e-51, P = 8.9e-51
 Identities = 145/433 (33%), Positives = 230/433 (53%)

Query:   140 PKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDM-LINRKDGSRMLLIEDNGGG 198
             P +L SN+TSH W   A AEL+DN+ D    G T  NI + ++  +D    L   DNG G
Sbjct:    16 PSYLESNSTSHTWPFSAVAELIDNASDP---GVTAKNIWIDVVTVRD-QLCLSFTDNGSG 71

Query:   199 MNPDKMRHCMSLGYSAK--SKAANT-IGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPT 255
             M P K+   +S G++ K  SK+++  IG YGNGFK+ +MRLG D ++F+    K+G    
Sbjct:    72 MTPSKLHKMLSFGFTEKGSSKSSHQPIGVYGNGFKSGSMRLGRDALIFT----KNGGC-- 125

Query:   256 RSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSE 315
             +S+G+LS +FL++   + ++VP+  +  +QQ    ++    +D   ++  I+++S F SE
Sbjct:   126 QSVGMLSQSFLQAIKAQAVIVPIAPF--NQQTNALVVT---EDSEASLRAILKYSLFQSE 180

Query:   316 ADLLHQFNLMKDH-GTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQHY 374
             ++L  Q + ++   GT+I+I+N+  +     E DFDSD  DI+L  +  ++   K  + Y
Sbjct:   181 SELQEQLDSIQGKKGTKILIWNIRRNKDEKPEFDFDSDVEDIRLPEIRSEDMQGKWRRDY 240

Query:   375 PNSRHFLT----YRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRP 430
                R   +       SLR+Y SILYL+  P  +II+R + V+   +   + + +   Y+P
Sbjct:   241 YKQRRDTSSTPEMEFSLRAYLSILYLK--PRIQIILRQRKVQTKLVARSLSMIENDVYKP 298

Query:   431 QPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLW---NASGS-D 486
             Q         ++  V +T GF    K H    G  +YHKNRLIK + ++     +SG   
Sbjct:   299 Q--------FINERVKITFGFNGKNKEHF---GIMMYHKNRLIKAYEKVGCQIKSSGQRS 347

Query:   487 GRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGYAPRRYKKY 546
             G GVIGV+E NF++PAH+KQ FE T       A L     DYW     E     R ++  
Sbjct:   348 GVGVIGVIECNFLKPAHNKQDFEYTKEYRLTLAALGLKLNDYWREK-KEKKAKERAFQAL 406

Query:   547 IKDSYDREISSKK 559
              + S + +   KK
Sbjct:   407 ERKSQEGDTEEKK 419

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

ZFIN|ZDB-GENE-030131-1502 morc3a "MORC family CW-type zinc finger 3a" [Danio rerio (taxid:7955)]

 Score = 542 (195.9 bits), Expect = 1.5e-50, Sum P(3) = 1.5e-50
 Identities = 146/413 (35%), Positives = 219/413 (53%)

Query:   138 VHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGG 197
             ++PKFLH+N+TSH W   A AEL+DN+ D   +   +  ID    R  G   L+  DNG 
Sbjct:    14 LNPKFLHTNSTSHTWPFSAIAELIDNAYDPDVSAKQFW-IDKTAIR--GEDCLIFMDNGS 70

Query:   198 GMNPDKMRHCMSLGYSAKSKAAN--TIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPT 255
             GM+ DKM   +S G+S K        +G YGNGFK+ +MRLG D IVFS    K+ +S  
Sbjct:    71 GMDNDKMFKMLSFGFSDKETINGHVPVGLYGNGFKSGSMRLGRDAIVFS----KNKES-- 124

Query:   256 RSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNR--NVETIVQWSPFS 313
               +GLLS T+L +   E+++VP++ +       K++ +S L +     ++  I+Q+S F 
Sbjct:   125 MCVGLLSQTYLEAIQAENVIVPIVSF-------KRVGQSMLPEAQHAASLHDILQYSLFR 177

Query:   314 SEADLLHQFNLMKDH------GTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQN 367
             +EA+LL +   +  H      GTRII++NL +   G  E DFD D++DIQ+     + + 
Sbjct:   178 TEAELLCELKAINAHYANECTGTRIIVWNLRKTSSGKSEFDFDIDRYDIQIPAEVYENEK 237

Query:   368 IKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVT 427
              K  Q     +       SLR+Y SILYL+  P  +II+RG+ V+   I   +    K  
Sbjct:   238 EKYKQPCRTFQSSPESDFSLRAYCSILYLK--PKMQIILRGQKVKTQLISKSLAHIVKDK 295

Query:   428 YRPQPGASGIPTDLHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLW--NASGS 485
             Y+P          L+  + +T G+   +K H  V    +YHKNRLIK + R+   N +  
Sbjct:   296 YKPN--------FLNERIPITFGYNTKSKEHYGVM---MYHKNRLIKAYERVGCQNRANE 344

Query:   486 DGRGVIGVLEANFVEPAHDKQGFERTTVLARLEARLIQMQKDYWNNNCHEIGY 538
              G GVI V+E NF++P H+KQ F+ T    R    L    ++YW    H+ G+
Sbjct:   345 KGVGVIAVIECNFLKPTHNKQDFDYTEEYRRTITTLGVKLEEYWKAIRHKKGF 397

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

ZFIN|ZDB-GENE-040801-98 morc3b "MORC family CW-type zinc finger 3b" [Danio rerio (taxid:7955)]

 Score = 319 (117.4 bits), Expect = 1.1e-42, Sum P(3) = 1.1e-42
 Identities = 90/249 (36%), Positives = 130/249 (52%)

Query:   138 VHPKFLHSNATSHKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGG 197
             + PKFLHSN+TSH W   A AEL+DN+ D     A    ID    R  G   L   DNG 
Sbjct:    13 ISPKFLHSNSTSHTWPFSAIAELIDNAYDPDVR-ARQMWIDRTCIR--GLDCLSFMDNGQ 69

Query:   198 GMNPDKMRHCMSLGYSAKS--KAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPT 255
             G+   K+   +S G+S K   K    +G YGNGFK+ +MRLG D IVF+    KD    T
Sbjct:    70 GLTRAKLHKMLSFGFSKKRALKLHIPVGVYGNGFKSGSMRLGKDAIVFTKT--KD----T 123

Query:   256 RSIGLLSYTFLRSTGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSE 315
              S+GLLS ++L++ G + ++VPM+ +    Q       + ++D   ++  I+  S F S+
Sbjct:   124 MSVGLLSQSYLKAIGAQRVLVPMITFRRDGQ-------NQVED-EASLWAILTQSLFRSK 175

Query:   316 ADLLHQFNLMKD---HGTRIIIYNLWEDDQGLLELDFDSDKHDIQLRGVNRDEQNIKMAQ 372
              +L  +   +      GTRIII+NL     G  E DF++ K+DI +R    +  N  +A 
Sbjct:   176 KELFDELRAISAVGYTGTRIIIWNLHTTTNGETEFDFNTSKYDILIRWNISERSNGDLAM 235

Query:   373 HYPNSRHFL 381
               P S + L
Sbjct:   236 -IPESEYSL 243

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_fgenesh4_pg.C_LG_XII0998 hypothetical protein (862 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	826
pfam13589	134	pfam13589, HATPase_c_3, Histidine kinase-, DNA gyr	7e-17
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	6e-08
pfam05103	131	pfam05103, DivIVA, DivIVA protein	5e-07
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-06
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-06
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	2e-06
COG2433	652	COG2433, COG2433, Uncharacterized conserved protei	3e-06
PRK00409	782	PRK00409, PRK00409, recombination and DNA strand e	3e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-06
pfam07888	546	pfam07888, CALCOCO1, Calcium binding and coiled-co	8e-06
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-05
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	2e-05
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	3e-05
smart00935	140	smart00935, OmpH, Outer membrane protein (OmpH-lik	4e-05
pfam02518	111	pfam02518, HATPase_c, Histidine kinase-, DNA gyras	5e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	8e-05
COG4026	290	COG4026, COG4026, Uncharacterized protein containi	8e-05
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	1e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	1e-04
COG4026	290	COG4026, COG4026, Uncharacterized protein containi	1e-04
pfam11559	149	pfam11559, ADIP, Afadin- and alpha -actinin-Bindin	1e-04
pfam04156	186	pfam04156, IncA, IncA protein	1e-04
pfam00769	244	pfam00769, ERM, Ezrin/radixin/moesin family	1e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	2e-04
pfam13851	201	pfam13851, GAS, Growth-arrest specific micro-tubul	2e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	3e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	3e-04
PRK12704	520	PRK12704, PRK12704, phosphodiesterase; Provisional	3e-04
TIGR04211	198	TIGR04211, SH3_and_anchor, SH3 domain protein	3e-04
COG3290	537	COG3290, CitA, Signal transduction histidine kinas	3e-04
pfam03938	157	pfam03938, OmpH, Outer membrane protein (OmpH-like	3e-04
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	4e-04
pfam13514	1118	pfam13514, AAA_27, AAA domain	4e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	4e-04
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	4e-04
pfam00038	312	pfam00038, Filament, Intermediate filament protein	4e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	5e-04
pfam04156	186	pfam04156, IncA, IncA protein	5e-04
pfam09726	680	pfam09726, Macoilin, Transmembrane protein	5e-04
COG0323	638	COG0323, MutL, DNA mismatch repair enzyme (predict	5e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	6e-04
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	7e-04
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	7e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	7e-04
TIGR00414	418	TIGR00414, serS, seryl-tRNA synthetase	7e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	8e-04
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.001
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.001
pfam03962	188	pfam03962, Mnd1, Mnd1 family	0.001
pfam06148	133	pfam06148, COG2, COG (conserved oligomeric Golgi)	0.001
TIGR03185	650	TIGR03185, DNA_S_dndD, DNA sulfur modification pro	0.001
smart00787	312	smart00787, Spc7, Spc7 kinetochore protein	0.001
pfam13868	349	pfam13868, Trichoplein, Tumour suppressor, Mitosta	0.001
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	0.001
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.002
COG0419	908	COG0419, SbcC, ATPase involved in DNA repair [DNA	0.002
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.002
TIGR02168	1179	TIGR02168, SMC_prok_B, chromosome segregation prot	0.002
smart00935	140	smart00935, OmpH, Outer membrane protein (OmpH-lik	0.002
pfam04156	186	pfam04156, IncA, IncA protein	0.002
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.002
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.002
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.002
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.002
pfam10174	774	pfam10174, Cast, RIM-binding protein of the cytoma	0.002
PRK02224	880	PRK02224, PRK02224, chromosome segregation protein	0.002
COG0172	429	COG0172, SerS, Seryl-tRNA synthetase [Translation,	0.002
COG1196	1163	COG1196, Smc, Chromosome segregation ATPases [Cell	0.003
PRK03918	880	PRK03918, PRK03918, chromosome segregation protein	0.003
COG4942	420	COG4942, COG4942, Membrane-bound metallopeptidase	0.003
pfam13863	126	pfam13863, DUF4200, Domain of unknown function (DU	0.003
TIGR02169	1164	TIGR02169, SMC_prok_A, chromosome segregation prot	0.004
COG1579	239	COG1579, COG1579, Zn-ribbon protein, possibly nucl	0.004
pfam05622	713	pfam05622, HOOK, HOOK protein	0.004
pfam14073	178	pfam14073, Cep57_CLD, Centrosome localisation doma	0.004

>gnl|CDD|222246 pfam13589, HATPase_c_3, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

 Score = 77.7 bits (192), Expect = 7e-17
 Identities = 40/128 (31%), Positives = 68/128 (53%), Gaps = 13/128 (10%)

Query: 155 GAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSA 214
            A AEL+DNS+D     A  +N+ + I+   G   + IEDNGGGM+ +++R+ + LG S+
Sbjct: 5   DAIAELIDNSID-----ADATNVKISIDPDRGEDGISIEDNGGGMSYEELRNALKLGRSS 59

Query: 215 KSKA--ANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKE 272
           K     + T+G+ G G K +++ LG  + V S    K+G+S T ++       +   G+ 
Sbjct: 60  KEGERDSTTLGRKGIGMKLASLSLGRKLTVTS---KKEGESSTLTL---DLDDIDKEGEW 113

Query: 273 DIVVPMLD 280
           D+      
Sbjct: 114 DLPELTSA 121

This family represents, additionally, the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90. Length = 134

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 56.3 bits (136), Expect = 6e-08
 Identities = 32/105 (30%), Positives = 58/105 (55%), Gaps = 3/105 (2%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
           SL     +L+QE  EL++ +E+ E +L E  E    LE +L+ +++ +EEL  E+E L D
Sbjct: 818 SLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELED 877

Query: 778 IFAEERDRREREEENLRK---KIKDASDTIQDLLDKIKLLEKMKT 819
              E  + +E  EE LR+   ++ +  + I+ L ++++ LE    
Sbjct: 878 ELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLE 922

Length = 1163

>gnl|CDD|218434 pfam05103, DivIVA, DivIVA protein

 Score = 49.2 bits (118), Expect = 5e-07
 Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 8/98 (8%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEEL----NKEQESLIDIFA 780
            L +EN ELK+ +E+ E +L+E +E   +L+  L V Q+T EE+     KE E +I    
Sbjct: 36  ALYKENEELKEEIERLEEKLEEYKELEETLQKTLVVAQETAEEVKANAQKEAELII---K 92

Query: 781 EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
           E   + ER   +  ++ K  +    +L  +   L + +
Sbjct: 93  EAEAKAERIVNDANEEAKKLATEYDELK-RQSRLFRTR 129

The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate mini-cells. Inactivation of divIVA produces a mini-cell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype. These proteins appear to contain coiled-coils. Length = 131

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 52.0 bits (125), Expect = 1e-06
 Identities = 33/106 (31%), Positives = 62/106 (58%), Gaps = 10/106 (9%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKV-------MQQTIEELNKEQESL 775
           + +L+++   L++ LE+ E EL+E   R  +LE +L+        ++Q IEEL +E E L
Sbjct: 781 IEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEEL 840

Query: 776 ---IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
              +D   EE +  E+E E L++++++     ++L D++K LE+ K
Sbjct: 841 EEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEK 886

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 51.6 bits (124), Expect = 2e-06
 Identities = 29/102 (28%), Positives = 53/102 (51%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L   L +L++E  E +K +E+ + EL+E RE    L+ +L  +++ IEEL  E   L +
Sbjct: 250 RLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKEEIEELEGEISLLRE 309

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
              E  +  E  EE L +  +      ++L ++  LLE+++ 
Sbjct: 310 RLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQ 351

Length = 1163

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 51.7 bits (124), Expect = 2e-06
 Identities = 27/100 (27%), Positives = 55/100 (55%), Gaps = 3/100 (3%)

Query: 722 NLGQLKQENHELKKRLE---KKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDI 778
            L +L++E  EL++ LE       EL+E  E+ +SLE +L+ +++ +E+L  E E L + 
Sbjct: 292 RLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEE 351

Query: 779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
             E     E   + L +++++    ++  L+++K LE+  
Sbjct: 352 KNELAKLLEERLKELEERLEELEKELEKALERLKQLEEAI 391

Length = 908

>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function unknown]

 Score = 50.5 bits (121), Expect = 3e-06
 Identities = 24/92 (26%), Positives = 47/92 (51%), Gaps = 6/92 (6%)

Query: 733 LKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID-IFAEERDRRE---- 787
            +KR++K E  ++   E    L+ +L+ +++ IE+L  E E     +  + R  RE    
Sbjct: 420 YEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRAR 479

Query: 788 -REEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
            R  E L K++++    +++L  K+  L KM+
Sbjct: 480 DRRIERLEKELEEKKKRVEELERKLAELRKMR 511

Length = 652

>gnl|CDD|234750 PRK00409, PRK00409, recombination and DNA strand exchange inhibitor protein; Reviewed

 Score = 50.6 bits (122), Expect = 3e-06
 Identities = 25/104 (24%), Positives = 57/104 (54%), Gaps = 6/104 (5%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
             +G+ K++ +EL   LE+ E EL+++ E   +L  +    ++  EEL +++E L +   
Sbjct: 509 KLIGEDKEKLNELIASLEELERELEQKAEEAEALLKEA---EKLKEELEEKKEKLQEEED 565

Query: 781 EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTPSIRA 824
           +  +  E+E    ++ IK+A     +++ +++ L+K    S++A
Sbjct: 566 KLLEEAEKE---AQQAIKEAKKEADEIIKELRQLQKGGYASVKA 606

Length = 782

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 49.3 bits (118), Expect = 7e-06
 Identities = 29/109 (26%), Positives = 48/109 (44%), Gaps = 10/109 (9%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL-- 775
            L A L  L +E   L++RLE  E  +     R   LE Q++ + + IE L  E E L  
Sbjct: 807 ELRAELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEE 866

Query: 776 --------IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
                   ++    ER   E     LR ++++ S+ +++L  K   L +
Sbjct: 867 LIEELESELEALLNERASLEEALALLRSELEELSEELRELESKRSELRR 915

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain (CALCOCO1) like

 Score = 48.8 bits (116), Expect = 8e-06
 Identities = 20/94 (21%), Positives = 45/94 (47%), Gaps = 3/94 (3%)

Query: 727 KQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLI---DIFAEER 783
           ++E ++L K+    EG++ + R R   LE  L+   +  EEL ++ +      +  + ER
Sbjct: 149 QRERNDLMKKFLALEGDVSDMRSRIEQLETALRHSTEKTEELEEQHKEAQSSSESMSAER 208

Query: 784 DRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           +    +    +++I +    IQ L  K +  +++
Sbjct: 209 NALLAQRAENQQRILELEQDIQTLTQKKQENDRV 242

Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein coexpressed by Mus musculus (CoCoA/CALCOCO1). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1, and thus enhances transcriptional activation by a number of nuclear receptors. CALCOCO1 has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region. Length = 546

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 48.9 bits (117), Expect = 1e-05
 Identities = 25/98 (25%), Positives = 51/98 (52%), Gaps = 3/98 (3%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA-- 780
           L  L++     ++RLE  E +++E  E   SL A+++ +++ IEEL  E E+L++  A  
Sbjct: 826 LESLERRIAATERRLEDLEEQIEELSEDIESLAAEIEELEELIEELESELEALLNERASL 885

Query: 781 -EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
            E       E E L +++++      +L  +++ L + 
Sbjct: 886 EEALALLRSELEELSEELRELESKRSELRRELEELREK 923

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 47.8 bits (114), Expect = 2e-05
 Identities = 26/97 (26%), Positives = 53/97 (54%), Gaps = 3/97 (3%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L  L++E   L++R E+ E E++E  E    LE +L  +++ +EEL KE E L +   E 
Sbjct: 809 LDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEELEKELEELKEELEEL 868

Query: 783 RDRREREEENL---RKKIKDASDTIQDLLDKIKLLEK 816
              +E  E+ L    ++ ++  + +++L  ++  L++
Sbjct: 869 EAEKEELEDELKELEEEKEELEEELRELESELAELKE 905

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 48.5 bits (116), Expect = 2e-05
 Identities = 25/92 (27%), Positives = 49/92 (53%), Gaps = 3/92 (3%)

Query: 719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELN---KEQESL 775
           L A L +L+ +  EL + L + E +L+E +E   SLEA+L+ ++  +EEL    +E E  
Sbjct: 321 LEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEEQ 380

Query: 776 IDIFAEERDRREREEENLRKKIKDASDTIQDL 807
           ++    +  + E +  +L  +I+     ++ L
Sbjct: 381 LETLRSKVAQLELQIASLNNEIERLEARLERL 412

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 47.1 bits (113), Expect = 3e-05
 Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 12/95 (12%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLI---DIFAE 781
           + K+E H+L+   EK      E RER   L+   K + Q  E L+++ E L    +   +
Sbjct: 61  EAKEEIHKLRNEFEK------ELRERRNELQKLEKRLLQKEENLDRKLELLEKREEELEK 114

Query: 782 ERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           +    E++++ L KK ++  + I++ L +   LE+
Sbjct: 115 KEKELEQKQQELEKKEEELEELIEEQLQE---LER 146

Length = 520

>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like)

 Score = 43.7 bits (104), Expect = 4e-05
 Identities = 20/86 (23%), Positives = 43/86 (50%), Gaps = 6/86 (6%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSL-----EAQLKVMQQTIEELNKEQESLIDIF 779
           QL++E  + +  LEK E ELQ+ +E+ +       EA  +  ++ +++  +E +      
Sbjct: 22  QLEKEFKKRQAELEKLEKELQKLKEKLQKDAATLSEAAREKKEKELQKKVQEFQRKQQKL 81

Query: 780 AEERDRREREEEN-LRKKIKDASDTI 804
            ++  +R++EE   +  KI  A   +
Sbjct: 82  QQDLQKRQQEELQKILDKINKAIKEV 107

This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery. Length = 140

>gnl|CDD|217081 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase

 Score = 42.7 bits (101), Expect = 5e-05
 Identities = 16/77 (20%), Positives = 31/77 (40%), Gaps = 4/77 (5%)

Query: 156 AFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAK 215
             + LLDN++           I++ + R  G   + +EDNG G+ P+ +       +   
Sbjct: 9   VLSNLLDNAIKH---APAGGEIEVTLERDGGRLRITVEDNGIGIPPEDLPKIFEPFFRTD 65

Query: 216 SKAANTIGQYGNGFKTS 232
             ++  +G  G G    
Sbjct: 66  -SSSRKVGGTGLGLSIV 81

This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90. Length = 111

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 46.2 bits (110), Expect = 8e-05
 Identities = 25/95 (26%), Positives = 57/95 (60%), Gaps = 3/95 (3%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
           +L++E   L++ L K + E++E  E+ ++L+ +L+ +++ +EE  +  ++L         
Sbjct: 762 ELEEELESLEEALAKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQ 821

Query: 785 RRER---EEENLRKKIKDASDTIQDLLDKIKLLEK 816
           RRER   E E L ++I++  + + +L ++++ LEK
Sbjct: 822 RRERLEQEIEELEEEIEELEEKLDELEEELEELEK 856

Length = 1163

>gnl|CDD|226513 COG4026, COG4026, Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

 Score = 44.9 bits (106), Expect = 8e-05
 Identities = 22/69 (31%), Positives = 37/69 (53%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L +L++E  EL K LE+ E E +E +ER + LE +   +++ +++L  E   L   + E 
Sbjct: 144 LEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDEL 203

Query: 783 RDRREREEE 791
               E  EE
Sbjct: 204 EPGVELPEE 212

Length = 290

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.5 bits (108), Expect = 1e-04
 Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 3/88 (3%)

Query: 732 ELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL---IDIFAEERDRRER 788
           EL+K LE+ E EL    E    L+ +L+  ++ IEEL  E E L   ++   EE    + 
Sbjct: 236 ELRKELEELEEELSRLEEELEELQEELEEAEKEIEELKSELEELREELEELQEELLELKE 295

Query: 789 EEENLRKKIKDASDTIQDLLDKIKLLEK 816
           E E L  +I    + +++L ++++ LE+
Sbjct: 296 EIEELEGEISLLRERLEELENELEELEE 323

Length = 1163

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 45.4 bits (108), Expect = 1e-04
 Identities = 28/120 (23%), Positives = 61/120 (50%), Gaps = 3/120 (2%)

Query: 700 SQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLK 759
           ++ +  E    E  L    L   + +L++E + L   + + E + Q  RER  +LE QL+
Sbjct: 260 AELQELEEKLEELRLEVSELEEEIEELQKELYALANEISRLEQQKQILRERLANLERQLE 319

Query: 760 VMQQTIEELNKEQESLIDIFAEERDRREREEEN---LRKKIKDASDTIQDLLDKIKLLEK 816
            ++  +EEL  + + L +  AE  ++ E  +E    L  ++++    +++L  +++ LE+
Sbjct: 320 ELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEELESRLEELEE 379

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|226513 COG4026, COG4026, Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

 Score = 44.5 bits (105), Expect = 1e-04
 Identities = 23/93 (24%), Positives = 44/93 (47%), Gaps = 11/93 (11%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
              LK++  ELK++LE+ + E +E  +    LEA+ + +Q+ ++ L  E   L     E 
Sbjct: 130 YMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRL----EEM 185

Query: 783 RDRREREEENLRKKIKDASDTIQDLLDKIKLLE 815
             +   E  +L+K+         +L   ++L E
Sbjct: 186 LKKLPGEVYDLKKR-------WDELEPGVELPE 211

Length = 290

>gnl|CDD|192773 pfam11559, ADIP, Afadin- and alpha -actinin-Binding

 Score = 43.0 bits (102), Expect = 1e-04
 Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 7/88 (7%)

Query: 719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTI----EELNKEQES 774
           L A + +L+     LK +LE  E EL   + + R LE +LK ++Q +    EE+ + +  
Sbjct: 62  LEAEIERLQNTIERLKTQLEDLERELALLQAKERQLEKKLKTLEQKLKNEKEEVQRLKNI 121

Query: 775 LIDI---FAEERDRREREEENLRKKIKD 799
           +      +  E  +R+RE E L++++  
Sbjct: 122 IQQRKTQYNHELKKRDREIEKLKERLLQ 149

This family is found in mammals where it is localised at cell-cell adherens junctions, and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions. Length = 149

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 43.2 bits (102), Expect = 1e-04
 Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 3/82 (3%)

Query: 734 KKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEEN- 792
            ++LE+ +GEL E +++   L+ +L+ +++ I EL  E E L +     R+  +  EE  
Sbjct: 71  PQKLEELQGELSELKQQLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERL 130

Query: 793 --LRKKIKDASDTIQDLLDKIK 812
             L + IK+ +  +++L   ++
Sbjct: 131 ESLEESIKELAKELRELRQDLR 152

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|216108 pfam00769, ERM, Ezrin/radixin/moesin family

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 29/98 (29%), Positives = 51/98 (52%), Gaps = 7/98 (7%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
           +LKQE  E  + LEKK  EL+EE  R     A  +  ++ +E    E  + +    EER+
Sbjct: 41  KLKQEEEE-AQLLEKKADELEEENRRLEEEAAASEEERERLEAEVDEATAEVAKLEEERE 99

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIK--LLEKMKTP 820
           ++E E   L++++++A    Q+  ++ +  LLE    P
Sbjct: 100 KKEAETRQLQQELREA----QEAHERARQELLEAAAAP 133

This family of proteins contain a band 4.1 domain (pfam00373), at their amino terminus. This family represents the rest of these proteins. Length = 244

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.1 bits (107), Expect = 2e-04
 Identities = 25/92 (27%), Positives = 53/92 (57%), Gaps = 4/92 (4%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
            L++E  EL+  L +   EL+E +    SLE +L+ + + +E+L +E + L      E +
Sbjct: 380 ALREELAELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELE----AELE 435

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
             + E E L +++++  + +++L D++K LE+
Sbjct: 436 ELQTELEELNEELEELEEQLEELRDRLKELER 467

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 45.1 bits (107), Expect = 2e-04
 Identities = 28/94 (29%), Positives = 57/94 (60%), Gaps = 4/94 (4%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L +L++E  EL+ +LEK E EL+  +   RSLE  L+ +++ +EEL ++ E L      E
Sbjct: 669 LKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEEL----KRE 724

Query: 783 RDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
               E E E L+ ++++  + +++L ++++ L++
Sbjct: 725 LAALEEELEQLQSRLEELEEELEELEEELEELQE 758

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.7 bits (106), Expect = 2e-04
 Identities = 28/101 (27%), Positives = 55/101 (54%), Gaps = 3/101 (2%)

Query: 719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL--- 775
           L   L  L++E  +L+ RLE+ E EL+E  E    L+ +L+ +++ +E L +    L   
Sbjct: 721 LKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEE 780

Query: 776 IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           I+   E+R   + E E L +++++A   +  L  +++ LE+
Sbjct: 781 IEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQ 821

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.7 bits (106), Expect = 2e-04
 Identities = 30/104 (28%), Positives = 58/104 (55%), Gaps = 1/104 (0%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
             L +L++E  ELK+ +E+ EGE+   RER   LE +L+ +++ +EEL KE+   +    
Sbjct: 281 EELEELQEELLELKEEIEELEGEISLLRERLEELENELEELEERLEEL-KEKIEALKEEL 339

Query: 781 EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTPSIRA 824
           EER+    E E L  ++++A + +++ L  +    +    ++R 
Sbjct: 340 EERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALRE 383

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 23/92 (25%), Positives = 45/92 (48%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
            LK+E  E +  LE+ E  L E  E    LE +L  + + +EEL +     +     E  
Sbjct: 334 ALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELA 393

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
               E E L+++I+   + ++ L ++++ L++
Sbjct: 394 EIRNELEELKREIESLEERLERLSERLEDLKE 425

Length = 1163

>gnl|CDD|222417 pfam13851, GAS, Growth-arrest specific micro-tubule binding

 Score = 43.0 bits (102), Expect = 2e-04
 Identities = 29/103 (28%), Positives = 56/103 (54%), Gaps = 15/103 (14%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L   L + ++E  EL+K+L+    + +++++  ++L+A+LK +++ ++ L  E E L  
Sbjct: 59  RLVEPLKKAEEEVEELRKKLK----DYEKDKQSLKNLKARLKELEKELKNLKWESEVLEQ 114

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIK----LLEK 816
            F    ++ ERE + L  K + A   IQD+  K      LLE+
Sbjct: 115 RF----EKVERERDELYDKFEAA---IQDVQQKTGLKNLLLEQ 150

This family is the highly conserved central region of a number of metazoan proteins referred to as growth-arrest proteins. In mouse, Gas8 is predominantly a testicular protein, whose expression is developmentally regulated during puberty and spermatogenesis. In humans, it is absent in infertile males who lack the ability to generate gametes. The localisation of Gas8 in the motility apparatus of post-meiotic gametocytes and mature spermatozoa, together with the detection of Gas8 also in cilia at the apical surfaces of epithelial cells lining the pulmonary bronchi and Fallopian tubes suggests that the Gas8 protein may have a role in the functioning of motile cellular appendages. Gas8 is a microtubule-binding protein localised to regions of dynein regulation in mammalian cells. Length = 201

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 27/99 (27%), Positives = 51/99 (51%), Gaps = 4/99 (4%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L   L +L++E  EL++RLE+ E EL+   E      A+LK   + +EE  +  +  ++
Sbjct: 741 ELEEELEELEEELEELQERLEELEEELESLEEA----LAKLKEEIEELEEKRQALQEELE 796

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
              EE +  ER  + L ++++      + L  +I+ LE+
Sbjct: 797 ELEEELEEAERRLDALERELESLEQRRERLEQEIEELEE 835

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 23/93 (24%), Positives = 49/93 (52%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
           +LK++   LK+ LE++E  L+E  +    LE   + +++ +  L +E E L +   EE  
Sbjct: 327 ELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELA 386

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
             E E   +R ++++    I+ L ++++ L + 
Sbjct: 387 ELEAELAEIRNELEELKREIESLEERLERLSER 419

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 28/116 (24%), Positives = 56/116 (48%), Gaps = 22/116 (18%)

Query: 719  LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEE----------- 767
            L   L +L+ E  ELK+ +EK    L+E   +   LE +L  +++ +EE           
Sbjct: 889  LEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELE 948

Query: 768  -----LNKEQESL--IDIFA-EERDRREREEENLRKKIKD---ASDTIQDLLDKIK 812
                 L +E E+L  +++ A EE +  E   E L+ + +D   A + + ++++++ 
Sbjct: 949  REIERLEEEIEALGPVNLRAIEEYEEVEERYEELKSQREDLEEAKEKLLEVIEELD 1004

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 43.9 bits (104), Expect = 3e-04
 Identities = 24/99 (24%), Positives = 50/99 (50%), Gaps = 4/99 (4%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L   L  LK E   L+  LE+   +L+E   +   L+ +L  +++ +E+L    E L  
Sbjct: 685 KLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELE- 743

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
              EE +  E E E L++++++  + ++ L + +  L++
Sbjct: 744 ---EELEELEEELEELQERLEELEEELESLEEALAKLKE 779

Length = 1163

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 44.0 bits (104), Expect = 3e-04
 Identities = 24/99 (24%), Positives = 45/99 (45%), Gaps = 8/99 (8%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
           A L + K+   ELK RL + E    E  +       +L+ + + +EE  +          
Sbjct: 242 AELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEELEEKIER--------L 293

Query: 781 EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
           EE +R   E E   + ++   + +++LL+K+K LE+   
Sbjct: 294 EELEREIEELEEELEGLRALLEELEELLEKLKSLEERLE 332

Length = 908

>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional

 Score = 44.0 bits (105), Expect = 3e-04
 Identities = 25/102 (24%), Positives = 55/102 (53%), Gaps = 10/102 (9%)

Query: 725 QLKQENHELKKR---LEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQ----ESLID 777
           +L Q+   L ++   LEK+E EL+++ +     + +L+  ++ +EEL +EQ    E +  
Sbjct: 90  RLLQKEENLDRKLELLEKREEELEKKEKELEQKQQELEKKEEELEELIEEQLQELERISG 149

Query: 778 IFAEERDRREREEENLRKKIK-DASDTIQDLLDKIKLLEKMK 818
           + AEE   +E   E + ++ + +A+  I+++ ++ K     K
Sbjct: 150 LTAEE--AKEILLEKVEEEARHEAAVLIKEIEEEAKEEADKK 189

Length = 520

>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 20/93 (21%), Positives = 48/93 (51%), Gaps = 1/93 (1%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
             L +L++E  EL+++L + + E QE ++   +LEA+L+ +Q+ +  + +   + I++  
Sbjct: 73  QELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQLSANAIEL-D 131

Query: 781 EERDRREREEENLRKKIKDASDTIQDLLDKIKL 813
           EE      E   L+++ +      + L +  + 
Sbjct: 132 EENRELREELAELKQENEALEAENERLQENEQR 164

Members of this protein family have a signal peptide, a strongly conserved SH3 domain, a variable region, and then a C-terminal hydrophobic transmembrane alpha helix region. Length = 198

>gnl|CDD|225827 COG3290, CitA, Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]

 Score = 43.8 bits (104), Expect = 3e-04
 Identities = 20/97 (20%), Positives = 38/97 (39%), Gaps = 9/97 (9%)

Query: 135 HVRVHPK-FLHSNAT---SHKWA--LGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSR 188
            + + P   L    +    H     LG    L+DN+L+ +        I++ ++ +    
Sbjct: 407 SLIIDPNSQLPQLPSELQPHDLVTILG---NLIDNALEALLAPEENKEIELSLSDRGDEL 463

Query: 189 MLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQY 225
           ++ + D G G+ P+        G S K+     IG Y
Sbjct: 464 VIEVADTGPGIPPEVRDKIFEKGVSTKNTGGRGIGLY 500

Length = 537

>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like)

 Score = 41.5 bits (98), Expect = 3e-04
 Identities = 21/86 (24%), Positives = 42/86 (48%), Gaps = 6/86 (6%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSL-----EAQLKVMQQTIEELNKEQESLI-DI 778
           QL++E  +L+  L+KKE ELQ+E ++ +       E   K  QQ +++  +E +      
Sbjct: 39  QLEKEFKKLQAELQKKEKELQKEEQKLQKQAATLSEEARKAKQQELQQKQQELQQKQQAA 98

Query: 779 FAEERDRREREEENLRKKIKDASDTI 804
             E + +++   + +  KI  A   +
Sbjct: 99  QQELQQKQQELLQPIYDKIDKAIKEV 124

This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery. Length = 157

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 43.9 bits (104), Expect = 4e-04
 Identities = 24/92 (26%), Positives = 48/92 (52%), Gaps = 4/92 (4%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
             ++   +L   LE+ E   +  RE    LEA+L  ++  +EEL +E ESL     E  +
Sbjct: 359 AKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESL----EERLE 414

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           R     E+L++++K+    +++L  +++ L +
Sbjct: 415 RLSERLEDLKEELKELEAELEELQTELEELNE 446

Length = 1163

>gnl|CDD|205692 pfam13514, AAA_27, AAA domain

 Score = 44.0 bits (104), Expect = 4e-04
 Identities = 27/114 (23%), Positives = 47/114 (41%), Gaps = 15/114 (13%)

Query: 701 QSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLK- 759
           Q++  E++  E  L+  +    L Q + E    ++ L  +EGE+   RE   +L AQ+  
Sbjct: 269 QAELDEISLDEELLAQAAAIEALHQQRGEYRNAEQDLPDREGEIANAREAAAALLAQIGP 328

Query: 760 --------------VMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKD 799
                           ++T+ EL K +E+L       RD  E  E  L++    
Sbjct: 329 DADEEAVESLRPSLAAKETVTELEKRKEALDQALKSARDALEERERELKQVRAQ 382

This domain is found in a number of double-strand DNA break proteins. This domain contains a P-loop motif. Length = 1118

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.9 bits (104), Expect = 4e-04
 Identities = 27/112 (24%), Positives = 52/112 (46%), Gaps = 20/112 (17%)

Query: 724 GQLKQENHELKKRLEKK---EGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
            +L++   +L +   +K   E E+QE +E+   L+ Q+K +++ IE LN ++E L +   
Sbjct: 812 ARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEIENLNGKKEELEEELE 871

Query: 781 E-----------------ERDRREREEENLRKKIKDASDTIQDLLDKIKLLE 815
           E                 ERD  E +   L +KI++    I+    ++  L+
Sbjct: 872 ELEAALRDLESRLGDLKKERDELEAQLRELERKIEELEAQIEKKRKRLSELK 923

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 43.9 bits (104), Expect = 4e-04
 Identities = 29/98 (29%), Positives = 56/98 (57%), Gaps = 12/98 (12%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L ++ +E +E+   L +   EL++  +  + LE     +++ IEEL KE ESL      E
Sbjct: 202 LEEVLREINEISSELPELREELEKLEKEVKELEE----LKEEIEELEKELESL------E 251

Query: 783 RDRREREEE--NLRKKIKDASDTIQDLLDKIKLLEKMK 818
             +R+ EE+   L ++I++    I++L +K+K L+++K
Sbjct: 252 GSKRKLEEKIRELEERIEELKKEIEELEEKVKELKELK 289

Length = 880

>gnl|CDD|200948 pfam00038, Filament, Intermediate filament protein

 Score = 43.0 bits (102), Expect = 4e-04
 Identities = 28/95 (29%), Positives = 50/95 (52%), Gaps = 10/95 (10%)

Query: 720 GANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIE-ELNKEQESLIDI 778
           G  L   K+E  EL+++++  E ELQ  +++  SLE QL  +++  E EL   Q+++ ++
Sbjct: 208 GDALRSAKEEITELRRQIQSLEIELQSLKKQKASLERQLAELEERYELELADYQDTISEL 267

Query: 779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKL 813
             E +  +      LR+         Q+LLD +KL
Sbjct: 268 EEELQQLKAEMARQLRE--------YQELLD-VKL 293

Length = 312

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 43.5 bits (103), Expect = 5e-04
 Identities = 26/102 (25%), Positives = 50/102 (49%), Gaps = 3/102 (2%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L   L +L+ E  EL++RLE+ E EL E       LEAQ++ +++ ++ L +  + L  
Sbjct: 751 QLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLKEELKALREALDELRA 810

Query: 778 IFAEERDRR---EREEENLRKKIKDASDTIQDLLDKIKLLEK 816
                 +         E+L ++I      ++DL ++I+ L +
Sbjct: 811 ELTLLNEEAANLRERLESLERRIAATERRLEDLEEQIEELSE 852

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 41.7 bits (98), Expect = 5e-04
 Identities = 25/96 (26%), Positives = 49/96 (51%), Gaps = 11/96 (11%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERE-------RCRSLEAQLKVMQQTIEELNKEQESL 775
           L  L++   EL+  LE  + +LQ  RE       R  SLE  +K + + + EL ++    
Sbjct: 95  LEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIKELAKELRELRQDLREE 154

Query: 776 IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKI 811
           ++   EE +R +   + L++ I++    +Q LL+++
Sbjct: 155 VEELREELERLQENLQRLQEAIQE----LQSLLEQL 186

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein

 Score = 43.4 bits (102), Expect = 5e-04
 Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 19/113 (16%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
           SL ++LGQLK+EN  L+ +L       Q++++  +S+E +LK    +     K+      
Sbjct: 445 SLKSDLGQLKKENDMLQTKLNSMVSAKQKDKQSMQSMEKRLKSEADSRVNAEKQ------ 498

Query: 778 IFAEERDRREREEENLRKKIKDASDT-----------IQDLLDKIKLLE-KMK 818
             AEE+ R++ EEE   +    A+ +            QDL  +IK LE  +K
Sbjct: 499 -LAEEKKRKKEEEETAARAAAQAAASREECAESLKQAKQDLEMEIKKLEHDLK 550

This entry is a highly conserved protein present in eukaryotes. Length = 680

>gnl|CDD|223400 COG0323, MutL, DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]

 Score = 43.1 bits (102), Expect = 5e-04
 Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 11/56 (19%)

Query: 159 ELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK-----MRHCMS 209
           EL++NSLD    GAT   ID+ +    G +++ + DNG G++ +      +RH  S
Sbjct: 30  ELVENSLDA---GAT--RIDIEVEG-GGLKLIRVRDNGSGIDKEDLPLALLRHATS 79

Length = 638

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 43.2 bits (102), Expect = 6e-04
 Identities = 26/97 (26%), Positives = 50/97 (51%), Gaps = 3/97 (3%)

Query: 725 QLKQENHELK---KRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE 781
           Q +QE  EL+   + LE++  EL+EE+ER   L+A+L  ++    E  K +E  +     
Sbjct: 222 QEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELER 281

Query: 782 ERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
             +  E + E L +  ++  +  ++L     LLE+++
Sbjct: 282 LLEELEEKIERLEELEREIEELEEELEGLRALLEELE 318

Length = 908

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 42.8 bits (101), Expect = 7e-04
 Identities = 22/96 (22%), Positives = 47/96 (48%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
           A   +LK+     + + E++E EL++E E      A+L+  ++ +EEL      +  +  
Sbjct: 207 ALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLEL 266

Query: 781 EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           E    RE E   L + +++  + I+ L +  + +E+
Sbjct: 267 EALKIREEELRELERLLEELEEKIERLEELEREIEE 302

Length = 908

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 43.1 bits (102), Expect = 7e-04
 Identities = 26/99 (26%), Positives = 46/99 (46%), Gaps = 11/99 (11%)

Query: 719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDI 778
           L   + +L+++  EL+K L +   EL+E  E    L  +L+ + + I  L K+       
Sbjct: 682 LEEKIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLA----- 736

Query: 779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
                 R E E E L ++I   S  + +L  +I+ LE+ 
Sbjct: 737 ------RLEAEVEQLEERIAQLSKELTELEAEIEELEER 769

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 43.1 bits (102), Expect = 7e-04
 Identities = 27/101 (26%), Positives = 52/101 (51%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L A +  L++   E ++ LE  E  L +       L A+++ +++ IEE  K ++ L +
Sbjct: 298 ELEAEIASLERSIAEKERELEDAEERLAKLEAEIDKLLAEIEELEREIEEERKRRDKLTE 357

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
            +AE ++  E     L +  K+ ++T  +L D  + LEK+K
Sbjct: 358 EYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLK 398

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|232965 TIGR00414, serS, seryl-tRNA synthetase

 Score = 42.7 bits (101), Expect = 7e-04
 Identities = 18/92 (19%), Positives = 47/92 (51%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
            L+     +K+ L+ +   +  + E+  +L+ + K +   IEEL  ++  L     + + 
Sbjct: 6   LLRNNPDLVKESLKARGLSVDIDLEKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKG 65

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           +++ + E ++K++K+  + + +L   +K LE 
Sbjct: 66  QKKDKIEEIKKELKELKEELTELSAALKALEA 97

This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model [Protein synthesis, tRNA aminoacylation]. Length = 418

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.7 bits (101), Expect = 8e-04
 Identities = 32/133 (24%), Positives = 59/133 (44%), Gaps = 9/133 (6%)

Query: 687 GASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKEGELQE 746
           GA  G S  P      +G  +           L   L  LK+E   L+  L + E  L E
Sbjct: 653 GAMTGGSRAP------RGGILFSRSEPAELQRLRERLEGLKRELSSLQSELRRIENRLDE 706

Query: 747 ERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDR---REREEENLRKKIKDASDT 803
             +       ++  +++ IE+L +E+E L +   E  +     E+E EN++ ++K+    
Sbjct: 707 LSQELSDASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKELEAR 766

Query: 804 IQDLLDKIKLLEK 816
           I++L + +  LE+
Sbjct: 767 IEELEEDLHKLEE 779

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 42.7 bits (101), Expect = 0.001
 Identities = 23/97 (23%), Positives = 49/97 (50%), Gaps = 3/97 (3%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L +LK+E +ELK+ L++ + ELQ   E    L A +  ++  I EL +E+E       ++
Sbjct: 394 LEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKKQ 453

Query: 783 RDRREREEENL---RKKIKDASDTIQDLLDKIKLLEK 816
             + E+   +L    +++ D  +    +  ++  L++
Sbjct: 454 EWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQR 490

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 42.0 bits (99), Expect = 0.001
 Identities = 28/100 (28%), Positives = 54/100 (54%), Gaps = 9/100 (9%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEE-----RERCRSLEAQLKVMQQTIEELNK---EQ 772
             L + ++   EL+K LE+ E +  EE     RE    L  +L  ++  +EEL K   E 
Sbjct: 633 EELAETEKRLEELRKELEELEKKYSEEEYEELREEYLELSRELAGLRAELEELEKRREEI 692

Query: 773 ESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIK 812
           +  ++   EE + RE+ ++ L +K++ A + +++L +K+K
Sbjct: 693 KKTLEKLKEELEEREKAKKEL-EKLEKALERVEELREKVK 731

Length = 880

>gnl|CDD|202833 pfam03962, Mnd1, Mnd1 family

 Score = 40.7 bits (96), Expect = 0.001
 Identities = 24/87 (27%), Positives = 50/87 (57%), Gaps = 1/87 (1%)

Query: 728 QENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRRE 787
           Q  ++LK RLEK + EL+E ++R   L+AQ++ +++  EE  +E+  L++   +     +
Sbjct: 62  QALNKLKTRLEKLKKELEELKQRIAELQAQIEKLKKGREE-TEERTELLEELKQLEKELK 120

Query: 788 REEENLRKKIKDASDTIQDLLDKIKLL 814
           + +  L K  K+  + I+ L ++ K+ 
Sbjct: 121 KLKAELEKYEKNDPERIEKLKEETKVA 147

This family of proteins includes MND1 from S. cerevisiae. The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair. Length = 188

>gnl|CDD|218912 pfam06148, COG2, COG (conserved oligomeric Golgi) complex component, COG2

 Score = 39.6 bits (93), Expect = 0.001
 Identities = 28/115 (24%), Positives = 51/115 (44%), Gaps = 7/115 (6%)

Query: 710 PEHFLSDCSLGANLGQLKQENHELKKRLEKKEGEL-QEERERCRSLEAQLKVMQQTIEEL 768
           P+ FLS+   G  L  L+ +     K L+ +  EL  E+     SL   L  + + +E +
Sbjct: 15  PDQFLSELRKGVPLESLRDDLRAYLKLLKSELIELINEDYADFVSLSTNLVGLDEKLERI 74

Query: 769 NKEQESLIDIFAEERD----RREREEENL--RKKIKDASDTIQDLLDKIKLLEKM 817
                +L       R     R E  E  L  +K +++  ++++ LLD   ++EK+
Sbjct: 75  RVPLLALRKEVESVRSELEARLEEVEAKLEEKKDLREKKESLKLLLDLDHVVEKL 129

The COG complex comprises eight proteins COG1-8. The COG complex plays critical roles in Golgi structure and function. The proposed function of the complex is to mediate the initial physical contact between transport vesicles and their membrane targets. A comparable role in tethering vesicles has been suggested for at least six additional large multisubunit complexes, including the exocyst, a complex that mediates trafficking to the plasma membrane. COG2 structure reveals a six-helix bundle with few conserved surface features but a general resemblance to recently determined crystal structures of four different exocyst subunits. These bundles inCOG2 may act as platforms for interaction with other trafficing proteins including SNAREs (soluble N-ethylmaleimide factor attachment protein receptors) and Rabs. Length = 133

>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD

 Score = 42.0 bits (99), Expect = 0.001
 Identities = 23/99 (23%), Positives = 44/99 (44%), Gaps = 9/99 (9%)

Query: 719 LGANLGQLKQENHE--LKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLI 776
           L   L + K+      +   +E  E EL+E+ E+   L  ++  ++  +EE  +  ESL 
Sbjct: 191 LTNVLRRRKKSELPSSILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLE 250

Query: 777 DIF-------AEERDRREREEENLRKKIKDASDTIQDLL 808
             F        EER++ ER+ + +    K     +++L 
Sbjct: 251 KKFRSEGGDLFEEREQLERQLKEIEAARKANRAQLRELA 289

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria [DNA metabolism, Restriction/modification]. Length = 650

>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein

 Score = 41.2 bits (97), Expect = 0.001
 Identities = 27/99 (27%), Positives = 48/99 (48%), Gaps = 1/99 (1%)

Query: 722 NLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE 781
           NL  LK++   L K LE       + R+R  +LE +L+ ++Q  +EL     + +D   E
Sbjct: 152 NLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKE 211

Query: 782 ERDRREREEENLRKKIKDASDTIQDLLDKI-KLLEKMKT 819
           +  +  +E     KK+++  + +Q+L  KI  L  K   
Sbjct: 212 KLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSE 250

This domain is found in cell division proteins which are required for kinetochore-spindle association. Length = 312

>gnl|CDD|206039 pfam13868, Trichoplein, Tumour suppressor, Mitostatin

 Score = 41.4 bits (98), Expect = 0.001
 Identities = 16/84 (19%), Positives = 41/84 (48%), Gaps = 3/84 (3%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
           ++++E  +  +  EK+E + +   E     E +++  ++  E   +E+  +++ +  E+ 
Sbjct: 107 RIQEE--DEAEAQEKREKQKKLREEIDEFNEERIERKEEEKEREREEELKILE-YQREKA 163

Query: 785 RREREEENLRKKIKDASDTIQDLL 808
            RE E E  R++ K+  +     L
Sbjct: 164 EREEEREAERRERKEEKEREVARL 187

Trichoplein or mitostatin, was first defined as a meiosis-specific nuclear structural protein. It has since been linked with mitochondrial movement. It is associated with the mitochondrial outer membrane, and over-expression leads to reduction in mitochondrial motility whereas lack of it enhances mitochondrial movement. The activity appears to be mediated through binding the mitochondria to the actin intermediate filaments (IFs). Length = 349

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 40.8 bits (96), Expect = 0.001
 Identities = 23/97 (23%), Positives = 49/97 (50%), Gaps = 2/97 (2%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L + K E   L K LE  E EL++   +   LE++++ +++ I+   ++  ++ D    E
Sbjct: 33  LKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKD--ERE 90

Query: 783 RDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
                 E +  +++I    D + +L+++I+ LEK   
Sbjct: 91  LRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIE 127

Length = 239

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 28/100 (28%), Positives = 54/100 (54%), Gaps = 12/100 (12%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEE----RERCRSLEAQLKVMQQTIEELNKEQESLIDI 778
           + +LK E  EL++ LE    ELQEE    +E    LE ++ ++++ +EEL  E E L   
Sbjct: 269 IEELKSELEELREELE----ELQEELLELKEEIEELEGEISLLRERLEELENELEEL--- 321

Query: 779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
             E  +  + + E L++++++    +++L   +  LE+ K
Sbjct: 322 -EERLEELKEKIEALKEELEERETLLEELEQLLAELEEAK 360

Length = 1163

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 28/95 (29%), Positives = 56/95 (58%), Gaps = 1/95 (1%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
           SL   L  L+    EL+++LE+ E +L+E +    +LE +L+ +Q  +EEL +E E L +
Sbjct: 692 SLKNELRSLEDLLEELRRQLEELERQLEELKRELAALEEELEQLQSRLEELEEELEELEE 751

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIK 812
              E ++R E  EE L   +++A   +++ +++++
Sbjct: 752 ELEELQERLEELEEELE-SLEEALAKLKEEIEELE 785

Length = 1163

>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication, recombination, and repair]

 Score = 41.7 bits (98), Expect = 0.002
 Identities = 23/108 (21%), Positives = 55/108 (50%), Gaps = 10/108 (9%)

Query: 719 LGANLGQLKQENHELK---KRLEKKEGELQEERERCRSL---EAQLKVMQQTIEELNKEQ 772
           L A L +L++   +LK   +RLEK E +L++       L   + +L  + +   +  +E+
Sbjct: 310 LRALLEELEELLEKLKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEER 369

Query: 773 ----ESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
               E  ++   E   + E   + L++++ + S  ++++ ++++ LEK
Sbjct: 370 LEELEKELEKALERLKQLEEAIQELKEELAELSAALEEIQEELEELEK 417

Length = 908

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 42.0 bits (99), Expect = 0.002
 Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 13/107 (12%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
           SL   + +L+     L+ R E+ + E++E  ++    EA+LK +Q  +EEL +E E L  
Sbjct: 397 SLNNEIERLEARLERLEDRRERLQQEIEELLKK--LEEAELKELQAELEELEEELEELQ- 453

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLD-------KIKLLEKM 817
              EE +R E   E LR+++++A   +            ++  LE++
Sbjct: 454 ---EELERLEEALEELREELEEAEQALDAAERELAQLQARLDSLERL 497

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common bacterial type

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 4/86 (4%)

Query: 731 HELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREE 790
            EL++ LE+ + EL+E  E    L A+L+ +++ +EEL  E   L     EE +  ++E 
Sbjct: 235 EELREELEELQEELKEAEEELEELTAELQELEEKLEELRLEVSEL----EEEIEELQKEL 290

Query: 791 ENLRKKIKDASDTIQDLLDKIKLLEK 816
             L  +I       Q L +++  LE+
Sbjct: 291 YALANEISRLEQQKQILRERLANLER 316

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1179

>gnl|CDD|214922 smart00935, OmpH, Outer membrane protein (OmpH-like)

 Score = 39.1 bits (92), Expect = 0.002
 Identities = 20/101 (19%), Positives = 48/101 (47%), Gaps = 19/101 (18%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
             K    +L+K  +K++ EL++       LE +L+ +++   +L K+  +L       R+
Sbjct: 15  AGKAAQKQLEKEFKKRQAELEK-------LEKELQKLKE---KLQKDAATLS---EAARE 61

Query: 785 RRERE----EENLRKKIKDASDTIQDLLDKI--KLLEKMKT 819
           ++E+E     +  ++K +     +Q    +   K+L+K+  
Sbjct: 62  KKEKELQKKVQEFQRKQQKLQQDLQKRQQEELQKILDKINK 102

This family includes outer membrane proteins such as OmpH among others. Skp (OmpH) has been characterized as a molecular chaperone that interacts with unfolded proteins as they emerge in the periplasm from the Sec translocation machinery. Length = 140

>gnl|CDD|217933 pfam04156, IncA, IncA protein

 Score = 39.7 bits (93), Expect = 0.002
 Identities = 27/103 (26%), Positives = 51/103 (49%), Gaps = 13/103 (12%)

Query: 725 QLKQENHEL----------KKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQES 774
           QL +   EL          +  LE  + +LQ  RE  +SLE +L+ ++++I+EL KE   
Sbjct: 87  QLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIKELAKE--- 143

Query: 775 LIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           L ++  + R+  E   E L +  ++     + + +   LLE++
Sbjct: 144 LRELRQDLREEVEELREELERLQENLQRLQEAIQELQSLLEQL 186

Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is non-fusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA, is functionally associated with the homotypic fusion of inclusions. This family probably includes members of the wider Inc family rather than just IncA. Length = 186

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 8/103 (7%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L     +LK+E  +L+  LE+ + E  E R+  +    +L+ +++ I EL +E + L +
Sbjct: 354 KLTEEYAELKEELEDLRAELEEVDKEFAETRDELKDYREKLEKLKREINELKRELDRLQE 413

Query: 778 IFAEERDRREREEENLRKKIKDASDTI----QDLLDKIKLLEK 816
               E  R   E  +L   I      I    ++  DK   ++K
Sbjct: 414 ----ELQRLSEELADLNAAIAGIEAKINELEEEKEDKALEIKK 452

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 21/93 (22%), Positives = 46/93 (49%), Gaps = 4/93 (4%)

Query: 726 LKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDR 785
           +++E   L  + E+ E EL+E     R LE++L  +++  +EL  +   L      + + 
Sbjct: 852 IEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLREL----ERKIEE 907

Query: 786 REREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
            E + E  RK++ +    ++ L +++  +E  K
Sbjct: 908 LEAQIEKKRKRLSELKAKLEALEEELSEIEDPK 940

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 27/95 (28%), Positives = 48/95 (50%), Gaps = 5/95 (5%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
             L +  +E  ELK+ +E+ E EL+      R LE +++ +++ IEEL KE E L +   
Sbjct: 224 EKLEKEVKELEELKEEIEELEKELESLEGSKRKLEEKIRELEERIEELKKEIEELEEKVK 283

Query: 781 EERDRREREEE-----NLRKKIKDASDTIQDLLDK 810
           E ++ +E+ EE        ++  D    I+  L +
Sbjct: 284 ELKELKEKAEEYIKLSEFYEEYLDELREIEKRLSR 318

Length = 880

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.002
 Identities = 30/110 (27%), Positives = 57/110 (51%), Gaps = 16/110 (14%)

Query: 722 NLGQLKQENHE---LKKRLEKKEGE---LQEERERCRSLEAQLKVMQQTIEELNKEQESL 775
           NL +L+++  E   LK++L K +GE   L++E E+   L+ +L  +++ ++EL +E   L
Sbjct: 516 NLEELEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLAELEKKLDELEEELAEL 575

Query: 776 IDIFA-------EERDRREREEENLRKK---IKDASDTIQDLLDKIKLLE 815
           +           EE + R +E E    +   +KDA   ++    ++K LE
Sbjct: 576 LKELEELGFESVEELEERLKELEPFYNEYLELKDAEKELEREEKELKKLE 625

Length = 880

>gnl|CDD|220614 pfam10174, Cast, RIM-binding protein of the cytomatrix active zone

 Score = 41.9 bits (98), Expect = 0.002
 Identities = 28/98 (28%), Positives = 52/98 (53%), Gaps = 5/98 (5%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEA--QLKVMQQTIEELNKEQESLIDI 778
             L  L+++   L++   +KE  L+EE+ER RSL+         + +E+   E+E +I+ 
Sbjct: 392 RKLRVLQKKIENLQETFRRKERRLKEEKERLRSLQTDTNTDTALEKLEKALAEKERIIER 451

Query: 779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
             E+RDR ER E+   +  K      +DL ++++ L+ 
Sbjct: 452 LKEQRDRDERYEQEEFETYK---KEFEDLKEEVQNLQL 486

This is a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion. The C-terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). The family also contains four coiled-coil domains. Length = 774

>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional

 Score = 41.6 bits (98), Expect = 0.002
 Identities = 23/104 (22%), Positives = 45/104 (43%), Gaps = 11/104 (10%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            L     +L+ E  E ++   + E E +E RE    L ++L  +++ IE L + +  L  
Sbjct: 541 ELRERAAELEAEAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLERIRTLLAA 600

Query: 778 IFAEERDRREREEENL----------RKKIKDASDTIQDLLDKI 811
           I A+  D  ER  E            R+++ +  +  ++L  + 
Sbjct: 601 I-ADAEDEIERLREKREALAELNDERRERLAEKRERKRELEAEF 643

Length = 880

>gnl|CDD|223250 COG0172, SerS, Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]

 Score = 41.0 bits (97), Expect = 0.002
 Identities = 17/91 (18%), Positives = 45/91 (49%), Gaps = 1/91 (1%)

Query: 726 LKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDR 785
           +++    ++++L+K+ G    + ++   L+ + + + + +EEL  E+  L         R
Sbjct: 7   IRENPDAVREKLKKR-GGDALDVDKLLELDEERRKLLRELEELQAERNELSKEIGRALKR 65

Query: 786 REREEENLRKKIKDASDTIQDLLDKIKLLEK 816
            E + E L  ++K+  + +++L   +  LE 
Sbjct: 66  GEDDAEELIAEVKELKEKLKELEAALDELEA 96

Length = 429

>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and chromosome partitioning]

 Score = 40.9 bits (96), Expect = 0.003
 Identities = 24/95 (25%), Positives = 49/95 (51%), Gaps = 5/95 (5%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCR-SLEAQLKVMQQTIEELNKEQESLIDIFAEER 783
            L +E  +L   LE+ + EL+E+       LE   + +++ + EL  E   +      E 
Sbjct: 344 TLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEI----RNEL 399

Query: 784 DRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
           +  +RE E+L ++++  S+ ++DL +++K LE   
Sbjct: 400 EELKREIESLEERLERLSERLEDLKEELKELEAEL 434

Length = 1163

>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional

 Score = 41.2 bits (97), Expect = 0.003
 Identities = 24/100 (24%), Positives = 53/100 (53%), Gaps = 11/100 (11%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           L +++++  +L+K L + E  L++E E        L  +++  E+L + +E L     EE
Sbjct: 468 LKEIEEKERKLRKELRELEKVLKKESE--------LIKLKELAEQLKELEEKLKKYNLEE 519

Query: 783 RDRREREEENLRKK---IKDASDTIQDLLDKIKLLEKMKT 819
            +++  E E L++K   +K    +++  L+K++ L+K   
Sbjct: 520 LEKKAEEYEKLKEKLIKLKGEIKSLKKELEKLEELKKKLA 559

Length = 880

>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division and chromosome partitioning]

 Score = 40.5 bits (95), Expect = 0.003
 Identities = 24/93 (25%), Positives = 42/93 (45%), Gaps = 15/93 (16%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
           S  A+  QLKQ    ++K +   E +++E++++   LE QLK        L  E  SL  
Sbjct: 32  SAAADDKQLKQ----IQKEIAALEKKIREQQDQRAKLEKQLK-------SLETEIASLE- 79

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDK 810
               +      + + LRK+I D +  +  L  +
Sbjct: 80  ---AQLIETADDLKKLRKQIADLNARLNALEVQ 109

Length = 420

>gnl|CDD|206034 pfam13863, DUF4200, Domain of unknown function (DUF4200)

 Score = 38.0 bits (89), Expect = 0.003
 Identities = 21/99 (21%), Positives = 51/99 (51%), Gaps = 7/99 (7%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEER- 783
           + ++E  E++  L+ K  E +   E  +  E +L+  ++ ++E   + +  +     +R 
Sbjct: 4   EKRREMEEVQLALDAKREEFERREELLKQREEELEKKEEELQESLIKFDKFLKENEAKRR 63

Query: 784 --DRREREEENLRK----KIKDASDTIQDLLDKIKLLEK 816
             +++  EE+ LRK    +IK+    +++L  +I+ LE+
Sbjct: 64  RAEKKAEEEKKLRKEKEEEIKELKAELEELKAEIEKLEE 102

This family is found in eukaryotes. It is a coiled-coil domain of unknwon function. Length = 126

>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC, primarily archaeal type

 Score = 40.8 bits (96), Expect = 0.004
 Identities = 22/95 (23%), Positives = 41/95 (43%), Gaps = 12/95 (12%)

Query: 726 LKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDR 785
             ++  E++K +E+ E E ++ +ER   LE  L  ++Q IE +  E + L        + 
Sbjct: 714 ASRKIGEIEKEIEQLEQEEEKLKERLEELEEDLSSLEQEIENVKSELKEL----EARIEE 769

Query: 786 REREEENLRKKIKDASD--------TIQDLLDKIK 812
            E +   L + + D            IQ  L K++
Sbjct: 770 LEEDLHKLEEALNDLEARLSHSRIPEIQAELSKLE 804

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent [Cellular processes, Cell division, DNA metabolism, Chromosome-associated proteins]. Length = 1164

>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

 Score = 39.3 bits (92), Expect = 0.004
 Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 6/93 (6%)

Query: 726 LKQENHELKKRLEKKEGELQEERERCRSLEAQLKVM--QQTIEELNKEQESLIDIFAEER 783
           L+ E  +L+ ++ + E E+QE RER +  E +L  +  ++ +  LN E    I I  E  
Sbjct: 50  LEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIE----IQIAKERI 105

Query: 784 DRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           +  E E   L ++I+     I+DL ++++ LEK
Sbjct: 106 NSLEDELAELMEEIEKLEKEIEDLKERLERLEK 138

Length = 239

>gnl|CDD|218661 pfam05622, HOOK, HOOK protein

 Score = 40.6 bits (95), Expect = 0.004
 Identities = 32/102 (31%), Positives = 51/102 (50%), Gaps = 20/102 (19%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNK---EQESL---I 776
           L QL++EN  L       E    + R +C  LE +L  +Q   +EL     E ++L   I
Sbjct: 248 LEQLQEENFRL-------EAARDDYRIKCEELEKELAELQHRNDELTSLAAESQALKDEI 300

Query: 777 DIFAEERDRREREE---ENLRKKIKDASDTIQDLLDKIKLLE 815
           D+  E  D+ ++ E   E  +KK++D    + DL  ++KLLE
Sbjct: 301 DVLRESSDKAKKLEAQVETYKKKLED----LNDLRRQVKLLE 338

This family consists of several HOOK1, 2 and 3 proteins from different eukaryotic organisms. The different members of the human gene family are HOOK1, HOOK2 and HOOK3. Different domains have been identified in the three human HOOK proteins, and it was demonstrated that the highly conserved NH2-domain mediates attachment to microtubules, whereas the central coiled-coil motif mediates homodimerisation and the more divergent C-terminal domains are involved in binding to specific organelles (organelle-binding domains). It has been demonstrated that endogenous HOOK3 binds to Golgi membranes, whereas both HOOK1 and HOOK2 are localised to discrete but unidentified cellular structures. In mice the Hook1 gene is predominantly expressed in the testis. Hook1 function is necessary for the correct positioning of microtubular structures within the haploid germ cell. Disruption of Hook1 function in mice causes abnormal sperm head shape and fragile attachment of the flagellum to the sperm head. Length = 713

>gnl|CDD|206243 pfam14073, Cep57_CLD, Centrosome localisation domain of Cep57

 Score = 38.6 bits (90), Expect = 0.004
 Identities = 31/115 (26%), Positives = 52/115 (45%), Gaps = 29/115 (25%)

Query: 721 ANLGQLKQENHELKKRLEKKEGE------------------LQEERERCRSLEAQLKVMQ 762
            NL  L +E    KK LE++E E                  L     RC  LE QL+ M+
Sbjct: 25  DNLQTLSREATHYKKVLEEEEQERNLAANELTKQNKDLTSQLSSAESRCSLLEKQLEYMR 84

Query: 763 QTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           + +E   KE+ ++     E++   +RE+E+ +         +Q  L+K+++LEK 
Sbjct: 85  RMVENAEKERTAV----LEQQVSLQREKEHDQMD-------VQAQLEKLEVLEKE 128

The CLD or centrosome localisation domain of Cep57 is found at the N-terminus, and lies approximately between residues 58 and 239. This region lies within the first alpha-helical coiled-coil segment of Cep57, and localises to the centrosome internally to gamma-tubulin, suggesting that it is either on both centrioles or on a centromatrix component. This N-terminal region can also multimerise with the N-terminus of other Cep57 molecules. The C-terminal part, Family Cep57_MT_bd, pfam06657, is the microtubule-binding region of Cep57. Length = 178

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	826
KOG1845	775	consensus MORC family ATPases [Cell cycle control,	100.0
KOG1845	775	consensus MORC family ATPases [Cell cycle control,	99.93
PRK05218	613	heat shock protein 90; Provisional	99.72
PF13589	137	HATPase_c_3: Histidine kinase-, DNA gyrase B-, and	99.68
COG0326	623	HtpG Molecular chaperone, HSP90 family [Posttransl	99.66
PRK14083	601	HSP90 family protein; Provisional	99.62
PTZ00130	814	heat shock protein 90; Provisional	99.55
PTZ00272	701	heat shock protein 83 kDa (Hsp83); Provisional	99.48
KOG0019	656	consensus Molecular chaperone (HSP90 family) [Post	99.25
KOG0020	785	consensus Endoplasmic reticulum glucose-regulated	99.18
TIGR00585	312	mutl DNA mismatch repair protein MutL. All protein	98.95
PRK00095	617	mutL DNA mismatch repair protein; Reviewed	98.93
COG0323	638	MutL DNA mismatch repair enzyme (predicted ATPase)	98.92
COG1389	538	DNA topoisomerase VI, subunit B [DNA replication,	98.72
PRK05559	631	DNA topoisomerase IV subunit B; Reviewed	98.31
TIGR01052	488	top6b DNA topoisomerase VI, B subunit. This model	98.23
PF02518	111	HATPase_c: Histidine kinase-, DNA gyrase B-, and H	98.22
PRK04184	535	DNA topoisomerase VI subunit B; Validated	98.2
KOG1979	694	consensus DNA mismatch repair protein - MLH1 famil	98.15
PRK14868	795	DNA topoisomerase VI subunit B; Provisional	98.14
TIGR01055	625	parE_Gneg DNA topoisomerase IV, B subunit, proteob	98.04
KOG1978	672	consensus DNA mismatch repair protein - MLH2/PMS1/	98.0
PRK05644	638	gyrB DNA gyrase subunit B; Validated	97.92
PRK14939	756	gyrB DNA gyrase subunit B; Provisional	97.82
PRK14867	659	DNA topoisomerase VI subunit B; Provisional	97.82
TIGR01059	654	gyrB DNA gyrase, B subunit. This model describes t	97.82
smart00433	594	TOP2c TopoisomeraseII. Eukaryotic DNA topoisomeras	97.73
cd00075	103	HATPase_c Histidine kinase-like ATPases; This fami	97.43
COG3290	537	CitA Signal transduction histidine kinase regulati	97.39
smart00387	111	HATPase_c Histidine kinase-like ATPases. Histidine	97.32
PRK10604	433	sensor protein RstB; Provisional	97.14
PRK09470	461	cpxA two-component sensor protein; Provisional	97.09
PRK10364	457	sensor protein ZraS; Provisional	96.99
PRK11006	430	phoR phosphate regulon sensor protein; Provisional	96.96
KOG1977	1142	consensus DNA mismatch repair protein - MLH3 famil	96.95
TIGR02966	333	phoR_proteo phosphate regulon sensor kinase PhoR.	96.95
TIGR01386	457	cztS_silS_copS heavy metal sensor kinase. Members	96.92
COG0642	336	BaeS Signal transduction histidine kinase [Signal	96.86
PRK10549	466	signal transduction histidine-protein kinase BaeS;	96.84
PRK09303	380	adaptive-response sensory kinase; Validated	96.81
TIGR01058	637	parE_Gpos DNA topoisomerase IV, B subunit, Gram-po	96.77
PRK11100	475	sensory histidine kinase CreC; Provisional	96.73
PRK10755	356	sensor protein BasS/PmrB; Provisional	96.72
PRK09467	435	envZ osmolarity sensor protein; Provisional	96.68
PRK11086	542	sensory histidine kinase DcuS; Provisional	96.46
TIGR02938	494	nifL_nitrog nitrogen fixation negative regulator N	96.44
COG0187	635	GyrB Type IIA topoisomerase (DNA gyrase/topo II, t	96.32
PRK11360	607	sensory histidine kinase AtoS; Provisional	96.27
PRK15053	545	dpiB sensor histidine kinase DpiB; Provisional	96.26
TIGR02916	679	PEP_his_kin putative PEP-CTERM system histidine ki	96.24
PRK09835	482	sensor kinase CusS; Provisional	96.2
TIGR03785	703	marine_sort_HK proteobacterial dedicated sortase s	96.13
PRK13837	828	two-component VirA-like sensor kinase; Provisional	96.04
PRK10815	485	sensor protein PhoQ; Provisional	95.99
PRK11073	348	glnL nitrogen regulation protein NR(II); Provision	95.97
PRK10337	449	sensor protein QseC; Provisional	95.64
PF12325	120	TMF_TATA_bd: TATA element modulatory factor 1 TATA	95.52
PRK11107	919	hybrid sensory histidine kinase BarA; Provisional	95.39
PTZ00108	1388	DNA topoisomerase 2-like protein; Provisional	95.35
PHA02569	602	39 DNA topoisomerase II large subunit; Provisional	95.35
PLN03237	1465	DNA topoisomerase 2; Provisional	95.3
PRK15347	921	two component system sensor kinase SsrA; Provision	95.21
PTZ00109	903	DNA gyrase subunit b; Provisional	95.16
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	95.16
COG1579	239	Zn-ribbon protein, possibly nucleic acid-binding [	95.05
PRK11091	779	aerobic respiration control sensor protein ArcB; P	94.93
PLN03128	1135	DNA topoisomerase 2; Provisional	94.83
PRK10490	895	sensor protein KdpD; Provisional	94.83
PRK10547	670	chemotaxis protein CheA; Provisional	94.83
PRK11466	914	hybrid sensory histidine kinase TorS; Provisional	94.79
TIGR01925	137	spIIAB anti-sigma F factor. This model describes t	94.73
COG2433	652	Uncharacterized conserved protein [Function unknow	94.73
PRK04069	161	serine-protein kinase RsbW; Provisional	94.69
TIGR02956	968	TMAO_torS TMAO reductase sytem sensor TorS. This p	94.69
PF09726	697	Macoilin: Transmembrane protein; InterPro: IPR0191	94.64
PRK10841	924	hybrid sensory kinase in two-component regulatory	94.42
COG4191	603	Signal transduction histidine kinase regulating C4	94.32
PRK13557	540	histidine kinase; Provisional	94.3
PRK10618	894	phosphotransfer intermediate protein in two-compon	94.29
PRK09959	1197	hybrid sensory histidine kinase in two-component r	94.05
TIGR01924	159	rsbW_low_gc serine-protein kinase RsbW. This model	93.94
PF13581	125	HATPase_c_2: Histidine kinase-like ATPase domain	93.83
PRK11644	495	sensory histidine kinase UhpB; Provisional	93.79
PF07926	132	TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro:	93.72
PF10267	395	Tmemb_cc2: Predicted transmembrane and coiled-coil	93.28
KOG3850	455	consensus Predicted membrane protein [Function unk	93.15
PF06705	247	SF-assemblin: SF-assemblin/beta giardin	93.03
PRK03660	146	anti-sigma F factor; Provisional	93.01
COG3850	574	NarQ Signal transduction histidine kinase, nitrate	92.39
PF11559	151	ADIP: Afadin- and alpha -actinin-Binding; InterPro	92.19
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	91.79
KOG0787	414	consensus Dehydrogenase kinase [Signal transductio	91.53
COG2972	456	Predicted signal transduction protein with a C-ter	91.51
COG4585	365	Signal transduction histidine kinase [Signal trans	91.39
PRK10600	569	nitrate/nitrite sensor protein NarX; Provisional	91.23
PF14362	301	DUF4407: Domain of unknown function (DUF4407)	91.08
PRK10884	206	SH3 domain-containing protein; Provisional	90.72
COG0643	716	CheA Chemotaxis protein histidine kinase and relat	90.7
PF10186	302	Atg14: UV radiation resistance protein and autopha	90.52
KOG0161	1930	consensus Myosin class II heavy chain [Cytoskeleto	90.52
PF15254	861	CCDC14: Coiled-coil domain-containing protein 14	90.29
PRK13560	807	hypothetical protein; Provisional	90.16
PRK11637	428	AmiB activator; Provisional	90.07
PF04156	191	IncA: IncA protein; InterPro: IPR007285 Chlamydia	90.03
KOG0243	1041	consensus Kinesin-like protein [Cytoskeleton]	89.75
COG4192	673	Signal transduction histidine kinase regulating ph	89.25
KOG0977	546	consensus Nuclear envelope protein lamin, intermed	89.17
KOG0250	1074	consensus DNA repair protein RAD18 (SMC family pro	89.15
COG4026	290	Uncharacterized protein containing TOPRIM domain,	89.11
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	88.72
COG2205	890	KdpD Osmosensitive K+ channel histidine kinase [Si	88.23
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	87.6
PRK04778	569	septation ring formation regulator EzrA; Provision	87.6
PF07200	150	Mod_r: Modifier of rudimentary (Mod(r)) protein; I	87.41
TIGR03185	650	DNA_S_dndD DNA sulfur modification protein DndD. T	87.23
TIGR02169	1164	SMC_prok_A chromosome segregation protein SMC, pri	87.18
KOG1962	216	consensus B-cell receptor-associated protein and r	86.37
PF00038	312	Filament: Intermediate filament protein; InterPro:	86.12
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	86.08
PF15294	278	Leu_zip: Leucine zipper	86.04
COG5000	712	NtrY Signal transduction histidine kinase involved	85.82
PRK11637	428	AmiB activator; Provisional	85.79
KOG0612	1317	consensus Rho-associated, coiled-coil containing p	85.38
PF03962	188	Mnd1: Mnd1 family; InterPro: IPR005647 This family	85.3
PF06785	401	UPF0242: Uncharacterised protein family (UPF0242);	84.84
COG3920	221	Signal transduction histidine kinase [Signal trans	84.76
KOG4360	596	consensus Uncharacterized coiled coil protein [Fun	84.57
PRK04863	1486	mukB cell division protein MukB; Provisional	84.35
PF10473	140	CENP-F_leu_zip: Leucine-rich repeats of kinetochor	84.25
PRK05431	425	seryl-tRNA synthetase; Provisional	84.24
PLN02320	502	seryl-tRNA synthetase	84.01
PRK00409	782	recombination and DNA strand exchange inhibitor pr	83.81
smart00502	127	BBC B-Box C-terminal domain. Coiled coil region C-	83.65
KOG2129	552	consensus Uncharacterized conserved protein H4 [Fu	83.53
PF07888	546	CALCOCO1: Calcium binding and coiled-coil domain (	83.42
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	83.32
KOG1962	216	consensus B-cell receptor-associated protein and r	83.26
PHA02562	562	46 endonuclease subunit; Provisional	82.85
PRK10780	165	periplasmic chaperone; Provisional	82.8
TIGR02449	65	conserved hypothetical protein TIGR02449. Members	82.76
PF12128	1201	DUF3584: Protein of unknown function (DUF3584); In	82.74
PRK13559	361	hypothetical protein; Provisional	82.66
PF04111	314	APG6: Autophagy protein Apg6; InterPro: IPR007243	82.52
PRK10884	206	SH3 domain-containing protein; Provisional	82.35
PRK10935	565	nitrate/nitrite sensor protein NarQ; Provisional	82.31
PF15236	157	CCDC66: Coiled-coil domain-containing protein 66	82.2
PF00769	246	ERM: Ezrin/radixin/moesin family; InterPro: IPR011	82.19
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	82.05
PRK04778	569	septation ring formation regulator EzrA; Provision	81.86
KOG1853	333	consensus LIS1-interacting protein NUDE [Cytoskele	81.75
PF08317	325	Spc7: Spc7 kinetochore protein; InterPro: IPR01325	81.44
PF14662	193	CCDC155: Coiled-coil region of CCDC155	81.44
TIGR03752	472	conj_TIGR03752 integrating conjugative element pro	81.42
KOG0971	1243	consensus Microtubule-associated protein dynactin	81.2
PF12718	143	Tropomyosin_1: Tropomyosin like; InterPro: IPR0005	81.06
PF13851	201	GAS: Growth-arrest specific micro-tubule binding	80.95
PRK02224	880	chromosome segregation protein; Provisional	80.91
TIGR00606	1311	rad50 rad50. This family is based on the phylogeno	80.62
PF02403	108	Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal dom	80.61
PF04949	159	Transcrip_act: Transcriptional activator; InterPro	80.51
PRK09039	343	hypothetical protein; Validated	80.46
PF07989	75	Microtub_assoc: Microtubule associated; InterPro:	80.38
PRK09039	343	hypothetical protein; Validated	80.15

>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]

Probab=100.00  E-value=3e-70  Score=628.68  Aligned_cols=651  Identities=40%  Similarity=0.584  Sum_probs=486.2

Q ss_pred             cccccccCCCcCCCCCCCCCCCCCCCCccccccchhhhhhhcccCCCCCCCCCccccCCCccccccCchhhccccccccc
Q 003366           73 DLEVVLPVGFLEPLPAPERLPAAAGNDKAVSVGLQSCKQFWKAGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKW  152 (826)
Q Consensus        73 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fwkag~y~~~~~~~~~~~~~~l~~~~v~p~fLhSNSTSH~w  152 (826)
                      +-+|++|---+.|-++++.+    .. .+.++.+-.|+||||||+|..++........++.+|+++||+|||+|+|+|+|
T Consensus        72 ~~~vvvP~~t~~~~~~~~~~----~k-~~~~l~~~~c~sfwKag~~~~a~~~~~~~~~G~~~~iivhpkflhsnatshk~  146 (775)
T KOG1845|consen   72 DDAVVVPCPTFNPRTREIVT----EK-FAFSLEAIYCRSFWKAGDYLLAELDVIIGKSGGTLHIIVHPKFLHSNATSHKW  146 (775)
T ss_pred             cccceecccccccccccccc----cc-cccccchhhhcCcccccchhcccccceeccCCceeEEEEehhhhcCCCccccc
Confidence            34456665555554444333    22 25577888999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCC-ceEEEEE-----ECCCCCCHHHHhhhccccccccccCCcccCccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDG-SRMLLIE-----DNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYG  226 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g-~~~L~I~-----DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG  226 (826)
                      .++|+|||||||+|.+.++|++++|+.+....+. .+.++|.     |||.||.++-+..||.+|+++|......+|+||
T Consensus       147 a~~a~aeLldnalDEi~~~~tf~~vd~I~p~~d~~i~a~~v~~~~~s~~gg~~~~~~i~~~m~l~~~~k~e~~~tv~q~~  226 (775)
T KOG1845|consen  147 AKGAIAELLDNALDEITNGATFVRVDYINPVMDIFIRALVVQLKRISDDGGGMKPEVIRKCMSLGYSSKKEANSTVGQYG  226 (775)
T ss_pred             ccChhhhhccccccccccccceEEeeeecccccccceeEEeeccceeccccccCHHHHHHHHHhhhhhhhhhhhhhhhhc
Confidence            9999999999999999999999999887654444 5677777     679999999999999999999986578999999


Q ss_pred             CcccccccccCCeEEEEeeecCCCCCCCeeeeeccceeecccCCCCceeeee----eeeccccchhhhhhccchhhhhHh
Q 003366          227 NGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRSTGKEDIVVPM----LDYEGSQQEWKKIIRSSLDDWNRN  302 (826)
Q Consensus       227 ~GfKsAsmrLG~~v~V~SK~~g~dg~~~t~SvgLLS~Tfl~~~~~ddIiVPm----~~wdl~~~~~~~ii~~~~~dw~~n  302 (826)
                      +||+++.|+||.+++|++|..+..|...++++|||||+||+.++.+|++|||    ..++...+.|..+++.+..+|..|
T Consensus       227 ~gfktst~rlGa~~i~~~R~~~~~~~kstqsiglls~tfL~~t~~~d~iv~~~~i~~~~e~~~~~~~~i~~~s~~~~~~n  306 (775)
T KOG1845|consen  227 NGFKTSTMRLGADAIVFSRCESRRGLKSTQSIGLLSYTFLRKTGKRDFIVPMRLIKMDYEKSDQLWQGILYKSGVDWAVN  306 (775)
T ss_pred             cccccchhhhccceeEeehhhhhccCCcceeEEEEEEeeeccccCCceeEecchhhhhhhcccccccceeecccccccee
Confidence            9999999999999999999888888899999999999999999999999999    888877778888888888999999


Q ss_pred             HHH-----hhhcCCCCCHHHHHHH---------------HhhccCCceEEEEEcc--ccccCCcccccCCCCccceeccc
Q 003366          303 VET-----IVQWSPFSSEADLLHQ---------------FNLMKDHGTRIIIYNL--WEDDQGLLELDFDSDKHDIQLRG  360 (826)
Q Consensus       303 L~i-----IlkySPF~tE~eLl~Q---------------fd~Ig~~GTrIII~NL--~~~~~G~lELDFdtD~~DI~i~g  360 (826)
                      +.+     +++|+||.++.+++.|               |+.+..+||.||+||+  |..+.|.+|+||+.++++|..  
T Consensus       307 ~~i~~~~~~L~w~p~~~~~~~l~q~~v~~~~~~~ef~~~~~~~~~~g~~~I~Y~~~~~~~~~g~~e~df~l~~~~i~~--  384 (775)
T KOG1845|consen  307 LEIEVTERFLKWSPYSHLLDLLGQNSVQYSKDFPEFGHQFNIMNKPGTDVIIYNLRRWKGDEGILELDFDLDPHVIPW--  384 (775)
T ss_pred             eeeHHHHHHhhcCccccHHHHhhhhhhhhccccchhcchhhhccCCCceeeeechhhhcccccceeeccccCcccccc--
Confidence            998     9999999999999999               8888999999999999  999999999999999999862  


Q ss_pred             CcchhhhhhhhccCCCCcchhhhhhhHHHHHHHHhhcCCCceEEEEeCeeecccccccccccccceEeeccCCCCCCCCc
Q 003366          361 VNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTD  440 (826)
Q Consensus       361 ~~~d~k~~q~a~~~p~~~h~~~~~~SLRaYLSILYLr~pPrmrIiLrGkkVe~~ni~~dL~~~e~v~YrPq~~~~~lP~~  440 (826)
                                           .+.++++.|.+|||+..+++|+++++|+.+.|+.+..+++..+.+.|+|+....+.+ .
T Consensus       385 ---------------------~~~~~~~s~~sil~~~~~~~~~~v~~~~~~~h~sv~~~q~~~~~~~~~p~r~~~~~~-~  442 (775)
T KOG1845|consen  385 ---------------------TYCHSHLSEASILLLTRRLRFKSVLRGKDVEHHSVINYQVQTEEILYQPQRAPADGK-Q  442 (775)
T ss_pred             ---------------------cchhhhhhcccccchhccccchhccccccchhhhHHHHHHHHHHHhcccccccCCcc-c
Confidence                                 235788999999999999999999999999999999999999999999994432211 1


Q ss_pred             ccceEEEEEeeecCcccccccccceEEecCccch----hhhhcccCCCCCCcceeeeeecCccccCCccccccchHHHHH
Q 003366          441 LHMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIK----PFWRLWNASGSDGRGVIGVLEANFVEPAHDKQGFERTTVLAR  516 (826)
Q Consensus       441 ~n~~v~itiGf~k~a~~~~diqGf~VYhkNRLIk----py~rVg~~~~s~GrGVIGVlEanflePtHNKQdFe~t~l~~r  516 (826)
                      ..+.+....||.+.+++++++++|+|||++|||+    ||||.++..++.++++++++.+||++|+|++|+|+.+-..++
T Consensus       443 ~~~~~~~~~~~~~~~~~~~~~~~~nV~~~~~lie~~~~~~~k~~n~~~s~~~~~~~il~~n~~~~a~~~~~v~~~~v~a~  522 (775)
T KOG1845|consen  443 RLIKLSPKPGFVKDAPRPIDVQQFNVSHGPRLIEHGCRPFVKIDNATGSLGQAVIPILVGNFVETAPDSQGVEKTIVLAS  522 (775)
T ss_pred             hhhcccCCCCcccccCCCCCccCCccccCCcchhhcccceeeecCCCccccccccceecccccccCCCcccccccccccc
Confidence            1344556789999999999999999999999999    999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccccccccccCCccccccc--ccccccCCCCCCCCCcccCCCCCCCcccccccccccccCCCCCCc
Q 003366          517 LEARLIQMQKDYWNNNCHEIGYAPRRYKKYIKD--SYDREISSKKSYPSRHKITDSSHSDKHQLHSNQRWEGKDSKRLPE  594 (826)
Q Consensus       517 Le~~L~qm~~~YW~~~~~~iGy~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  594 (826)
                      ++.++.++++.||...|++|+|.+....+..+.  ++.++..|  +..     ..+ ....-|+             .+.
T Consensus       523 ~es~~~~~~~~~~~~~~~~i~~~~~q~~~~~~~~~~~~Ke~~~--~~~-----~~~-~~~~~~~-------------~~~  581 (775)
T KOG1845|consen  523 SESRDKQSLNTYEEKKCLRIDEAGRQLQKERESTTTVVKEEKP--ENN-----HLS-SSKRTQR-------------RKS  581 (775)
T ss_pred             chhhhhhcccccccccccccCccchhhhhhhcccceeeccccc--ccc-----hhc-chhcccc-------------ccc
Confidence            999999999999999999999998776555533  22333333  321     000 0000000             000


Q ss_pred             ccCCCCCCCcccCcccccccCCccccCCccccCCCCCCCCCCCccccchhhccccCCCCcccccccccccCCCCCCCCCC
Q 003366          595 ASNYGDRKGHESSKGKYKMKTPVKYREGASVSEPLSPSAEDASDDDMHVMVTARGANGSSQKILAAEKSFGKDGLHRTHP  674 (826)
Q Consensus       595 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  674 (826)
                      .         ........++.  +.   ++...|.+        +..+|+.-.   .+....+..-.+..+. ..++.--
T Consensus       582 ~---------~~~~~~~~~~~--~~---~~~~~~~~--------~~~~v~sq~---~~~~~e~e~~k~~~~~-~~~a~~~  635 (775)
T KOG1845|consen  582 T---------GRAISVAVEKF--NL---RSGPNGRG--------QIDMVESQE---TPLLKEVERLKKKRRR-AALALEV  635 (775)
T ss_pred             c---------ccccccchhhh--cc---ccccCCcC--------Ccccccccc---chhhhHHHHhhhhhhh-hhhhhhh
Confidence            0         00000000000  00   00001111        000000000   0000000000000000 0000000


Q ss_pred             CcccccccccccCCCCCCCCCCCCCCCCCCccccCCCCcccccccchhhhhhhhhhhHHHHHHHHhHH-------hHHHH
Q 003366          675 SACLVDSESQQDGASGGSSVRPFMPSQSKGSEVNYPEHFLSDCSLGANLGQLKQENHELKKRLEKKEG-------ELQEE  747 (826)
Q Consensus       675 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~-------~~~~e  747 (826)
                      .+..-+ ..|.||+.---++..   .++-.-..+     ...+   +.+-+|++.+.+.-+++.....       ++.++
T Consensus       636 ~~~~~~-~~~~~~~~~~~~e~~---~~~~~~~~~-----~~~~---~~~~~l~~~~~~~l~~~~~~~~t~~~q~~~~n~~  703 (775)
T KOG1845|consen  636 QSSKNE-EEQSDDDEDSLNEVR---RKSAKLKSE-----QKQK---KTLVELEETRKKWLRSMLNQSLTAGEQLKSLNQQ  703 (775)
T ss_pred             ccccch-hhhhccchhhhhHHh---hhccccchh-----hccc---HHHHHHHHHHHHHHHHhhhhhhhhhhhhcccccc
Confidence            011111 125555554212111   111000001     1111   3477777777777776654333       24555


Q ss_pred             HHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003366          748 RERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIK  812 (826)
Q Consensus       748 ~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~  812 (826)
                      .+..+.|+.++++...+|..+.+.|+++.+.|..||.+|+.||..+|.||..+ .+.++++..+.
T Consensus       704 ~~~~~~~~~~~k~~~n~l~~~~~~~~s~~~~~~~~~~~~~~e~~l~~~k~~~~-~~~~~~~~~~~  767 (775)
T KOG1845|consen  704 EDFDKTLEVELKESRNKLQNLRNKLQSLADMFIQERADRDKEEDLQRFKLPVS-GTLEKVLKDIE  767 (775)
T ss_pred             cccccchHHHHHHHHHHHHHHHHHHHhcchhhhhHHHhhhhhhhhhhhcccch-hhHHHHhhhhH
Confidence            58899999999999999999999999999999999999999999999999754 45556655544

>KOG1845 consensus MORC family ATPases [Cell cycle control, cell division, chromosome partitioning]

Probab=99.93  E-value=2.6e-27  Score=274.52  Aligned_cols=287  Identities=24%  Similarity=0.320  Sum_probs=220.6

Q ss_pred             EEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccccccccCCeEEEEeeecCCCCCCCeeeeeccceeeccc
Q 003366          189 MLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLLSYTFLRS  268 (826)
Q Consensus       189 ~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~dg~~~t~SvgLLS~Tfl~~  268 (826)
                      ||++.|||.||+++++..+.+|+..     ...||+||+|+|+++|++|++++++|+..+      +++++++|+||++.
T Consensus         1 ~l~~~Ddg~Gms~d~a~~~~~f~~~-----~~~ig~ygnG~ksgs~r~gkd~~~~tk~~~------~~s~~~~sqt~~e~   69 (775)
T KOG1845|consen    1 MLCFLDDGLGMSPDEAPKAINFAVG-----LYGIGDYGNGLKSGSMRIGKDFILFTKKES------TMSCLFLSQTFHES   69 (775)
T ss_pred             CcccccCCCCcCchhhhhhhhhccc-----ccccccccCcccccccccCcccceeecccc------ccceeeeecccccc
Confidence            5899999999999999999998443     347999999999999999999999999764      69999999999999


Q ss_pred             CCCCceeeeeeeeccccchhhhhhccchhhhhHhHHHhhhcCCCCCHHHHHHHHhhc-cCCc-eEEEEEccccccCCccc
Q 003366          269 TGKEDIVVPMLDYEGSQQEWKKIIRSSLDDWNRNVETIVQWSPFSSEADLLHQFNLM-KDHG-TRIIIYNLWEDDQGLLE  346 (826)
Q Consensus       269 ~~~ddIiVPm~~wdl~~~~~~~ii~~~~~dw~~nL~iIlkySPF~tE~eLl~Qfd~I-g~~G-TrIII~NL~~~~~G~lE  346 (826)
                      +..+.++||+++|+...+.   ++   .+.+..+|++|+.+|||++++.++.++++| +..| |.+||+|+++...|.++
T Consensus        70 ~~~~~vvvP~~t~~~~~~~---~~---~~k~~~~l~~~~c~sfwKag~~~~a~~~~~~~~~G~~~~iivhpkflhsnats  143 (775)
T KOG1845|consen   70 EADDAVVVPCPTFNPRTRE---IV---TEKFAFSLEAIYCRSFWKAGDYLLAELDVIIGKSGGTLHIIVHPKFLHSNATS  143 (775)
T ss_pred             cccccceeccccccccccc---cc---ccccccccchhhhcCcccccchhcccccceeccCCceeEEEEehhhhcCCCcc
Confidence            9999999999999977642   22   266788899999999999999999999998 5655 99999999999999999


Q ss_pred             ccCCCCccceecccCcchhhhhhhhccCCCCcchhhhhhhHHHHHHHHhhcCCCceEEEEeCeeeccccccccc--cccc
Q 003366          347 LDFDSDKHDIQLRGVNRDEQNIKMAQHYPNSRHFLTYRHSLRSYASILYLRLPPGFRIIIRGKDVEHHNIVNDM--MLSK  424 (826)
Q Consensus       347 LDFdtD~~DI~i~g~~~d~k~~q~a~~~p~~~h~~~~~~SLRaYLSILYLr~pPrmrIiLrGkkVe~~ni~~dL--~~~e  424 (826)
                      ++|..|+.||++.++. |+        ++       .+.   .|+.++|+.  |+|.|++++..|++.++..++  |.++
T Consensus       144 hk~a~~a~aeLldnal-DE--------i~-------~~~---tf~~vd~I~--p~~d~~i~a~~v~~~~~s~~gg~~~~~  202 (775)
T KOG1845|consen  144 HKWAKGAIAELLDNAL-DE--------IT-------NGA---TFVRVDYIN--PVMDIFIRALVVQLKRISDDGGGMKPE  202 (775)
T ss_pred             cccccChhhhhccccc-cc--------cc-------ccc---ceEEeeeec--ccccccceeEEeeccceeccccccCHH
Confidence            9999999999996543 21        12       122   458999996  999999999999998866663  2222


Q ss_pred             ceEeeccCCCCCCCCcc-cceEEEEEeeecCcccccccccceEEecCccchhhhhcccCCCCCCcceeeeeecCccccCC
Q 003366          425 KVTYRPQPGASGIPTDL-HMAVDVTIGFVKDAKHHIDVQGFNVYHKNRLIKPFWRLWNASGSDGRGVIGVLEANFVEPAH  503 (826)
Q Consensus       425 ~v~YrPq~~~~~lP~~~-n~~v~itiGf~k~a~~~~diqGf~VYhkNRLIkpy~rVg~~~~s~GrGVIGVlEanflePtH  503 (826)
                      .+.+ ....+-.-.... ..+.+...||.+....    .|..+|+-+|.  .     ...+.++.+.||+|..+||++||
T Consensus       203 ~i~~-~m~l~~~~k~e~~~tv~q~~~gfktst~r----lGa~~i~~~R~--~-----~~~~~kstqsiglls~tfL~~t~  270 (775)
T KOG1845|consen  203 VIRK-CMSLGYSSKKEANSTVGQYGNGFKTSTMR----LGADAIVFSRC--E-----SRRGLKSTQSIGLLSYTFLRKTG  270 (775)
T ss_pred             HHHH-HHHhhhhhhhhhhhhhhhhccccccchhh----hccceeEeehh--h-----hhccCCcceeEEEEEEeeecccc
Confidence            1111 110000000011 1233556777776653    59999999997  1     23467888999999999999999


Q ss_pred             ccccccchHHHHHHHHHHHHHHHHHh
Q 003366          504 DKQGFERTTVLARLEARLIQMQKDYW  529 (826)
Q Consensus       504 NKQdFe~t~l~~rLe~~L~qm~~~YW  529 (826)
                       |+||-+..   ++.....+.-.+||
T Consensus       271 -~~d~iv~~---~~i~~~~e~~~~~~  292 (775)
T KOG1845|consen  271 -KRDFIVPM---RLIKMDYEKSDQLW  292 (775)
T ss_pred             -CCceeEec---chhhhhhhcccccc
Confidence             99999866   33333333444444

>PRK05218 heat shock protein 90; Provisional

Probab=99.72  E-value=2.2e-17  Score=191.05  Aligned_cols=114  Identities=27%  Similarity=0.452  Sum_probs=88.8

Q ss_pred             CCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEE
Q 003366          124 GGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRML  190 (826)
Q Consensus       124 ~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L  190 (826)
                      ..||+++.++..+-+|.-|      ++...|  |+|||.||+||+.+             ++....|.+..+.  +...|
T Consensus         6 ~~Fq~e~~~ll~ll~~~LY------s~~~v~--lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~I~I~~d~--~~~~i   75 (613)
T PRK05218          6 GEFQAEVKQLLHLMIHSLY------SNKEIF--LRELISNASDAIDKLRFEALTDPALYEGDGDLKIRISFDK--EARTL   75 (613)
T ss_pred             eehhHhHHHHHHHHhhhhc------CCchHH--HHHHHhCHHHHHHHHHHHhccCccccCCCCCcEEEEEEcC--CCCeE
Confidence            4589999999999999888      666665  99999999999752             2334566665443  33469


Q ss_pred             EEEECCCCCCHHHHhhh-ccccccccc-----------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          191 LIEDNGGGMNPDKMRHC-MSLGYSAKS-----------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       191 ~I~DNG~GMs~eeL~~~-LsfG~SsK~-----------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .|.|||+||+.++|... +++|+|.+.           .....||+||+||++++| +|.+|+|.||+.+
T Consensus        76 ~I~DnG~GMt~eel~~~l~~ia~Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f~-va~~v~V~Sr~~~  144 (613)
T PRK05218         76 TISDNGIGMTREEVIENLGTIAKSGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAFM-VADKVTVITRSAG  144 (613)
T ss_pred             EEEECCCCCCHHHHHHHHHhhccccchhHHHHhhcccccccccccccCcCchhhhh-ccCEEEEEEcCCC
Confidence            99999999999999974 467776421           124679999999997655 8999999999865

>PF13589 HATPase_c_3: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; PDB: 3IED_A 2XCM_B 2JKI_B 3OPD_A 2O1V_B 2GQP_A 2O1W_C 1YT2_A 1TC6_A 2H8M_B

Probab=99.68  E-value=1.3e-17  Score=158.45  Aligned_cols=92  Identities=37%  Similarity=0.613  Sum_probs=78.5

Q ss_pred             HHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc--CCcccCcccCcccc
Q 003366          154 LGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK--AANTIGQYGNGFKT  231 (826)
Q Consensus       154 FgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~--~~~~IGrfG~GfKs  231 (826)
                      ..||+|||+||+||   .|+.|.|.+.... .+...|.|.|||.||++++|..++.+|.+.+..  ....+|+||+|+|.
T Consensus         4 ~~al~ElI~Ns~DA---~a~~I~I~i~~~~-~~~~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~~~~~~~~G~~G~G~k~   79 (137)
T PF13589_consen    4 EDALRELIDNSIDA---GATNIKISIDEDK-KGERYIVIEDNGEGMSREDLESFFRIGRSSKKSEKDRQSIGRFGIGLKL   79 (137)
T ss_dssp             THHHHHHHHHHHHH---HHHHEEEEEEEET-TTTTEEEEEESSS---HHHHHHHTTCHHTHHHHHHHGGGGGGGTSGCGG
T ss_pred             HHHHHHHHHHHHHc---cCCEEEEEEEcCC-CCCcEEEEEECCcCCCHHHHHHhccccCCCCCchhhhhcCCCcceEHHH
Confidence            47999999999999   6888999987653 356799999999999999999999999998853  35789999999999


Q ss_pred             cccccCCeEEEEeeecCC
Q 003366          232 STMRLGADVIVFSCCCGK  249 (826)
Q Consensus       232 AsmrLG~~v~V~SK~~g~  249 (826)
                      |++.+|..+.|+|+..+.
T Consensus        80 A~~~~~~~~~v~S~~~~~   97 (137)
T PF13589_consen   80 AIFSLGDRVEVISKTNGE   97 (137)
T ss_dssp             GGGGTEEEEEEEEESTTS
T ss_pred             HHHHhcCEEEEEEEECCC
Confidence            999999999999998764

...

>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]

Probab=99.66  E-value=6.4e-17  Score=185.19  Aligned_cols=132  Identities=26%  Similarity=0.384  Sum_probs=105.4

Q ss_pred             CCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-------------CceEEEEEEEccCCCceEE
Q 003366          124 GGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-------------ATYSNIDMLINRKDGSRML  190 (826)
Q Consensus       124 ~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-------------At~V~Idi~~~~~~g~~~L  190 (826)
                      ..||+++++|.++.+|.-|      |++.+|  |+|||.||.||+.+-             ...++|.+..++  .+..|
T Consensus         7 ~~Fq~ev~~ll~lmihSlY------SnKeIF--LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk--~~kTL   76 (623)
T COG0326           7 RGFQAEVKQLLDLMIHSLY------SNKEIF--LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDK--DNKTL   76 (623)
T ss_pred             hhhhHHHHHHHHHHHHhcc------CCcHHH--HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcc--cCCEE
Confidence            3599999999999999999      999999  999999999998761             124677776665  56799


Q ss_pred             EEEECCCCCCHHHHhhhcc-ccccccc----------cCCcccCcccCcccccccccCCeEEEEeeecCCCCCCCeeeee
Q 003366          191 LIEDNGGGMNPDKMRHCMS-LGYSAKS----------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIG  259 (826)
Q Consensus       191 ~I~DNG~GMs~eeL~~~Ls-fG~SsK~----------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~dg~~~t~Svg  259 (826)
                      +|.|||+||+.+|+++.|. ++.|...          ++...|||||+||+||+| ++.+|+|+||+.|.+....|.|-|
T Consensus        77 tI~DNGIGMT~~Ev~~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~T~~~~~~~~~~W~S~g  155 (623)
T COG0326          77 TISDNGIGMTKDEVIENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFM-VADKVTVITRSAGEDEAYHWESDG  155 (623)
T ss_pred             EEEeCCCCCCHHHHHHHHHHhhhccHHHHHHHhccccccccccccccchhhheee-eeeeEEEEeccCCCCcceEEEEcC
Confidence            9999999999999999762 4444321          124569999999999999 999999999999864444666777


Q ss_pred             ccceeec
Q 003366          260 LLSYTFL  266 (826)
Q Consensus       260 LLS~Tfl  266 (826)
                      -=.||.-
T Consensus       156 ~g~ytv~  162 (623)
T COG0326         156 EGEYTVE  162 (623)
T ss_pred             CCceEEe
Confidence            6556543

>PRK14083 HSP90 family protein; Provisional

Probab=99.62  E-value=1.1e-15  Score=176.71  Aligned_cols=113  Identities=21%  Similarity=0.414  Sum_probs=89.4

Q ss_pred             CCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-------CceEEEEEEEccCCCceEEEEEECC
Q 003366          124 GGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-------ATYSNIDMLINRKDGSRMLLIEDNG  196 (826)
Q Consensus       124 ~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-------At~V~Idi~~~~~~g~~~L~I~DNG  196 (826)
                      ..||+++.++.++-.+.-|      ++.+.|  |+|||.||+||+...       ...|.|.+. +  .+...|.|.|||
T Consensus         3 ~~Fqae~~~ll~ll~~~LY------s~~~if--lrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-d--~~~~~l~I~DnG   71 (601)
T PRK14083          3 HRFQVDLRGVIDLLSRHLY------SSPRVY--VRELLQNAVDAITARRALDPTAPGRIRIELT-D--AGGGTLIVEDNG   71 (601)
T ss_pred             ccchHhHHHHHHHHHHhhc------CCcHHH--HHHHHHhHHHHHHhhhccCCCCCceEEEEEc-c--CCCcEEEEEeCC
Confidence            3589999999998888888      666654  999999999996531       114555542 2  346789999999


Q ss_pred             CCCCHHHHhh-hccccccccccC------CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          197 GGMNPDKMRH-CMSLGYSAKSKA------ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       197 ~GMs~eeL~~-~LsfG~SsK~~~------~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      +||+.+++.+ ++.+|.|.+...      ...||+||+||++++| +|..|.|.||..+
T Consensus        72 iGmt~eel~~~l~~ig~S~k~~~~~~~~~~~~IG~FGIGf~S~F~-vad~v~V~Tr~~~  129 (601)
T PRK14083         72 IGLTEEEVHEFLATIGRSSKRDENLGFARNDFLGQFGIGLLSCFL-VADEIVVVSRSAK  129 (601)
T ss_pred             CCCCHHHHHHHHhhhccchhhhhhhcccccccccccccceEEEEE-ecCEEEEEeccCC
Confidence            9999999998 567998887532      3579999999998777 9999999999753

>PTZ00130 heat shock protein 90; Provisional

Probab=99.55  E-value=2.8e-15  Score=176.64  Aligned_cols=131  Identities=21%  Similarity=0.324  Sum_probs=102.5

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.+|.++.+|.-|      |++.+|  |+|||.||+||+.+             ....+.|.+..+.  ....|+
T Consensus        69 ~FQaEv~~Lldiii~sLY------S~keIF--LRELISNAsDAldKlr~~~lt~~~~~~~~~~~~I~I~~D~--~~~tLt  138 (814)
T PTZ00130         69 QYQTEVTRLMDIIVNSLY------TQKEVF--LRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANK--EKNILS  138 (814)
T ss_pred             ehHHHHHHHHHHHhhccC------CCCCce--eehHhhhHHHHHHHHHHHHcCCchhcCCCCCceEEEEECC--CCCEEE
Confidence            499999999999999999      999988  99999999999862             1135677776543  456899


Q ss_pred             EEECCCCCCHHHHhhh-ccccccccc----------cCCcccCcccCcccccccccCCeEEEEeeecCCCCCCCeeeeec
Q 003366          192 IEDNGGGMNPDKMRHC-MSLGYSAKS----------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGL  260 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~-LsfG~SsK~----------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~dg~~~t~SvgL  260 (826)
                      |.|||+||+.++|.+. ..+|+|...          .....|||||+||++++| +|.+|+|+||+.+.. ...|.|-|-
T Consensus       139 I~DnGIGMT~eEl~~nLgTIA~Sgt~~F~~~l~~~~~~~~lIGQFGVGFYSaFm-VAdkV~V~Trs~~~~-~~~W~s~g~  216 (814)
T PTZ00130        139 ITDTGIGMTKEDLINNLGTIAKSGTSNFLEAISKSGGDMSLIGQFGVGFYSAFL-VADKVIVYTKNNNDE-QYIWESTAD  216 (814)
T ss_pred             EEECCCCCCHHHHHHHhhhhcccccHHHHHHhhccCCCcccccccccchhheee-ecCEEEEEEcCCCCc-eEEEEECCC
Confidence            9999999999999874 456665421          124589999999999988 999999999987633 345666665


Q ss_pred             cceeecc
Q 003366          261 LSYTFLR  267 (826)
Q Consensus       261 LS~Tfl~  267 (826)
                      -+|+.-+
T Consensus       217 g~y~I~e  223 (814)
T PTZ00130        217 AKFTIYK  223 (814)
T ss_pred             CcEEEEE
Confidence            6666554

>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional

Probab=99.48  E-value=2.6e-14  Score=167.44  Aligned_cols=113  Identities=21%  Similarity=0.334  Sum_probs=91.2

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++++|.++.+|.-|      |++..|  |+|||.||.||+.+             ....+.|.+..+.  ....|.
T Consensus         6 ~Fqae~~~Ll~lli~slY------s~~~if--lRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~--~~~~L~   75 (701)
T PTZ00272          6 AFQAEINQLMSLIINTFY------SNKEIF--LRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDK--ENKTLT   75 (701)
T ss_pred             ecHHHHHHHHHHHHhccc------CCccHh--HHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcC--CCCEEE
Confidence            599999999999999999      999988  99999999999753             1223566665543  346899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||+.+||.+.| .+|.|...         .....||+||+||.+++| +|..|.|.||+.+
T Consensus        76 I~DnGiGMt~edl~~~LgtIa~SGt~~f~~~~~~~~~~~~iGqFGvGfyS~Fm-vad~V~V~Srs~~  141 (701)
T PTZ00272         76 VEDNGIGMTKADLVNNLGTIARSGTKAFMEALEAGGDMSMIGQFGVGFYSAYL-VADRVTVTSKNNS  141 (701)
T ss_pred             EEECCCCCCHHHHHHHhhhhhhcchHHHHHHhhccCCccccCCCCcceEEEEE-eccEEEEEEecCC
Confidence            99999999999988854 46665321         123589999999999888 9999999999764

>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]

Probab=99.25  E-value=4.4e-12  Score=144.38  Aligned_cols=134  Identities=26%  Similarity=0.390  Sum_probs=107.6

Q ss_pred             CCCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-----------CCceEEEEEEEccCCCceEEE
Q 003366          123 SGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-----------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       123 ~~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-----------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      ...||++++++..+.++.-|      ||+-.|  ++|||.||.||..+           ......|.++.++  ....|+
T Consensus        36 t~~fqaE~~qLm~lii~s~Y------S~kEvF--lRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk--~~~tlt  105 (656)
T KOG0019|consen   36 THEFQAETNQLMDIVAKSLY------SHKEVF--LRELISNASDALEKLRYLELKGDEKALPELEIRIITNK--DKRTIT  105 (656)
T ss_pred             ceehhhhHHhHHHHHHHHhh------cchHHH--HHhhhccccchHHHHHHHhhcCccccccceeEEeccCC--CcceEE
Confidence            34699999999999999999      889999  99999999999765           1234677777665  567899


Q ss_pred             EEECCCCCCHHHHhhhcccccccccc-----------C--CcccCcccCcccccccccCCeEEEEeeecCCCCCCCeeee
Q 003366          192 IEDNGGGMNPDKMRHCMSLGYSAKSK-----------A--ANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSI  258 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~LsfG~SsK~~-----------~--~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~dg~~~t~Sv  258 (826)
                      |.|.|+||+.+||.+++  |+..+..           .  .+.|||||+||++|+| .+.+|.|+||+...+ ...|-+-
T Consensus       106 i~DtGIGMTk~dLvnnL--GTIAkSGtK~Fmealkea~ad~~~IGQFGvGFYSayl-VAdkV~V~tk~~~~e-~y~Wes~  181 (656)
T KOG0019|consen  106 IQDTGIGMTKEDLVNNL--GTIAKSGSKAFLEALKEAEAESNLIGQFGVGFYSAFM-VADRVVVTTRHPADE-GLQWTSN  181 (656)
T ss_pred             EEecCCCcCHHHHHhhh--hhhhhcccHHHHHHHHhcccchhhhhhcccchhhhhh-hhheeEEeeccCCCc-ceeeecC
Confidence            99999999999999987  6554421           1  2579999999999998 999999999987643 5667777


Q ss_pred             eccceeecccCC
Q 003366          259 GLLSYTFLRSTG  270 (826)
Q Consensus       259 gLLS~Tfl~~~~  270 (826)
                      +--|++.-+.++
T Consensus       182 ~~gs~~v~~~~~  193 (656)
T KOG0019|consen  182 GRGSYEIAEASG  193 (656)
T ss_pred             CCCceEEeeccC
Confidence            777777665554

>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]

Probab=99.18  E-value=6.5e-12  Score=139.95  Aligned_cols=111  Identities=23%  Similarity=0.369  Sum_probs=89.6

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++++|-.+-|+..|      .++.+|  ++|||.||.||..+             ....+.|.+..++  ....|.
T Consensus        76 ~FQaEVnRmMklIINSLY------~NKeIF--LRELISNASDAlDKIRllaLtd~~~L~~~~el~ikIK~Dk--e~klLh  145 (785)
T KOG0020|consen   76 EFQAEVNRMMKLIINSLY------RNKEIF--LRELISNASDALDKIRLLALTDKDVLGETEELEIKIKADK--EKKLLH  145 (785)
T ss_pred             hHHHHHHHHHHHHHHHHh------hhhHHH--HHHHHhhhhhhhhheeeeeccChhHhCcCcceEEEEeech--hhCeee
Confidence            499999999999999999      889999  99999999999765             1123456655443  456899


Q ss_pred             EEECCCCCCHHHHhhhcccccccccc-----------------CCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCMSLGYSAKSK-----------------AANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~LsfG~SsK~~-----------------~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|.|.||++++|.+.|  |+..|..                 ..+.|||||+||++|++ ++..|+|.||+++
T Consensus       146 i~DtGiGMT~edLi~NL--GTIAkSGTs~Fl~Km~~~~~~~~~~~dlIGQFGVGFYsAfL-VAD~vvVtsKhNd  216 (785)
T KOG0020|consen  146 ITDTGIGMTREDLIKNL--GTIAKSGTSEFLEKMQDSGDSEGLMNDLIGQFGVGFYSAFL-VADRVVVTSKHND  216 (785)
T ss_pred             EecccCCccHHHHHHhh--hhhhcccHHHHHHHhhccccchhhHHHHHHhcchhhhhhhh-hcceEEEEeccCC
Confidence            99999999999999876  5544421                 02569999999998887 8999999999875

>TIGR00585 mutl DNA mismatch repair protein MutL

Probab=98.95  E-value=1.6e-09  Score=116.16  Aligned_cols=89  Identities=20%  Similarity=0.363  Sum_probs=71.0

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC------CcccC
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA------ANTIG  223 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~------~~~IG  223 (826)
                      -..|..||.|||+||+||   +|+.|.|.+..   ++...|.|.|||.||+++++..++..++++|...      ....|
T Consensus        20 i~~~~~~l~eLi~Na~dA---~a~~I~i~~~~---~~~~~i~V~DnG~Gi~~~~l~~~~~~~~tsk~~~~~~~~~~~~~G   93 (312)
T TIGR00585        20 IERPASVVKELVENSLDA---GATRIDVEIEE---GGLKLIEVSDNGSGIDKEDLPLACERHATSKIQSFEDLERIETLG   93 (312)
T ss_pred             hhhHHHHHHHHHHHHHHC---CCCEEEEEEEe---CCEEEEEEEecCCCCCHHHHHHHhhCCCcCCCCChhHhhcccccC
Confidence            477889999999999999   89988888754   3445699999999999999999777666666432      24689


Q ss_pred             cccCcccccccccCCeEEEEeee
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCC  246 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~  246 (826)
                      ..|.||.+  ++...+|+|.||.
T Consensus        94 ~rG~al~s--i~~~s~~~i~S~~  114 (312)
T TIGR00585        94 FRGEALAS--ISSVSRLTITTKT  114 (312)
T ss_pred             ccchHHHH--HHhhCcEEEEEee
Confidence            99999854  3344589999997

All proteins in this family for which the functions are known are involved in the process of generalized mismatch repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PRK00095 mutL DNA mismatch repair protein; Reviewed

Probab=98.93  E-value=1.8e-09  Score=126.06  Aligned_cols=91  Identities=21%  Similarity=0.366  Sum_probs=74.7

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCC------cccC
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAA------NTIG  223 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~------~~IG  223 (826)
                      -..|.++|.|||+||+||   +|+.|.|.+..   +|...|.|.|||.||+++++..++..++++|....      .+.|
T Consensus        20 I~~~~svvkElveNsiDA---gat~I~v~i~~---~g~~~i~V~DnG~Gi~~~~~~~~~~~~~tsKi~~~~dl~~~~t~G   93 (617)
T PRK00095         20 VERPASVVKELVENALDA---GATRIDIEIEE---GGLKLIRVRDNGCGISKEDLALALARHATSKIASLDDLEAIRTLG   93 (617)
T ss_pred             ccCHHHHHHHHHHHHHhC---CCCEEEEEEEe---CCeEEEEEEEcCCCCCHHHHHHHhhccCCCCCCChhHhhccccCC
Confidence            478899999999999999   99999999853   46678999999999999999998877777775431      4689


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      ..|.|+.+.+ .+ .+++|.||+.+
T Consensus        94 frGeAL~sI~-~v-s~l~i~s~~~~  116 (617)
T PRK00095         94 FRGEALPSIA-SV-SRLTLTSRTAD  116 (617)
T ss_pred             cchhHHHhhh-hc-eEEEEEEecCC
Confidence            9999986433 34 58999999864

>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]

Probab=98.92  E-value=1.5e-09  Score=127.14  Aligned_cols=91  Identities=22%  Similarity=0.353  Sum_probs=74.1

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCC------cccC
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAA------NTIG  223 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~------~~IG  223 (826)
                      -..|.+||.|||+||+||   ||+.|.|.+..   +|...|.|.|||+||+++||.-++.-.+.+|....      .++|
T Consensus        21 IerPaSVVKELVENSlDA---GAt~I~I~ve~---gG~~~I~V~DNG~Gi~~~Dl~la~~rHaTSKI~~~~DL~~I~TlG   94 (638)
T COG0323          21 IERPASVVKELVENSLDA---GATRIDIEVEG---GGLKLIRVRDNGSGIDKEDLPLALLRHATSKIASLEDLFRIRTLG   94 (638)
T ss_pred             eecHHHHHHHHHhccccc---CCCEEEEEEcc---CCccEEEEEECCCCCCHHHHHHHHhhhccccCCchhHHHHhhccC
Confidence            467899999999999999   99999988853   57888999999999999999998766666675432      4567


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .-|-.|  ++++-..+++|.||+.+
T Consensus        95 FRGEAL--~SIasVsrlti~Srt~~  117 (638)
T COG0323          95 FRGEAL--ASIASVSRLTITSRTAE  117 (638)
T ss_pred             ccHHHH--HHHHhhheeEEEeecCC
Confidence            777665  45666799999999654

>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]

Probab=98.72  E-value=6.5e-08  Score=108.50  Aligned_cols=97  Identities=24%  Similarity=0.336  Sum_probs=73.6

Q ss_pred             ccHHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-ccccccc-cCCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKS-KAANTIGQYG  226 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~-~~~~~IGrfG  226 (826)
                      +....+|.|||+||+||+....  ..|.|.+.... .+...+.|.|||.|+.++.+-+++. +=+++|. ...++.||||
T Consensus        35 RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~-~d~y~v~veDNGpGIP~e~IPkvFGk~LygSKfh~~~QsRGqqG  113 (538)
T COG1389          35 RSLTTTVHELVTNSLDACEEAGILPDIKVEIERIG-KDHYKVIVEDNGPGIPEEQIPKVFGKMLYGSKFHRNIQSRGQQG  113 (538)
T ss_pred             hHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecC-CceEEEEEecCCCCCChhHhHHHHHHHhccchhhhhhhcccccc
Confidence            4566889999999999976421  34555554332 3567899999999999999998752 2255565 4568899999


Q ss_pred             Ccccc----cccccCCeEEEEeeecC
Q 003366          227 NGFKT----STMRLGADVIVFSCCCG  248 (826)
Q Consensus       227 ~GfKs----AsmrLG~~v~V~SK~~g  248 (826)
                      +|.+.    +.|..|+.|.|+|++.+
T Consensus       114 iGis~avLysQmTtGkPv~V~s~T~~  139 (538)
T COG1389         114 IGISAAVLYSQMTTGKPVRVISSTGD  139 (538)
T ss_pred             ccHHHHHHHHHhcCCCceEEEecCCC
Confidence            99986    45678999999999875

>PRK05559 DNA topoisomerase IV subunit B; Reviewed

Probab=98.31  E-value=8.1e-07  Score=104.48  Aligned_cols=123  Identities=21%  Similarity=0.257  Sum_probs=90.5

Q ss_pred             ccCCCCCCCCCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEE
Q 003366          115 AGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIE  193 (826)
Q Consensus       115 ag~y~~~~~~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~  193 (826)
                      +.+|++...    ..-.++.|++.-|...- -||...-|...|.||||||+|+...+ |+.|.|.+..   +  ..|+|.
T Consensus         5 ~~~y~~~~i----~~L~~lE~VrkRP~mYi-Gs~~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~---d--g~I~V~   74 (631)
T PRK05559          5 TNNYNADSI----EVLEGLEPVRKRPGMYI-GSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHA---D--GSVSVR   74 (631)
T ss_pred             cCCCCHHHC----eeccchHHHhcCCCcee-CCCCCchhhhhhhhhhccccchhhcCCCCEEEEEEeC---C--CcEEEE
Confidence            345665432    12367899999997532 45566788899999999999986554 7888888853   2  279999


Q ss_pred             ECCCCCCHHHHhh--------hcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          194 DNGGGMNPDKMRH--------CMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       194 DNG~GMs~eeL~~--------~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |||.||+.+.+..        +|. +..++|...   ..+.|..|+|++... .++..++|.|++.|
T Consensus        75 DnGrGIP~~~~~~~~~~~~E~v~t~lhagsKf~~~~yk~SgGl~GvGls~vN-alS~~l~V~s~r~g  140 (631)
T PRK05559         75 DNGRGIPVGIHPEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVN-ALSSRLEVEVKRDG  140 (631)
T ss_pred             EcCCCCCcccccccCCcchheeeeeccccCccCCccccccCcccccchhhhh-hheeeEEEEEEeCC
Confidence            9999999998887        443 344555432   357899999987544 48899999999765

>TIGR01052 top6b DNA topoisomerase VI, B subunit

Probab=98.23  E-value=2.4e-06  Score=97.80  Aligned_cols=99  Identities=21%  Similarity=0.265  Sum_probs=71.2

Q ss_pred             ccccHHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-cccccccc-CCcccCc
Q 003366          149 SHKWALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSK-AANTIGQ  224 (826)
Q Consensus       149 SH~wpFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~-~~~~IGr  224 (826)
                      -...+..++.|||+||+||.....  ..|.|.+.... .+...|.|.|||.||+++++..++. |.+++|.. .....|.
T Consensus        25 ~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g-~~~~~I~V~DNG~GIp~edl~~iF~rf~~tsK~~~~~~s~G~  103 (488)
T TIGR01052        25 KIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIG-KDHYKVTVEDNGPGIPEEYIPKVFGKMLAGSKFHRIIQSRGQ  103 (488)
T ss_pred             CHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECC-CceEEEEEEECCCCCCHHHHHhhhhhccccCccccccccCCC
Confidence            346677899999999999954211  14666664321 1234799999999999999999765 56666643 3456799


Q ss_pred             ccCccccccc----ccCCeEEEEeeecC
Q 003366          225 YGNGFKTSTM----RLGADVIVFSCCCG  248 (826)
Q Consensus       225 fG~GfKsAsm----rLG~~v~V~SK~~g  248 (826)
                      +|+|+.++.+    ..|..+.|.|+..|
T Consensus       104 ~GlGLs~~~~isq~~~G~~i~V~S~~~g  131 (488)
T TIGR01052       104 QGIGISGAVLYSQMTTGKPVKVISSTGG  131 (488)
T ss_pred             ccEehhHHHHHHHHcCCceEEEEEecCC
Confidence            9999986443    34567999999765

This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).

>PF02518 HATPase_c: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; InterPro: IPR003594 This domain is found in several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases [], heat shock protein HSP90 [, , ], phytochrome-like ATPases and DNA mismatch repair proteins

Probab=98.22  E-value=3e-06  Score=76.12  Aligned_cols=91  Identities=22%  Similarity=0.333  Sum_probs=67.4

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTS  232 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsA  232 (826)
                      +..+|.||++||+++...+ ..|.|.+...  ++...|.|.|||.||+++++..++.-+++.+. .....+.+|+||..+
T Consensus         6 l~~il~~ll~Na~~~~~~~-~~I~i~~~~~--~~~~~i~i~d~G~gi~~~~l~~~~~~~~~~~~-~~~~~~g~GlGL~~~   81 (111)
T PF02518_consen    6 LRQILSELLDNAIKHSPEG-GKIDITIEED--DDHLSIEISDNGVGIPPEELEKLFEPFFTSDK-SETSISGHGLGLYIV   81 (111)
T ss_dssp             HHHHHHHHHHHHHHHHHHT-SEEEEEEEEE--TTEEEEEEEESSSSTTHHHHHHHCSTTSHSSS-SSGGSSSSSHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCC-CEEEEEEEEe--cCeEEEEEEeccccccccccccchhhcccccc-cccccCCCChHHHHH
Confidence            4578999999999996532 4677777554  36789999999999999999998876655443 345567799999754


Q ss_pred             cc---ccCCeEEEEeeec
Q 003366          233 TM---RLGADVIVFSCCC  247 (826)
Q Consensus       233 sm---rLG~~v~V~SK~~  247 (826)
                      ..   .++-++.+.+...
T Consensus        82 ~~~~~~~~g~l~~~~~~~   99 (111)
T PF02518_consen   82 KQIAERHGGELTIESSEG   99 (111)
T ss_dssp             HHHHHHTTEEEEEEEETT
T ss_pred             HHHHHHCCCEEEEEEcCC
Confidence            33   4566677777643

The fold of this domain consists of two layers, alpha/beta, which contains an 8-stranded mixed beta-sheet. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0005524 ATP binding; PDB: 3JZ3_A 3DGE_A 2C2A_A 2BU5_A 2BU8_A 2BU6_A 2BU7_A 2BU2_A 2BTZ_A 3K99_D ....

>PRK04184 DNA topoisomerase VI subunit B; Validated

Probab=98.20  E-value=2.9e-06  Score=98.14  Aligned_cols=98  Identities=27%  Similarity=0.382  Sum_probs=69.0

Q ss_pred             ccHHHHHHHHhccchhhhhCCC--ceEEEEEEEcc-CCCceEEEEEECCCCCCHHHHhhhcc-ccccccccC-CcccCcc
Q 003366          151 KWALGAFAELLDNSLDEVCNGA--TYSNIDMLINR-KDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKA-ANTIGQY  225 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~-~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~-~~~IGrf  225 (826)
                      .....+|.|||+||+||.....  ..|.|.+.... .++...|.|.|||.||+++++..++. |-+.+|... ....|.+
T Consensus        35 ~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~DNG~GIp~e~l~~iF~~f~~~SK~~~~~~s~G~~  114 (535)
T PRK04184         35 RALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSKFHNLRQSRGQQ  114 (535)
T ss_pred             HHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEcCCCCCCHHHHHHHhhhhhccccccccccCCCCC
Confidence            3356889999999999954211  14666664321 13456799999999999999999764 445555433 4567999


Q ss_pred             cCccccccc----ccCCeEEEEeeecC
Q 003366          226 GNGFKTSTM----RLGADVIVFSCCCG  248 (826)
Q Consensus       226 G~GfKsAsm----rLG~~v~V~SK~~g  248 (826)
                      |+||..+.+    ..|..+.|.|+..+
T Consensus       115 GLGLsiv~~isq~~~G~~I~V~S~~~~  141 (535)
T PRK04184        115 GIGISAAVLYAQMTTGKPVRVISSTGG  141 (535)
T ss_pred             CcchHHHHHHHHHhcCCcEEEEEecCC
Confidence            999986543    34677999998754

>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]

Probab=98.15  E-value=6.3e-06  Score=94.81  Aligned_cols=91  Identities=26%  Similarity=0.384  Sum_probs=70.0

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh-hcccccccccc--CC---cccC
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH-CMSLGYSAKSK--AA---NTIG  223 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~-~LsfG~SsK~~--~~---~~IG  223 (826)
                      ..-|..||.|||.||+||   ++|.|.|.+.   .+|-..|.|.|||.|+-++||.- |=+|-+|--.+  +-   .+.|
T Consensus        25 I~RP~NAlKEliENSLDA---~ST~I~V~vk---~GGLKLlQisDnG~GI~reDl~ilCeRftTSKL~kFEDL~~lsTyG   98 (694)
T KOG1979|consen   25 IQRPVNALKELIENSLDA---NSTSIDVLVK---DGGLKLLQISDNGSGIRREDLPILCERFTTSKLTKFEDLFSLSTYG   98 (694)
T ss_pred             hhchHHHHHHHHhccccC---CCceEEEEEe---cCCeEEEEEecCCCccchhhhHHHHHHhhhhhcchhHHHHhhhhcC
Confidence            467889999999999999   8997777764   36778899999999999999986 55676653211  11   3445


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      ..|-.  .|+|+-.++|+|.||..+
T Consensus        99 FRGEA--LASiShVA~VtV~TK~~~  121 (694)
T KOG1979|consen   99 FRGEA--LASISHVAHVTVTTKTAE  121 (694)
T ss_pred             ccHHH--HhhhhheeEEEEEEeecC
Confidence            55544  478888999999999875

>PRK14868 DNA topoisomerase VI subunit B; Provisional

Probab=98.14  E-value=3.7e-06  Score=99.93  Aligned_cols=96  Identities=23%  Similarity=0.331  Sum_probs=70.7

Q ss_pred             ccHHHHHHHHhccchhhhhCCCc--eEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-ccccccccC-CcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGAT--YSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKA-ANTIGQYG  226 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt--~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~-~~~IGrfG  226 (826)
                      .++..+|.|||+||+||...+..  .|.|.+...  +....|.|.|||.||+++++.+++. |.+.+|... ....|+.|
T Consensus        45 r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~--g~~v~I~VeDNG~GIp~EdLp~IFerf~~tSKf~~~~~srG~rG  122 (795)
T PRK14868         45 RGLVTAVKEAVDNALDATEEAGILPDIYVEIEEV--GDYYRLVVEDNGPGITKEQIPKVFGKLLYGSRFHAREQSRGQQG  122 (795)
T ss_pred             HHHHHHHHHHHHHHHHhCcccCCCceEEEEEEEC--CCEEEEEEEEcCCCCCHHHHHHHhhhhcccccccccccCCCCCc
Confidence            56778999999999999432111  466666432  3345799999999999999999874 666666433 35679999


Q ss_pred             Cccccccc----ccCCeEEEEeeecC
Q 003366          227 NGFKTSTM----RLGADVIVFSCCCG  248 (826)
Q Consensus       227 ~GfKsAsm----rLG~~v~V~SK~~g  248 (826)
                      +|+.++..    ..|..+.|.|+..+
T Consensus       123 ~GLglai~~sqlt~GgpI~I~S~~~~  148 (795)
T PRK14868        123 IGISAAVLYSQLTSGKPAKITSRTQG  148 (795)
T ss_pred             eehHHHHHHHHHcCCCcEEEEeCCCC
Confidence            99986543    34788999999754

>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial

Probab=98.04  E-value=4.2e-06  Score=98.50  Aligned_cols=108  Identities=24%  Similarity=0.264  Sum_probs=78.2

Q ss_pred             CCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-CCceEEEEEEEccCCCceEEEEEECCCCCCHHH------
Q 003366          131 GGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK------  203 (826)
Q Consensus       131 ~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~ee------  203 (826)
                      .++.+||.-|-..- -||   .|..+|.||||||+|...+ .|+.|.|.+..    + ..|+|.|||.||+.++      
T Consensus        13 ~gle~VRkRPgMYi-gs~---~~~~lv~ElvdNsiDE~~ag~a~~I~V~i~~----d-~~I~V~DnGrGIp~~~h~~~g~   83 (625)
T TIGR01055        13 DGLEPVRKRPGMYT-DTT---RPNHLVQEVIDNSVDEALAGFASIIMVILHQ----D-QSIEVFDNGRGMPVDIHPKEGV   83 (625)
T ss_pred             cccHHhhcCCCCee-CCC---CcceeehhhhhcccchhhcCCCCEEEEEEeC----C-CeEEEEecCCccCcccccccCC
Confidence            67888888886432 222   1346899999999993333 58989988843    2 5799999999999988      


Q ss_pred             --Hhhhc-cccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          204 --MRHCM-SLGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       204 --L~~~L-sfG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                        +.-+| .+-.++|...   ..+.|..|+|+++.. .++..+.|.|++.|
T Consensus        84 ~~~e~v~t~lhagsK~~~~~~~~SgG~~GvGls~vn-alS~~l~v~~~r~g  133 (625)
T TIGR01055        84 SAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVN-ALSKRVKIKVYRQG  133 (625)
T ss_pred             cHHHHhhhcccccCCCCCCcceecCCCcchhHHHHH-HhcCeEEEEEEECC
Confidence              65555 3444455432   257899999987544 48898999999875

This protein is active as an alpha(2)beta(2) heterotetramer.

>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]

Probab=98.00  E-value=4.7e-06  Score=97.33  Aligned_cols=89  Identities=27%  Similarity=0.365  Sum_probs=64.4

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccc-cccccccC------Cccc
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSL-GYSAKSKA------ANTI  222 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Lsf-G~SsK~~~------~~~I  222 (826)
                      -..+.+||.|||+||+||   ||+.|.|.+.+   .|-..|.|.|||+|+++.+..- |.. -+.+|...      -.+.
T Consensus        18 I~sl~sAVKELvENSiDA---GAT~I~I~~kd---yG~d~IEV~DNG~GI~~~n~~~-l~lkh~TSKi~~f~Dl~~l~T~   90 (672)
T KOG1978|consen   18 ITSLVSAVKELVENSIDA---GATAIDIKVKD---YGSDSIEVSDNGSGISATDFEG-LALKHTTSKIVSFADLAVLFTL   90 (672)
T ss_pred             eccHHHHHHHHHhcCccc---CCceeeEecCC---CCcceEEEecCCCCCCccchhh-hhhhhhhhcccchhhhhhhhhh
Confidence            367789999999999999   99999988843   3778899999999999998775 222 23334321      2456


Q ss_pred             CcccCcccccccccCCeEEEEeeec
Q 003366          223 GQYGNGFKTSTMRLGADVIVFSCCC  247 (826)
Q Consensus       223 GrfG~GfKsAsmrLG~~v~V~SK~~  247 (826)
                      |..|--+  +++.-=.+|+|.|++.
T Consensus        91 GFRGEAL--SsLCa~~dv~I~Trt~  113 (672)
T KOG1978|consen   91 GFRGEAL--SSLCALGDVMISTRSH  113 (672)
T ss_pred             hhHHHHH--HhhhhccceEEEEeec
Confidence            7777665  2222227888999886

>PRK05644 gyrB DNA gyrase subunit B; Validated

Probab=97.92  E-value=1.5e-05  Score=94.15  Aligned_cols=123  Identities=24%  Similarity=0.286  Sum_probs=80.7

Q ss_pred             ccCCCCCCCCCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEE
Q 003366          115 AGDYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIE  193 (826)
Q Consensus       115 ag~y~~~~~~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~  193 (826)
                      +.+|++...    ..-.++.|++.-|...- -||...-..-.|.||||||+|....+ |+.|.|.+..   +|  .|.|.
T Consensus         5 ~~~Y~~~~i----~~L~~lE~Vr~RPgMYi-Gs~~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~~---~g--~I~V~   74 (638)
T PRK05644          5 AQEYDASQI----QVLEGLEAVRKRPGMYI-GSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINE---DG--SITVT   74 (638)
T ss_pred             cCCCCHHHC----eEecchHHHhcCCCceE-CCCChhhHHhhhHHhhhcccccccCCCCCEEEEEEeC---CC--cEEEE
Confidence            355665442    12357888888886432 23333334456889999999943337 8989988853   23  79999


Q ss_pred             ECCCCCCHHHHhh--------hcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          194 DNGGGMNPDKMRH--------CMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       194 DNG~GMs~eeL~~--------~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |||.||+.+.-..        +|. +..++|..+   ..+.|..|+|+++.. .++..++|.|++.|
T Consensus        75 DnG~GIp~~~h~~~ki~~~e~i~~~lhag~kfd~~~yk~s~G~~G~Gls~vn-alS~~~~v~t~r~g  140 (638)
T PRK05644         75 DNGRGIPVDIHPKTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVN-ALSTWLEVEVKRDG  140 (638)
T ss_pred             EeCccccCCccCCCCCCchHHheeeecccCccCCCcccccCCccccchhhhh-heeceEEEEEEeCC
Confidence            9999999862221        222 223334322   247899999997544 48888999999765

>PRK14939 gyrB DNA gyrase subunit B; Provisional

Probab=97.82  E-value=3.2e-05  Score=92.75  Aligned_cols=111  Identities=23%  Similarity=0.282  Sum_probs=75.9

Q ss_pred             CCccccccCchh-hcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHH------
Q 003366          131 GGMDHVRVHPKF-LHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPD------  202 (826)
Q Consensus       131 ~~l~~~~v~p~f-LhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~e------  202 (826)
                      .++.|++.-|.. +-+.... .-..-.|.||||||+|...++ |+.|.|.+..   +|  .|+|.|||.||+.+      
T Consensus        16 ~gle~VRkRPgMYIGst~~~-~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~---dg--sIsV~DnGrGIPvd~h~~~g   89 (756)
T PRK14939         16 KGLDAVRKRPGMYIGDTDDG-TGLHHMVYEVVDNAIDEALAGHCDDITVTIHA---DG--SVSVSDNGRGIPTDIHPEEG   89 (756)
T ss_pred             cccHHHhcCCCCeeCCCCCC-cchhhhhhHhhcccccccccCCCCEEEEEEcC---CC--eEEEEEcCCcccCCcccccC
Confidence            678888888864 3332220 233345889999999943337 8988888853   23  79999999999987      


Q ss_pred             ----HHhhhccccccccccC---CcccCcccCcccccccccCCeEEEEeeecCC
Q 003366          203 ----KMRHCMSLGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCGK  249 (826)
Q Consensus       203 ----eL~~~LsfG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~  249 (826)
                          |+.-. .+...+|...   .-+.|..|+|++.. -.++..+.|.+++.|.
T Consensus        90 ~~~~Elvlt-~lhAggKfd~~~ykvSgGlhGvG~svv-NAlS~~l~v~v~r~gk  141 (756)
T PRK14939         90 VSAAEVIMT-VLHAGGKFDQNSYKVSGGLHGVGVSVV-NALSEWLELTIRRDGK  141 (756)
T ss_pred             Cchhhheee-eecccCCCCCCcccccCCccCccceEe-ehccCeEEEEEEeCCe
Confidence                44322 2334444332   23689999998744 4588999999998663

>PRK14867 DNA topoisomerase VI subunit B; Provisional

Probab=97.82  E-value=3.3e-05  Score=91.28  Aligned_cols=94  Identities=19%  Similarity=0.241  Sum_probs=66.2

Q ss_pred             HHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-ccccccccC-CcccCcccCc
Q 003366          153 ALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKA-ANTIGQYGNG  228 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~-~~~IGrfG~G  228 (826)
                      ...+|.|||+||+||.....  ..|.|.+.... .+...|.|.|||.||+++++..++. |-+.+|... ....|..|+|
T Consensus        37 L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g-~~~~~I~V~DNG~GIp~e~l~~iFerF~atSK~~~~~qS~G~rG~G  115 (659)
T PRK14867         37 MTTIIHELVTNSLDACEEAEILPDIKVEIEKLG-SDHYKVAVEDNGPGIPPEFVPKVFGKMLAGSKMHRLIQSRGQQGIG  115 (659)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCceEEEEEEECC-CcEEEEEEEeeCeeCCHHHHhhhhccccccCcccceeccCCCCccc
Confidence            34789999999999954211  15666664321 1234699999999999999999875 344455322 2577999999


Q ss_pred             ccccc----cccCCeEEEEeeec
Q 003366          229 FKTST----MRLGADVIVFSCCC  247 (826)
Q Consensus       229 fKsAs----mrLG~~v~V~SK~~  247 (826)
                      +.++.    +..|..+.|.|+..
T Consensus       116 La~a~~vsql~~G~pI~I~S~~g  138 (659)
T PRK14867        116 AAGVLLFSQITTGKPLKITTSTG  138 (659)
T ss_pred             HHHHHHHHHHhcCCcEEEEEEcC
Confidence            97654    33577888999864

>TIGR01059 gyrB DNA gyrase, B subunit

Probab=97.82  E-value=2.1e-05  Score=93.13  Aligned_cols=110  Identities=27%  Similarity=0.314  Sum_probs=73.8

Q ss_pred             CCccccccCchh-hcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHh---
Q 003366          131 GGMDHVRVHPKF-LHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMR---  205 (826)
Q Consensus       131 ~~l~~~~v~p~f-LhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~---  205 (826)
                      .++.|++.-|.. +-+  +-..-..-.|.|||+||+|....+ |+.|.|.+..   +|  .|.|.|||.||+.+.-.   
T Consensus        10 ~~lE~vr~RP~mYiGs--~~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~---~g--~I~V~DnG~GIp~~~h~~~k   82 (654)
T TIGR01059        10 EGLEAVRKRPGMYIGS--TGETGLHHLVYEVVDNSIDEAMAGYCDTINVTIND---DG--SVTVEDNGRGIPVDIHPEEG   82 (654)
T ss_pred             cchHHHhcCCCceeCC--CCcchHHhhhHHhhhccccccccCCCCEEEEEEeC---CC--cEEEEEeCCCcCccccCcCC
Confidence            467777777764 322  222334456889999999943337 8999998853   23  49999999999986211   


Q ss_pred             -----hhcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          206 -----HCMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       206 -----~~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                           ..+. +..++|..+   ..+.|..|+|+++.. .++..++|.|++.|
T Consensus        83 i~~~e~i~~~l~ag~kf~~~~~k~s~G~~G~gl~~in-alS~~l~v~~~~~g  133 (654)
T TIGR01059        83 ISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVN-ALSEWLEVTVFRDG  133 (654)
T ss_pred             CCchHHheeeecccCccCCCcceecCCccchhHHHHH-HhcCeEEEEEEECC
Confidence                 1121 223334322   257899999997544 48888999999865

This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.

>smart00433 TOP2c TopoisomeraseII

Probab=97.73  E-value=1.9e-05  Score=92.49  Aligned_cols=86  Identities=23%  Similarity=0.274  Sum_probs=60.8

Q ss_pred             HHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh--------hcc-ccccccccC---CcccC
Q 003366          157 FAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH--------CMS-LGYSAKSKA---ANTIG  223 (826)
Q Consensus       157 IAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~--------~Ls-fG~SsK~~~---~~~IG  223 (826)
                      |.||||||+||..++ |+.|.|.+..   +|  .|+|.|||.||+.+....        .+. +-.++|..+   ..+.|
T Consensus         6 v~ElvdNAiD~~~~g~at~I~V~i~~---~g--~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~kfd~~~~k~s~G   80 (594)
T smart00433        6 VDEIVDNAADEALAGYMDTIKVTIDK---DN--SISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG   80 (594)
T ss_pred             EeeehhcccchhccCCCCEEEEEEeC---CC--eEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCCCCCCCccccCC
Confidence            679999999995433 8989888853   23  899999999998644321        111 112233322   24789


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      ..|+|+++.. .++..++|.|++.|
T Consensus        81 ~~G~Gls~vn-alS~~l~v~~~~~g  104 (594)
T smart00433       81 LHGVGASVVN-ALSTEFEVEVARDG  104 (594)
T ss_pred             cccchHHHHH-HhcCceEEEEEeCC
Confidence            9999987544 48899999999875

Eukaryotic DNA topoisomerase II, GyrB, ParE

>cd00075 HATPase_c Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins

Probab=97.43  E-value=0.00042  Score=57.98  Aligned_cols=88  Identities=18%  Similarity=0.216  Sum_probs=59.0

Q ss_pred             HHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccccc
Q 003366          155 GAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTM  234 (826)
Q Consensus       155 gAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsAsm  234 (826)
                      .++.|||+||+++.......|.|.+...  .+...|.|.|+|.||++..+..++...  .+.......+.+|+|++.+..
T Consensus         3 ~~~~~ll~Na~~~~~~~~~~v~i~~~~~--~~~~~v~i~d~g~g~~~~~~~~~~~~~--~~~~~~~~~~~~g~gl~~~~~   78 (103)
T cd00075           3 QVLLNLLSNAIKHTPEGGGRITISVERD--GDHLEIRVEDNGPGIPEEDLERIFERF--SDGSRSRKGGGTGLGLSIVKK   78 (103)
T ss_pred             HHHHHHHHHHHHhCcCCCCeEEEEEEec--CCEEEEEEEeCCCCCCHHHHHHHhhhh--hcCCCCCCCCccccCHHHHHH
Confidence            5799999999999432124566666433  345789999999999999998876432  111223455678999875322


Q ss_pred             ---ccCCeEEEEeee
Q 003366          235 ---RLGADVIVFSCC  246 (826)
Q Consensus       235 ---rLG~~v~V~SK~  246 (826)
                         ++|..+.+.+..
T Consensus        79 ~~~~~~g~~~~~~~~   93 (103)
T cd00075          79 LVELHGGRIEVESEP   93 (103)
T ss_pred             HHHHcCCEEEEEeCC
Confidence               345577776654

>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]

Probab=97.39  E-value=0.00024  Score=82.06  Aligned_cols=90  Identities=22%  Similarity=0.350  Sum_probs=68.8

Q ss_pred             ccccHHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCccc
Q 003366          149 SHKWALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYG  226 (826)
Q Consensus       149 SH~wpFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG  226 (826)
                      .|.+ ...|..|||||+||.....  ..|.+.+.  ..++...|.|.|+|+||+++.+...+..|+|+|.     -+.-|
T Consensus       425 ~~~l-itIlGNLidNA~eA~~~~~~~k~I~l~i~--~~~~~lvieV~D~G~GI~~~~~~~iFe~G~Stk~-----~~~rG  496 (537)
T COG3290         425 PHDL-VTILGNLIDNALEALLAPEENKEIELSLS--DRGDELVIEVADTGPGIPPEVRDKIFEKGVSTKN-----TGGRG  496 (537)
T ss_pred             hHHH-HHHHHHHHHHHHHHhhccCCCcEEEEEEE--ecCCEEEEEEeCCCCCCChHHHHHHHhcCccccC-----CCCCc
Confidence            3444 4799999999999976322  33555554  3467889999999999999999999999999984     35668


Q ss_pred             Ccccc---cccccCCeEEEEeee
Q 003366          227 NGFKT---STMRLGADVIVFSCC  246 (826)
Q Consensus       227 ~GfKs---AsmrLG~~v~V~SK~  246 (826)
                      +|++.   ..=++|-.++|-+..
T Consensus       497 iGL~Lvkq~V~~~~G~I~~~s~~  519 (537)
T COG3290         497 IGLYLVKQLVERLGGSIEVESEK  519 (537)
T ss_pred             hhHHHHHHHHHHcCceEEEeeCC
Confidence            88863   333788888888863

>smart00387 HATPase_c Histidine kinase-like ATPases

Probab=97.32  E-value=0.00057  Score=58.16  Aligned_cols=88  Identities=19%  Similarity=0.308  Sum_probs=59.2

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTS  232 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsA  232 (826)
                      ...+|.||++||+++... ...|.|.+...  ++...|.|.|+|.||+.+.+..++..++..+. .....+.+|+|++.+
T Consensus         6 l~~~~~~l~~n~~~~~~~-~~~v~i~~~~~--~~~~~i~i~d~g~g~~~~~~~~~~~~~~~~~~-~~~~~~~~g~gl~~~   81 (111)
T smart00387        6 LRQVLSNLLDNAIKYTPE-GGRITVTLERD--GDHLEITVEDNGPGIPPEDLEKIFEPFFRTDG-RSRKIGGTGLGLSIV   81 (111)
T ss_pred             HHHHHHHHHHHHHhcCCC-CCeEEEEEEEc--CCEEEEEEEeCCCCCCHHHHHHHhcCeEECCC-CCCCCCcccccHHHH
Confidence            456799999999998432 24677776543  35678999999999999999988765554432 223456789998742


Q ss_pred             c---cccCCeEEEEe
Q 003366          233 T---MRLGADVIVFS  244 (826)
Q Consensus       233 s---mrLG~~v~V~S  244 (826)
                      -   ..++-++.+.+
T Consensus        82 ~~~~~~~~g~~~~~~   96 (111)
T smart00387       82 KKLVELHGGEISVES   96 (111)
T ss_pred             HHHHHHcCCEEEEEe
Confidence            2   23444545443

Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.

>PRK10604 sensor protein RstB; Provisional

Probab=97.14  E-value=0.0012  Score=73.25  Aligned_cols=91  Identities=18%  Similarity=0.321  Sum_probs=64.4

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .++--++..||+||+.+   ....|.|.+...  ++.-.|.|.|||.||+++++.+.+...+.........-|.+|+|+.
T Consensus       318 ~~l~~vl~NLl~NAik~---~~~~I~I~~~~~--~~~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~~~~~~~g~GLGL~  392 (433)
T PRK10604        318 RLMERVLDNLLNNALRY---AHSRVRVSLLLD--GNQACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRATGGCGLGLA  392 (433)
T ss_pred             HHHHHHHHHHHHHHHHh---CCCeEEEEEEEE--CCEEEEEEEEcCCCCCHHHHhhcCCCCccCCCCCCCCCCCccchHH
Confidence            45667899999999998   446677777543  3556899999999999999999876444322111223467899985


Q ss_pred             c---cccccCCeEEEEeee
Q 003366          231 T---STMRLGADVIVFSCC  246 (826)
Q Consensus       231 s---AsmrLG~~v~V~SK~  246 (826)
                      .   ..-..|-++.|.+..
T Consensus       393 ivk~i~~~~gG~i~v~s~~  411 (433)
T PRK10604        393 IVHSIALAMGGSVNCDESE  411 (433)
T ss_pred             HHHHHHHHCCCEEEEEecC
Confidence            3   223577788888764

>PRK09470 cpxA two-component sensor protein; Provisional

Probab=97.09  E-value=0.0014  Score=71.54  Aligned_cols=91  Identities=13%  Similarity=0.167  Sum_probs=63.0

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...++.+||+||+.+   +...|.|.+...  ++.-.|.|.|||.||+++++.+.+.-.+.........-+.+|+|+.
T Consensus       352 ~~l~~~l~nli~NA~~~---~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~~~~~g~GlGL~  426 (461)
T PRK09470        352 NALASALENIVRNALRY---SHTKIEVAFSVD--KDGLTITVDDDGPGVPEEEREQIFRPFYRVDEARDRESGGTGLGLA  426 (461)
T ss_pred             HHHHHHHHHHHHHHHHh---CCCcEEEEEEEE--CCEEEEEEEECCCCCCHHHHHHhcCCCccCCcccCCCCCCcchhHH
Confidence            34566799999999998   455677776543  3556799999999999999998876444432211223467799986


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   ....|..+.+.|..
T Consensus       427 iv~~~v~~~~G~l~~~s~~  445 (461)
T PRK09470        427 IVENAIQQHRGWVKAEDSP  445 (461)
T ss_pred             HHHHHHHHCCCEEEEEECC
Confidence            42   23567788887764

>PRK10364 sensor protein ZraS; Provisional

Probab=96.99  E-value=0.0015  Score=72.39  Aligned_cols=87  Identities=14%  Similarity=0.187  Sum_probs=64.0

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....++..||+||+++.. ....|.|.+...  ++.-.|.|.|||.||+++.+.+++..|++.|.      +..|+|+.
T Consensus       347 ~~l~~il~NLl~NA~k~~~-~~~~I~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~k~------~g~GlGL~  417 (457)
T PRK10364        347 DRLTQVLLNLYLNAIQAIG-QHGVISVTASES--GAGVKISVTDSGKGIAADQLEAIFTPYFTTKA------EGTGLGLA  417 (457)
T ss_pred             HHHHHHHHHHHHHHHHhcC-CCCeEEEEEEEe--CCeEEEEEEECCCCCCHHHHHHHhCccccCCC------CCCcccHH
Confidence            4567889999999999853 245677776543  34578999999999999999999887777653      23588886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.|.+..
T Consensus       418 iv~~~v~~~gG~i~i~s~~  436 (457)
T PRK10364        418 VVHNIVEQHGGTIQVASQE  436 (457)
T ss_pred             HHHHHHHHCCCEEEEEeCC
Confidence            422   2567778877754

>PRK11006 phoR phosphate regulon sensor protein; Provisional

Probab=96.96  E-value=0.0017  Score=71.55  Aligned_cols=93  Identities=16%  Similarity=0.183  Sum_probs=63.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....++.+||+||+.+... ...|.|.+...  ++...|.|.|||.||+++++.+++...+..+.......|..|+|+.
T Consensus       316 ~~l~~vl~NLl~NAik~~~~-~~~I~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~G~GLGL~  392 (430)
T PRK11006        316 DQLRSAISNLVYNAVNHTPE-GTHITVRWQRV--PQGAEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLA  392 (430)
T ss_pred             HHHHHHHHHHHHHHHhcCCC-CCeEEEEEEEc--CCEEEEEEEEcCCCCCHHHHHHhccCcccccCCCCCCCCCCchHHH
Confidence            45678999999999999432 24466665443  3456899999999999999999876555433222223456788886


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-..|-.+.|-|..
T Consensus       393 ivk~iv~~~gG~i~i~s~~  411 (430)
T PRK11006        393 IVKHALSHHDSRLEIESEV  411 (430)
T ss_pred             HHHHHHHHCCCEEEEEecC
Confidence            42   22567888887764

>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]

Probab=96.95  E-value=0.00068  Score=79.92  Aligned_cols=89  Identities=20%  Similarity=0.237  Sum_probs=62.9

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc------CCcccCcc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK------AANTIGQY  225 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~------~~~~IGrf  225 (826)
                      ....+|.|||-||+||   +|+.|.|.+..    ....+.|+|||.||++++|...-.--+.+|..      ...+.|..
T Consensus        21 sla~~VeElv~NSiDA---~At~V~v~V~~----~t~sv~ViDdG~G~~rdDl~~lg~ry~TSK~h~~ndl~~~~tyGfR   93 (1142)
T KOG1977|consen   21 SLAQCVEELVLNSIDA---EATCVAVRVNM----ETFSVQVIDDGFGMGRDDLEKLGNRYFTSKCHSVNDLENPRTYGFR   93 (1142)
T ss_pred             HHHHHHHHHHhhcccc---CceEEEEEecC----ceeEEEEEecCCCccHHHHHHHHhhhhhhhceeccccccccccccc
Confidence            3457899999999999   99998888733    34679999999999999999754322333432      12456666


Q ss_pred             cCcccccccccCCeEEEEeeecCC
Q 003366          226 GNGFKTSTMRLGADVIVFSCCCGK  249 (826)
Q Consensus       226 G~GfKsAsmrLG~~v~V~SK~~g~  249 (826)
                      |-.+.  +++=-..+.|+|+..+.
T Consensus        94 GeALa--sIsd~s~l~v~skkk~r  115 (1142)
T KOG1977|consen   94 GEALA--SISDMSSLVVISKKKNR  115 (1142)
T ss_pred             hhhhh--hhhhhhhhhhhhhhcCC
Confidence            65553  33333567788888764

>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR

Probab=96.95  E-value=0.0025  Score=65.44  Aligned_cols=93  Identities=17%  Similarity=0.210  Sum_probs=62.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....++.+||.||+.+... ...|.|.+...  ++...|.|.|||.||+++.+.+++...+..+.......+..|+|+.
T Consensus       228 ~~l~~vl~nll~Nai~~~~~-~~~i~i~~~~~--~~~~~i~i~d~G~gi~~~~~~~if~~~~~~~~~~~~~~~g~glGL~  304 (333)
T TIGR02966       228 DELRSAFSNLVSNAIKYTPE-GGTITVRWRRD--GGGAEFSVTDTGIGIAPEHLPRLTERFYRVDKSRSRDTGGTGLGLA  304 (333)
T ss_pred             HHHHHHHHHHHHHhheeCCC-CCeEEEEEEEc--CCEEEEEEEecCCCCCHHHHhhhccCceecCcccccCCCCCcccHH
Confidence            45677899999999998432 34466665432  3456899999999999999999887555332211122344588886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|..+.+-|..
T Consensus       305 ~~~~~~~~~gG~i~~~s~~  323 (333)
T TIGR02966       305 IVKHVLSRHHARLEIESEL  323 (333)
T ss_pred             HHHHHHHHCCCEEEEEecC
Confidence            422   2478888888864

Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).

>TIGR01386 cztS_silS_copS heavy metal sensor kinase

Probab=96.92  E-value=0.0017  Score=70.44  Aligned_cols=91  Identities=15%  Similarity=0.186  Sum_probs=62.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      ..++.++.+||+||+.+... ...|.|.+..+  ++...|.|.|||.||+++.+.+.+.-++..+......-+..|+|+.
T Consensus       352 ~~l~~~~~nll~Nai~~~~~-~~~I~i~~~~~--~~~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~~~~~g~GlGL~  428 (457)
T TIGR01386       352 QMFRRAISNLLSNALRHTPD-GGTITVRIERR--SDEVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLA  428 (457)
T ss_pred             HHHHHHHHHHHHHHHHcCCC-CceEEEEEEec--CCEEEEEEEeCCCCCCHHHHHHhccccccCCcccCCCCCCccccHH
Confidence            44667899999999998321 24577776543  4566899999999999999999877566544322222345788886


Q ss_pred             ccc---cccCCeEEEEe
Q 003366          231 TST---MRLGADVIVFS  244 (826)
Q Consensus       231 sAs---mrLG~~v~V~S  244 (826)
                      .+.   -++|-.+.+.+
T Consensus       429 i~~~~~~~~~G~~~~~~  445 (457)
T TIGR01386       429 IVRSIMEAHGGRASAES  445 (457)
T ss_pred             HHHHHHHHCCCEEEEEe
Confidence            422   24667777777

Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.

>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]

Probab=96.86  E-value=0.002  Score=64.46  Aligned_cols=88  Identities=16%  Similarity=0.186  Sum_probs=59.7

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .|.-.+|..||+||++|..  ...|.|.+...  ++.-.|.|.|||.||+++.+...+..++..+....    -.|+|+.
T Consensus       227 ~~l~~vl~nLi~NAi~~~~--~~~i~i~~~~~--~~~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~----g~GlGL~  298 (336)
T COG0642         227 ERLRQVLVNLLSNAIKYTP--GGEITISVRQD--DEQVTISVEDTGPGIPEEELERIFEPFFRTDKSRS----GTGLGLA  298 (336)
T ss_pred             HHHHHHHHHHHHHHhccCC--CCeEEEEEEec--CCeEEEEEEcCCCCCCHHHHHHhccCeeccCCCCC----CCCccHH
Confidence            5555699999999999932  46677777543  23568999999999999998888777776653211    4566665


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -..|..+.+-+..
T Consensus       299 i~~~~~~~~~g~i~~~~~~  317 (336)
T COG0642         299 IVKRIVELHGGTISVESEP  317 (336)
T ss_pred             HHHHHHHHcCCEEEEEecC
Confidence            321   1334445555553

>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional

Probab=96.84  E-value=0.0025  Score=69.94  Aligned_cols=93  Identities=17%  Similarity=0.205  Sum_probs=63.6

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      ....++.+||+||+.+... ...|.|.+...  ++...|.|.|||.||+++++.+.+.-.+..+.......|..|+|+..
T Consensus       352 ~l~qvl~nll~NAi~~~~~-~~~I~i~~~~~--~~~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~~~~~~~g~GlGL~i  428 (466)
T PRK10549        352 RLMQLFNNLLENSLRYTDS-GGSLHISAEQR--DKTLRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAI  428 (466)
T ss_pred             HHHHHHHHHHHHHHHhCCC-CCEEEEEEEEc--CCEEEEEEEecCCCcCHHHHHHhccCcccCCCCcCCCCCCCcHHHHH
Confidence            4567899999999998432 23567776543  35668999999999999999988764444332222345667899864


Q ss_pred             c---ccccCCeEEEEeeec
Q 003366          232 S---TMRLGADVIVFSCCC  247 (826)
Q Consensus       232 A---smrLG~~v~V~SK~~  247 (826)
                      +   .-+.|-.+.+.+...
T Consensus       429 v~~i~~~~~G~l~~~s~~~  447 (466)
T PRK10549        429 CLNIVEAHNGRIIAAHSPF  447 (466)
T ss_pred             HHHHHHHcCCEEEEEECCC
Confidence            2   225677888887643

>PRK09303 adaptive-response sensory kinase; Validated

Probab=96.81  E-value=0.0038  Score=68.54  Aligned_cols=92  Identities=16%  Similarity=0.121  Sum_probs=63.2

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      ....+|..||+||+.+... ...|.|.+... .++...|.|.|||.||+++++.+++...+..+.  ...-+.+|+|+..
T Consensus       272 ~l~qvl~NLl~NAik~~~~-~~~I~i~~~~~-~~~~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~--~~~~~G~GLGL~i  347 (380)
T PRK09303        272 RIRQVLLNLLDNAIKYTPE-GGTITLSMLHR-TTQKVQVSICDTGPGIPEEEQERIFEDRVRLPR--DEGTEGYGIGLSV  347 (380)
T ss_pred             HHHHHHHHHHHHHHhcCCC-CceEEEEEEec-CCCEEEEEEEEcCCCCCHHHHHHHccCceeCCC--CCCCCcccccHHH
Confidence            4567899999999998432 23466655332 234567999999999999999998865554432  2233568999863


Q ss_pred             c---ccccCCeEEEEeeec
Q 003366          232 S---TMRLGADVIVFSCCC  247 (826)
Q Consensus       232 A---smrLG~~v~V~SK~~  247 (826)
                      +   .-.+|-.+.|.|...
T Consensus       348 ~~~iv~~~gG~i~v~s~~~  366 (380)
T PRK09303        348 CRRIVRVHYGQIWVDSEPG  366 (380)
T ss_pred             HHHHHHHcCCEEEEEecCC
Confidence            2   225788888887643

>TIGR01058 parE_Gpos DNA topoisomerase IV, B subunit, Gram-positive

Probab=96.77  E-value=0.0022  Score=76.19  Aligned_cols=108  Identities=24%  Similarity=0.286  Sum_probs=70.0

Q ss_pred             CCccccccCchh-hcccc--cccccHHHHHHHHhccchhhhhC-CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh
Q 003366          131 GGMDHVRVHPKF-LHSNA--TSHKWALGAFAELLDNSLDEVCN-GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH  206 (826)
Q Consensus       131 ~~l~~~~v~p~f-LhSNS--TSH~wpFgAIAELIDNAiDA~~~-gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~  206 (826)
                      .++.|++.-|.. +-|..  ..|.+    +.|+||||+|.... .|+.|.|.+..     ...|+|.|||.||+.+--..
T Consensus        14 ~glE~VRkRPgMYIGst~~~GL~hl----v~EIvdNavDE~~ag~~~~I~V~i~~-----dgsitV~DnGrGIPv~~h~~   84 (637)
T TIGR01058        14 EGLDAVRKRPGMYIGSTDSKGLHHL----VWEIVDNSVDEVLAGYADNITVTLHK-----DNSITVQDDGRGIPTGIHQD   84 (637)
T ss_pred             cccHHHhcCCCCeECCCCcchhhee----hhhhhcchhhhhhcCCCcEEEEEEcC-----CCeEEEEECCCcccCcccCc
Confidence            578888888864 33322  12444    66999999995433 47888888742     23799999999997642111


Q ss_pred             --------hcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          207 --------CMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       207 --------~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                              .|. +-...|..+   ..+-|..|+|.+. .=.|+..++|.++++|
T Consensus        85 ~~~~~~E~v~t~LhaGgkfd~~~ykvSGGlhGvG~sv-vNAlS~~~~V~v~r~g  137 (637)
T TIGR01058        85 GNISTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASV-VNALSSWLEVTVKRDG  137 (637)
T ss_pred             CCCccceeEEEEecccCcCCCCcccccCCcccccccc-cceeeceEEEEEEECC
Confidence                    111 222233322   2467999999864 3358899999998765

Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.

>PRK11100 sensory histidine kinase CreC; Provisional

Probab=96.73  E-value=0.0033  Score=68.42  Aligned_cols=92  Identities=21%  Similarity=0.174  Sum_probs=64.2

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .++..++.+||.||+.+.. ....|.|.+...  ++...|.|.|||.||+++++.+.+..+++.+.. ...-+..|+|+.
T Consensus       367 ~~l~~vl~nli~Na~~~~~-~~~~i~i~~~~~--~~~~~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~-~~~~~~~GlGL~  442 (475)
T PRK11100        367 FLLRQALGNLLDNAIDFSP-EGGTITLSAEVD--GEQVALSVEDQGPGIPDYALPRIFERFYSLPRP-ANGRKSTGLGLA  442 (475)
T ss_pred             HHHHHHHHHHHHHHHHhCC-CCCEEEEEEEEc--CCEEEEEEEECCCCCCHHHHHHHHHHHccCCCC-CCCCCCcchhHH
Confidence            4677899999999999832 235677776543  466789999999999999999988755544321 112245688886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   ..+|-.+.+.|..
T Consensus       443 i~~~~~~~~~G~i~i~s~~  461 (475)
T PRK11100        443 FVREVARLHGGEVTLRNRP  461 (475)
T ss_pred             HHHHHHHHCCCEEEEEEcC
Confidence            422   2467778888764

>PRK10755 sensor protein BasS/PmrB; Provisional

Probab=96.72  E-value=0.0031  Score=67.38  Aligned_cols=91  Identities=18%  Similarity=0.154  Sum_probs=64.6

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      ..|..-++..||+||+.+.. ....|.|.+..+  ++...|.|.|||.||+++++.+.+..++....    .-+..|+|+
T Consensus       245 ~~~l~~il~nLi~NA~k~~~-~~~~I~I~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~----~~~g~GlGL  317 (356)
T PRK10755        245 ATLLRLLLRNLVENAHRYSP-EGSTITIKLSQE--DGGAVLAVEDEGPGIDESKCGELSKAFVRMDS----RYGGIGLGL  317 (356)
T ss_pred             HHHHHHHHHHHHHHHHhhCC-CCCcEEEEEEEc--CCEEEEEEEECCCCCCHHHHHHhCCCeEeCCC----CCCCcCHHH
Confidence            46777899999999999843 234577776443  35578999999999999999988765543221    224578888


Q ss_pred             ccc---ccccCCeEEEEeeec
Q 003366          230 KTS---TMRLGADVIVFSCCC  247 (826)
Q Consensus       230 KsA---smrLG~~v~V~SK~~  247 (826)
                      ..+   .-.+|-.+.+.|...
T Consensus       318 ~i~~~i~~~~gg~i~i~s~~~  338 (356)
T PRK10755        318 SIVSRITQLHHGQFFLQNRQE  338 (356)
T ss_pred             HHHHHHHHHCCCEEEEEECCC
Confidence            642   225788888888753

>PRK09467 envZ osmolarity sensor protein; Provisional

Probab=96.68  E-value=0.0047  Score=67.34  Aligned_cols=89  Identities=18%  Similarity=0.191  Sum_probs=61.0

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+..-++.+||+||+.+   +...|.|.....  ++...|.|.|||.||+++++.+++.-++....  ...-+.+|+|+.
T Consensus       330 ~~l~~il~NLl~NA~k~---~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~--~~~~~g~GlGL~  402 (435)
T PRK09467        330 IAIKRALANLVVNAARY---GNGWIKVSSGTE--GKRAWFQVEDDGPGIPPEQLKHLFQPFTRGDS--ARGSSGTGLGLA  402 (435)
T ss_pred             HHHHHHHHHHHHHHHHh---CCCeEEEEEEec--CCEEEEEEEecCCCcCHHHHHHhcCCcccCCC--CCCCCCeehhHH
Confidence            34566899999999998   556677776543  35567999999999999999998865553221  111255788875


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-..|-++.|.+..
T Consensus       403 iv~~i~~~~~g~l~i~~~~  421 (435)
T PRK09467        403 IVKRIVDQHNGKVELGNSE  421 (435)
T ss_pred             HHHHHHHHCCCEEEEEECC
Confidence            32   12356777776654

>PRK11086 sensory histidine kinase DcuS; Provisional

Probab=96.46  E-value=0.0073  Score=67.42  Aligned_cols=86  Identities=23%  Similarity=0.378  Sum_probs=61.0

Q ss_pred             HHHHHHHHhccchhhhhC-CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          153 ALGAFAELLDNSLDEVCN-GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~-gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      +..++.+|++||+++... ....|.|.+...  ++...|.|.|||.||+++++.+++.-+++.|.      +..|+|+..
T Consensus       434 l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~--~~~~~i~V~D~G~gi~~~~~~~iF~~~~~~~~------~g~GlGL~i  505 (542)
T PRK11086        434 LITILGNLIENALEAVGGEEGGEISVSLHYR--NGWLHCEVSDDGPGIAPDEIDAIFDKGYSTKG------SNRGVGLYL  505 (542)
T ss_pred             HHHHHHHHHHHHHHHhhcCCCcEEEEEEEEc--CCEEEEEEEECCCCCCHHHHHHHHhCCCccCC------CCCcCcHHH
Confidence            557899999999998532 124566666543  45668999999999999999998877776652      235888763


Q ss_pred             c---ccccCCeEEEEeee
Q 003366          232 S---TMRLGADVIVFSCC  246 (826)
Q Consensus       232 A---smrLG~~v~V~SK~  246 (826)
                      +   .-..|-.+.|.+..
T Consensus       506 v~~iv~~~~G~i~v~s~~  523 (542)
T PRK11086        506 VKQSVENLGGSIAVESEP  523 (542)
T ss_pred             HHHHHHHcCCEEEEEeCC
Confidence            2   22466777777753

>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL

Probab=96.44  E-value=0.0062  Score=66.10  Aligned_cols=89  Identities=16%  Similarity=0.183  Sum_probs=59.9

Q ss_pred             HHHHHHHHhccchhhhhCCC---ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          153 ALGAFAELLDNSLDEVCNGA---TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gA---t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      .-.++.+||.||+++...+.   ..|.|....  .++.-.|+|.|||.||+++.+.+.+...++.|..   ..+.-|+||
T Consensus       388 l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~--~~~~~~~~V~D~G~Gi~~~~~~~iF~~f~~~~~~---~~~G~GlGL  462 (494)
T TIGR02938       388 LRSLFKALVDNAIEAMNIKGWKRRELSITTAL--NGDLIVVSILDSGPGIPQDLRYKVFEPFFTTKGG---SRKHIGMGL  462 (494)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCcceEEEEEEe--cCCEEEEEEEeCCCCCCHHHHHHhcCCCcccCCC---CCCCCcccH
Confidence            45689999999999954331   234444432  3466789999999999999999987655554421   134467777


Q ss_pred             cccc---cccCCeEEEEeee
Q 003366          230 KTST---MRLGADVIVFSCC  246 (826)
Q Consensus       230 KsAs---mrLG~~v~V~SK~  246 (826)
                      ..+-   -.+|-.+.|-|..
T Consensus       463 ~i~~~iv~~~gG~i~~~s~~  482 (494)
T TIGR02938       463 SVAQEIVADHGGIIDLDDDY  482 (494)
T ss_pred             HHHHHHHHHcCCEEEEEECC
Confidence            5321   2578888887754

NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.

>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]

Probab=96.32  E-value=0.0039  Score=73.45  Aligned_cols=109  Identities=27%  Similarity=0.301  Sum_probs=72.3

Q ss_pred             CCccccccCchhh-ccc---ccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHH--
Q 003366          131 GGMDHVRVHPKFL-HSN---ATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK--  203 (826)
Q Consensus       131 ~~l~~~~v~p~fL-hSN---STSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~ee--  203 (826)
                      .+|.+|+.-|-.. -+-   .-.|.-    +-|+||||+|...+| |+.|.|.+..     ...|+|.|||.||+-+-  
T Consensus        15 ~GLEaVRkRPGMYIGst~~~~GLhHl----v~EVvDNsiDEalaG~~~~I~V~l~~-----d~sisV~DnGRGIPvdiH~   85 (635)
T COG0187          15 EGLEAVRKRPGMYIGSTGDGRGLHHL----VWEVVDNSIDEALAGYADRIDVTLHE-----DGSISVEDNGRGIPVDIHP   85 (635)
T ss_pred             cCcHHhhcCCCceeccCCCCCcceee----EeEeeechHhHHhhCcCcEEEEEEcC-----CCeEEEEECCCCCccccCC
Confidence            5677777777543 211   122332    569999999987654 6777777743     34799999999998765  


Q ss_pred             ------Hhhhcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecCC
Q 003366          204 ------MRHCMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCGK  249 (826)
Q Consensus       204 ------L~~~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~  249 (826)
                            +.-+|+ +....|...   ..+=|.-|+|.+ +.=.|...+.|.++++|+
T Consensus        86 ~~~~~~vEvI~T~LHAGGKFd~~~YkvSGGLHGVG~S-VVNALS~~l~v~v~r~gk  140 (635)
T COG0187          86 KEKVSAVEVIFTVLHAGGKFDNDSYKVSGGLHGVGVS-VVNALSTWLEVEVKRDGK  140 (635)
T ss_pred             CCCCCceEEEEEeeccCcccCCCccEeecCCCccceE-EEecccceEEEEEEECCE
Confidence                  222333 333334322   245799999964 445799999999998764

>PRK11360 sensory histidine kinase AtoS; Provisional

Probab=96.27  E-value=0.011  Score=65.50  Aligned_cols=87  Identities=22%  Similarity=0.273  Sum_probs=60.4

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      ....++.+||+||+.+... ...|.|.+.... ++...|.|.|||.||+++.+...+..+++.+.      +..|+|+..
T Consensus       500 ~l~~~~~nli~na~~~~~~-~~~i~v~~~~~~-~~~~~i~v~D~G~G~~~~~~~~~f~~~~~~~~------~g~glGL~~  571 (607)
T PRK11360        500 LLKQVLLNILINAVQAISA-RGKIRIRTWQYS-DGQVAVSIEDNGCGIDPELLKKIFDPFFTTKA------KGTGLGLAL  571 (607)
T ss_pred             HHHHHHHHHHHHHHHHhcC-CCeEEEEEEEcC-CCEEEEEEEeCCCCCCHHHHhhhcCCceeCCC------CCCchhHHH
Confidence            3667899999999998542 335666665432 22278999999999999999988776665442      235777653


Q ss_pred             ---cccccCCeEEEEeee
Q 003366          232 ---STMRLGADVIVFSCC  246 (826)
Q Consensus       232 ---AsmrLG~~v~V~SK~  246 (826)
                         -.-.+|-++.|-|..
T Consensus       572 ~~~~~~~~~G~i~~~s~~  589 (607)
T PRK11360        572 SQRIINAHGGDIEVESEP  589 (607)
T ss_pred             HHHHHHHcCCEEEEEEcC
Confidence               222477788887764

>PRK15053 dpiB sensor histidine kinase DpiB; Provisional

Probab=96.26  E-value=0.0071  Score=68.34  Aligned_cols=90  Identities=17%  Similarity=0.217  Sum_probs=63.1

Q ss_pred             cHHHHHHHHhccchhhhhC---CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCc
Q 003366          152 WALGAFAELLDNSLDEVCN---GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG  228 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~---gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~G  228 (826)
                      .....+.+||+||+++...   +...|.|.+...  ++...|.|.|||.||+++++.+++..|++.|..   .-|.-|+|
T Consensus       432 ~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~~---~~~g~GlG  506 (545)
T PRK15053        432 EFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDE--GDDVVIEVADQGCGVPESLRDKIFEQGVSTRAD---EPGEHGIG  506 (545)
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEEC--CCEEEEEEEeCCCCcCHHHHHHHhCCCCCCCCC---CCCCceeC
Confidence            3456789999999998532   235566666442  455679999999999999999999888876632   23445888


Q ss_pred             ccccc---cccCCeEEEEeee
Q 003366          229 FKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       229 fKsAs---mrLG~~v~V~SK~  246 (826)
                      +..+-   -..|-.+.|.|..
T Consensus       507 L~ivk~iv~~~~G~i~v~s~~  527 (545)
T PRK15053        507 LYLIASYVTRCGGVITLEDND  527 (545)
T ss_pred             HHHHHHHHHHcCCEEEEEECC
Confidence            86322   2456677777653

>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase

Probab=96.24  E-value=0.0067  Score=71.66  Aligned_cols=85  Identities=22%  Similarity=0.243  Sum_probs=60.1

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHH-HhhhccccccccccCCcccCcccCcccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK-MRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~ee-L~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      ...++.+||+||+++.. ....|.|.+...  ++...|.|.|||.||+++. ..+.+...++.+.      +..|+|+..
T Consensus       580 l~~vl~nLl~NAik~~~-~~~~I~I~~~~~--~~~~~i~V~D~G~Gi~~~~i~~~lF~pf~~~~~------~G~GLGL~i  650 (679)
T TIGR02916       580 LERVLGHLVQNALEATP-GEGRVAIRVERE--CGAARIEIEDSGCGMSPAFIRERLFKPFDTTKG------AGMGIGVYE  650 (679)
T ss_pred             HHHHHHHHHHHHHHhCC-CCCcEEEEEEEc--CCEEEEEEEEcCCCcChHHHHHhcCCCCCCCCC------CCcchhHHH
Confidence            45689999999999943 234577776543  3567899999999999999 5556655555442      456888764


Q ss_pred             c---ccccCCeEEEEeee
Q 003366          232 S---TMRLGADVIVFSCC  246 (826)
Q Consensus       232 A---smrLG~~v~V~SK~  246 (826)
                      +   .-.+|-++.|.|..
T Consensus       651 ~~~iv~~~gG~i~v~s~~  668 (679)
T TIGR02916       651 CRQYVEEIGGRIEVESTP  668 (679)
T ss_pred             HHHHHHHcCCEEEEEecC
Confidence            3   22578888888864

Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.

>PRK09835 sensor kinase CusS; Provisional

Probab=96.20  E-value=0.013  Score=64.57  Aligned_cols=92  Identities=17%  Similarity=0.150  Sum_probs=61.5

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...+|.+||+||+.+.. ....|.|.+...  ++...|.|.|||.||+++++...+.-.+.........-+.+|+||.
T Consensus       374 ~~l~~vl~nll~Na~~~~~-~~~~I~i~~~~~--~~~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~~~~~~~g~GlGL~  450 (482)
T PRK09835        374 LMLRRAISNLLSNALRYTP-AGEAITVRCQEV--DHQVQLVVENPGTPIAPEHLPRLFDRFYRVDPSRQRKGEGSGIGLA  450 (482)
T ss_pred             HHHHHHHHHHHHHHHhcCC-CCCeEEEEEEEe--CCEEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCCCCCcchHHH
Confidence            3467889999999999843 124577776543  3456899999999999999998775433322111122345788885


Q ss_pred             cc---ccccCCeEEEEee
Q 003366          231 TS---TMRLGADVIVFSC  245 (826)
Q Consensus       231 sA---smrLG~~v~V~SK  245 (826)
                      .+   .-.+|..+.|-|.
T Consensus       451 i~~~i~~~~~g~i~~~s~  468 (482)
T PRK09835        451 IVKSIVVAHKGTVAVTSD  468 (482)
T ss_pred             HHHHHHHHCCCEEEEEEC
Confidence            32   2256778888775

>TIGR03785 marine_sort_HK proteobacterial dedicated sortase system histidine kinase

Probab=96.13  E-value=0.012  Score=70.41  Aligned_cols=94  Identities=12%  Similarity=0.087  Sum_probs=64.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...+|..||+||+.+... ...|.|.+..+  ++...|.|.|||.||+++++.+.+...++.+......-+..|+|+.
T Consensus       596 ~~L~~il~NLI~NAik~s~~-~~~I~I~~~~~--~~~v~I~V~D~G~GI~~e~~~~IFe~F~t~~~~~~~~~~g~GLGL~  672 (703)
T TIGR03785       596 ELIAQMLDKLVDNAREFSPE-DGLIEVGLSQN--KSHALLTVSNEGPPLPEDMGEQLFDSMVSVRDQGAQDQPHLGLGLY  672 (703)
T ss_pred             HHHHHHHHHHHHHHHHHCCC-CCeEEEEEEEc--CCEEEEEEEEcCCCCCHHHHHHHhCCCeecCCCCCCCCCCccHHHH
Confidence            34567899999999998532 34467766543  4566799999999999999999887665544322222345788886


Q ss_pred             cc---ccccCCeEEEEeeec
Q 003366          231 TS---TMRLGADVIVFSCCC  247 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~~  247 (826)
                      .+   ....|-.+.+.+...
T Consensus       673 Ivr~Iv~~~gG~I~v~s~~~  692 (703)
T TIGR03785       673 IVRLIADFHQGRIQAENRQQ  692 (703)
T ss_pred             HHHHHHHHcCCEEEEEECCC
Confidence            42   235677888877643

This histidine kinase protein is paired with an adjacent response regulator (TIGR03787) gene. It co-occurs with a variant sortase enzyme (TIGR03784), usually in the same gene neighborhood, in proteobacterial species most of which are marine, and with an LPXTG motif-containing sortase target conserved protein (TIGR03788). Sortases and LPXTG proteins are far more common in Gram-positive bacteria, where sortase systems mediate attachment to the cell wall or cross-linking of pilin structures. We give this predicted sensor histidine kinase the gene symbol psdS, for Proteobacterial Dedicated Sortase system Sensor histidine kinase.

>PRK13837 two-component VirA-like sensor kinase; Provisional

Probab=96.04  E-value=0.016  Score=70.15  Aligned_cols=89  Identities=18%  Similarity=0.217  Sum_probs=63.2

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEc-------------cCCCceEEEEEECCCCCCHHHHhhhcccccccccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLIN-------------RKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK  217 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~-------------~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~  217 (826)
                      .....+|..||+||+.+.. ....|.|.+...             ..++...|.|.|||.||+++++.+++...++.+. 
T Consensus       559 ~~L~qvl~NLl~NAik~~~-~~g~I~I~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~GI~~e~~~~iFe~F~~~~~-  636 (828)
T PRK13837        559 AELQQVLMNLCSNAAQAMD-GAGRVDISLSRAKLRAPKVLSHGVLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFTTRA-  636 (828)
T ss_pred             HHHHHHHHHHHHHHHHHcc-cCCeEEEEEEEeecccccccccccCCCCCEEEEEEEECCCCCCHHHHHHhhCCcccCCC-
Confidence            4466789999999999854 234566666443             1134457999999999999999998765555442 


Q ss_pred             CCcccCcccCccccc---ccccCCeEEEEeee
Q 003366          218 AANTIGQYGNGFKTS---TMRLGADVIVFSCC  246 (826)
Q Consensus       218 ~~~~IGrfG~GfKsA---smrLG~~v~V~SK~  246 (826)
                           +..|+|+..+   .-.+|-.+.|.|..
T Consensus       637 -----~G~GLGL~i~~~iv~~~gG~i~v~s~~  663 (828)
T PRK13837        637 -----GGTGLGLATVHGIVSAHAGYIDVQSTV  663 (828)
T ss_pred             -----CCCcchHHHHHHHHHHCCCEEEEEecC
Confidence                 5678888632   22578888888864

>PRK10815 sensor protein PhoQ; Provisional

Probab=95.99  E-value=0.016  Score=66.25  Aligned_cols=85  Identities=18%  Similarity=0.234  Sum_probs=59.3

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTS  232 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsA  232 (826)
                      ...++..||+||+.+.   ...|.|.+...  ++...|.|.|||.||+++++.+.+.-++....    .-+-.|+|+..+
T Consensus       379 l~~vl~NLi~NAik~~---~~~i~I~~~~~--~~~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~----~~~G~GLGL~Iv  449 (485)
T PRK10815        379 FMEVMGNVLDNACKYC---LEFVEISARQT--DEHLHIVVEDDGPGIPESKRELIFDRGQRADT----LRPGQGLGLSVA  449 (485)
T ss_pred             HHHHHHHHHHHHHHhc---CCcEEEEEEEe--CCEEEEEEEECCCCcCHHHHHHHhCCcccCCC----CCCCcchhHHHH
Confidence            4568999999999983   34566666442  35567999999999999999987764443221    123468888642


Q ss_pred             ---ccccCCeEEEEeee
Q 003366          233 ---TMRLGADVIVFSCC  246 (826)
Q Consensus       233 ---smrLG~~v~V~SK~  246 (826)
                         .-..|-.+.|.+..
T Consensus       450 k~iv~~~gG~i~v~s~~  466 (485)
T PRK10815        450 REITEQYEGKISAGDSP  466 (485)
T ss_pred             HHHHHHcCCEEEEEECC
Confidence               22567788887764

>PRK11073 glnL nitrogen regulation protein NR(II); Provisional

Probab=95.97  E-value=0.025  Score=59.87  Aligned_cols=89  Identities=16%  Similarity=0.114  Sum_probs=57.9

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEcc----CC----CceEEEEEECCCCCCHHHHhhhccccccccccCCcccC
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINR----KD----GSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIG  223 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~----~~----g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IG  223 (826)
                      ....++..||+||+.+.......|.|......    .+    ....|.|.|||.||+++.+.+.+.-+++.+.      +
T Consensus       237 ~l~~vl~nLl~NA~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~iF~~~~~~~~------~  310 (348)
T PRK11073        237 QIEQVLLNIVRNALQALGPEGGTITLRTRTAFQLTLHGERYRLAARIDIEDNGPGIPPHLQDTLFYPMVSGRE------G  310 (348)
T ss_pred             HHHHHHHHHHHHHHHHhccCCCeEEEEEccccccccCCccCCceEEEEEEeCCCCCCHHHHhhccCCcccCCC------C
Confidence            46688999999999985223344555442110    00    1236899999999999999888765555442      2


Q ss_pred             cccCcccc---cccccCCeEEEEeee
Q 003366          224 QYGNGFKT---STMRLGADVIVFSCC  246 (826)
Q Consensus       224 rfG~GfKs---AsmrLG~~v~V~SK~  246 (826)
                      --|+|+..   ..-..|-.+.|.|..
T Consensus       311 g~GlGL~i~~~iv~~~gG~i~~~s~~  336 (348)
T PRK11073        311 GTGLGLSIARNLIDQHSGKIEFTSWP  336 (348)
T ss_pred             CccCCHHHHHHHHHHcCCeEEEEecC
Confidence            34777753   223567788887753

>PRK10337 sensor protein QseC; Provisional

Probab=95.64  E-value=0.024  Score=62.32  Aligned_cols=86  Identities=17%  Similarity=0.192  Sum_probs=57.6

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      ..+..++.+||+||+.+... ...|.|.+..      ..|.|.|||.||+++++.+.+.-.+..+   ....+.+|+|+.
T Consensus       351 ~~l~~vl~Nli~NA~k~~~~-~~~i~i~~~~------~~i~i~D~G~Gi~~~~~~~if~~f~~~~---~~~~~g~GlGL~  420 (449)
T PRK10337        351 LLLSLLVRNLLDNAIRYSPQ-GSVVDVTLNA------RNFTVRDNGPGVTPEALARIGERFYRPP---GQEATGSGLGLS  420 (449)
T ss_pred             HHHHHHHHHHHHHHHhhCCC-CCeEEEEEEe------eEEEEEECCCCCCHHHHHHhcccccCCC---CCCCCccchHHH
Confidence            34566899999999998321 2345555532      2699999999999999998876444322   122345899986


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-..|-++.+-+..
T Consensus       421 iv~~i~~~~gg~l~~~s~~  439 (449)
T PRK10337        421 IVRRIAKLHGMNVSFGNAP  439 (449)
T ss_pred             HHHHHHHHcCCEEEEEecC
Confidence            42   22567788877754

>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []

Probab=95.52  E-value=0.16  Score=49.18  Aligned_cols=89  Identities=29%  Similarity=0.516  Sum_probs=71.1

Q ss_pred             cccchhhhhhhhhhhHHHHHHHHhHHh---HHHHH-------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 003366          717 CSLGANLGQLKQENHELKKRLEKKEGE---LQEER-------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRR  786 (826)
Q Consensus       717 ~~~~~~~~~~~~e~~~~~~~~~~~~~~---~~~e~-------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr  786 (826)
                      ..+.+.|+++..|...|+++|.+++..   +..|+       |..+.+..++..++++++++++..+++..+|.|    +
T Consensus        19 e~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ry~t~LellGE----K   94 (120)
T PF12325_consen   19 ERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQRYQTLLELLGE----K   94 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----h
Confidence            346778999999999999999888766   44444       777888999999999999999999999999987    4


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Q 003366          787 EREEENLRKKIKDASDTIQDLLD  809 (826)
Q Consensus       787 ~~e~~~lr~kl~~a~~~i~~~~~  809 (826)
                      ..+.|.||.-+.|--.-..+.++
T Consensus        95 ~E~veEL~~Dv~DlK~myr~Qi~  117 (120)
T PF12325_consen   95 SEEVEELRADVQDLKEMYREQID  117 (120)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH
Confidence            56777888877665544444443

The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].

>PRK11107 hybrid sensory histidine kinase BarA; Provisional

Probab=95.39  E-value=0.038  Score=66.37  Aligned_cols=94  Identities=16%  Similarity=0.171  Sum_probs=58.9

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccC-CC--ceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRK-DG--SRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG  228 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~-~g--~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~G  228 (826)
                      +...+|..||+||+.+...+  .|.|.+..... ++  .-.|.|.|||.||+++++.+.+...+..........|..|+|
T Consensus       408 ~l~~vl~NLl~NAik~~~~g--~v~i~v~~~~~~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~g~GLG  485 (919)
T PRK11107        408 RLQQIITNLVGNAIKFTESG--NIDILVELRALSNTKVQLEVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLG  485 (919)
T ss_pred             HHHHHHHHHHHHHhhcCCCC--cEEEEEEEEecCCCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCCCCCCCCCcchh
Confidence            35568999999999985432  34444432111 11  346999999999999999987753222111111234667888


Q ss_pred             cccc---ccccCCeEEEEeeec
Q 003366          229 FKTS---TMRLGADVIVFSCCC  247 (826)
Q Consensus       229 fKsA---smrLG~~v~V~SK~~  247 (826)
                      +..+   .-.+|-.+.|.|...
T Consensus       486 L~i~~~i~~~~gG~i~v~s~~~  507 (919)
T PRK11107        486 LVITQKLVNEMGGDISFHSQPN  507 (919)
T ss_pred             HHHHHHHHHHhCCEEEEEecCC
Confidence            8532   224778888888753

>PTZ00108 DNA topoisomerase 2-like protein; Provisional

Probab=95.35  E-value=0.024  Score=72.42  Aligned_cols=88  Identities=22%  Similarity=0.233  Sum_probs=61.3

Q ss_pred             HHHHHHhccchhhhh-----CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh------hcccc---ccccccC--
Q 003366          155 GAFAELLDNSLDEVC-----NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH------CMSLG---YSAKSKA--  218 (826)
Q Consensus       155 gAIAELIDNAiDA~~-----~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~------~LsfG---~SsK~~~--  218 (826)
                      -.+-|+||||+|...     ..++.|.|.+..    ....|+|.|||.||.-+--..      -|.||   +++|..+  
T Consensus        60 ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~----d~g~IsV~dnGrGIPv~~h~~~~~~~pElIft~L~aGgkfdd~~  135 (1388)
T PTZ00108         60 KIFDEILVNAADNKARDKGGHRMTYIKVTIDE----ENGEISVYNDGEGIPVQIHKEHKIYVPEMIFGHLLTSSNYDDTE  135 (1388)
T ss_pred             hhHHHHhhhhhhhhcccCCCCCccEEEEEEec----cCCeEEEEecCCcccCCCCCCCCCccceEEEEEeeccccCCCCc
Confidence            458899999999865     236778887743    224799999999997642211      12233   3444432  


Q ss_pred             -CcccCcccCcccccccccCCeEEEEeeec
Q 003366          219 -ANTIGQYGNGFKTSTMRLGADVIVFSCCC  247 (826)
Q Consensus       219 -~~~IGrfG~GfKsAsmrLG~~v~V~SK~~  247 (826)
                       ..+-|+-|+|.+. +-.+...++|.+++.
T Consensus       136 yKvSGGlhGVGasv-vNalS~~f~Vev~r~  164 (1388)
T PTZ00108        136 KRVTGGRNGFGAKL-TNIFSTKFTVECVDS  164 (1388)
T ss_pred             eeeecccccCCccc-cccccceEEEEEEEC
Confidence             2468999999874 445899999999986

>PHA02569 39 DNA topoisomerase II large subunit; Provisional

Probab=95.35  E-value=0.015  Score=69.04  Aligned_cols=85  Identities=21%  Similarity=0.221  Sum_probs=57.1

Q ss_pred             HHHHhccchhhhhC----CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh---------hcccc---ccccccC--
Q 003366          157 FAELLDNSLDEVCN----GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH---------CMSLG---YSAKSKA--  218 (826)
Q Consensus       157 IAELIDNAiDA~~~----gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~---------~LsfG---~SsK~~~--  218 (826)
                      +-|+||||+|....    .++.|.|.+.      ...|+|.|||.||+-+.-.+         -|-||   ...|..+  
T Consensus        50 ~~EIldNavDe~~~~~~g~~~~I~V~i~------dgsisV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGgkFd~~y  123 (602)
T PHA02569         50 IDEIIDNSVDEAIRTNFKFANKIDVTIK------NNQVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFDDTN  123 (602)
T ss_pred             eehhhhhhhhhhhccCCCCCcEEEEEEc------CCEEEEEECCCcccCCcccccccccccceEEEEEeeccccccCCcc
Confidence            56999999997654    2777888774      23699999999997643211         11133   2334321  


Q ss_pred             CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          219 ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       219 ~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      ..+-|+-|+|.+ +.-.|+..+.|.++..+
T Consensus       124 kvSGGlhGVG~s-vvNaLS~~~~V~v~~~~  152 (602)
T PHA02569        124 RVTGGMNGVGSS-LTNFFSVLFIGETCDGK  152 (602)
T ss_pred             eeeCCcCCccce-eeeccchhhheEEEcCC
Confidence            346899999976 44468899998886543

>PLN03237 DNA topoisomerase 2; Provisional

Probab=95.30  E-value=0.026  Score=72.13  Aligned_cols=85  Identities=20%  Similarity=0.298  Sum_probs=58.6

Q ss_pred             HHHHHHhccchhhhhC--CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh-------hcccc---ccccccC---C
Q 003366          155 GAFAELLDNSLDEVCN--GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH-------CMSLG---YSAKSKA---A  219 (826)
Q Consensus       155 gAIAELIDNAiDA~~~--gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~-------~LsfG---~SsK~~~---~  219 (826)
                      -.+-|+||||+|....  .++.|.|.+..    ....|+|.|||.||.-+ ++.       -|.||   .++|..+   .
T Consensus        80 kifdEIldNAvDe~~r~g~~~~I~V~I~~----~~gsIsV~DnGRGIPV~-iH~~eg~~~pElIft~LhAGgkFdd~~yK  154 (1465)
T PLN03237         80 KIFDEILVNAADNKQRDPKMDSLRVVIDV----EQNLISVYNNGDGVPVE-IHQEEGVYVPEMIFGHLLTSSNYDDNEKK  154 (1465)
T ss_pred             hhHHHHhhhhHhHHhhcCCCCEEEEEEEc----CCCEEEEEecCccccCC-CCCCCCCccceEEEEeeeccccCCCCcce
Confidence            5689999999997522  25777777743    23479999999999765 221       11233   3444432   2


Q ss_pred             cccCcccCcccccccccCCeEEEEee
Q 003366          220 NTIGQYGNGFKTSTMRLGADVIVFSC  245 (826)
Q Consensus       220 ~~IGrfG~GfKsAsmrLG~~v~V~SK  245 (826)
                      .+-|+-|+|.+. .-.|...++|.++
T Consensus       155 vSGGlhGVGasv-vNaLS~~f~Vev~  179 (1465)
T PLN03237        155 TTGGRNGYGAKL-TNIFSTEFVIETA  179 (1465)
T ss_pred             eeccccccCccc-cccccCeeEEEEE
Confidence            468999999874 4458999999998

>PRK15347 two component system sensor kinase SsrA; Provisional

Probab=95.21  E-value=0.034  Score=66.89  Aligned_cols=88  Identities=16%  Similarity=0.223  Sum_probs=61.2

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .++..+|..||+||+.+..  ...|.|.+...  ++...|.|.|||.||+++++.+.+...+..+    ...+..|+|+.
T Consensus       512 ~~l~~il~NLl~NAik~~~--~g~I~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~----~~~~g~GLGL~  583 (921)
T PRK15347        512 LRLRQILVNLLGNAVKFTE--TGGIRLRVKRH--EQQLCFTVEDTGCGIDIQQQQQIFTPFYQAD----THSQGTGLGLT  583 (921)
T ss_pred             HHHHHHHHHHHHHHhhcCC--CCCEEEEEEEc--CCEEEEEEEEcCCCCCHHHHHHHhcCcccCC----CCCCCCchHHH
Confidence            3466789999999999843  23466666443  3567899999999999999998875433322    12356788886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.|.|..
T Consensus       584 i~~~~~~~~gG~i~i~s~~  602 (921)
T PRK15347        584 IASSLAKMMGGELTLFSTP  602 (921)
T ss_pred             HHHHHHHHcCCEEEEEecC
Confidence            432   1467778887764

>PTZ00109 DNA gyrase subunit b; Provisional

Probab=95.16  E-value=0.023  Score=69.65  Aligned_cols=121  Identities=24%  Similarity=0.273  Sum_probs=75.3

Q ss_pred             CCCCCCCCCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEEC
Q 003366          117 DYEGAPSGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDN  195 (826)
Q Consensus       117 ~y~~~~~~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DN  195 (826)
                      +|++....    .-.++.+||.-|-..- -||.-.-..-.|-|+||||+|...++ |+.|.|.+..     ...|+|.||
T Consensus        99 ~Y~a~~I~----vLeGLEaVRkRPGMYI-Gst~~~GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~-----DgsItV~Dn  168 (903)
T PTZ00109         99 EYDADDIV----VLEGLEAVRKRPGMYI-GNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHK-----DGSVEISDN  168 (903)
T ss_pred             CCChHhCe----ehhccHHHhcCCCcee-CCCCCCcceEEEEEEeeccchhhccCCCcEEEEEEcC-----CCeEEEEeC
Confidence            58765432    2368889998886542 12211111223569999999976554 6777777742     247999999


Q ss_pred             CCCCCHHHHhh--------hcc-------ccccc------------------cc--------------c---C--CcccC
Q 003366          196 GGGMNPDKMRH--------CMS-------LGYSA------------------KS--------------K---A--ANTIG  223 (826)
Q Consensus       196 G~GMs~eeL~~--------~Ls-------fG~Ss------------------K~--------------~---~--~~~IG  223 (826)
                      |.||+-+.-.+        +|.       |+...                  +.              .   .  ..+-|
T Consensus       169 GRGIPvd~h~k~g~s~~E~VlT~LhAGGKF~~~~~~~~~~~~~~~~~d~~~~~k~~~~~~~~~~~~~~~~~~~~YkvSGG  248 (903)
T PTZ00109        169 GRGIPCDVSEKTGKSGLETVLTVLHSGGKFQDTFPKNSRSDKSEDKNDTKSSKKGKSSHVKGPKEAKEKESSQMYEYSSG  248 (903)
T ss_pred             CccccccccccCCCcceeEEEEEeccCccccCcccccccccccccccccccccccccccccccccccccccCCcceecCc
Confidence            99997643221        111       22210                  00              0   0  13679


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .-|+|.+ +.=.|+..+.|.+++.|
T Consensus       249 LHGVG~S-VVNALS~~l~VeV~RdG  272 (903)
T PTZ00109        249 LHGVGLS-VVNALSSFLKVDVFKGG  272 (903)
T ss_pred             CCCccee-eeeeccCeEEEEEEECC
Confidence            9999975 44469999999999876

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=95.16  E-value=0.21  Score=58.72  Aligned_cols=81  Identities=35%  Similarity=0.452  Sum_probs=65.3

Q ss_pred             cchhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH---HHHHHH
Q 003366          719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRRERE---EENLRK  795 (826)
Q Consensus       719 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e---~~~lr~  795 (826)
                      |.....+|++++..|++++.+++..|..+.++|..|..+.+++....+.+.+|.+.|..-.++-+.|-.+=   -..|..
T Consensus       155 L~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri~~LEedi~~l~q  234 (546)
T PF07888_consen  155 LLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRIRELEEDIKTLTQ  234 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34457789999999999999999999999999999999999999999999999999988888777663322   234555


Q ss_pred             HHHH
Q 003366          796 KIKD  799 (826)
Q Consensus       796 kl~~  799 (826)
                      |.++
T Consensus       235 k~~E  238 (546)
T PF07888_consen  235 KEKE  238 (546)
T ss_pred             HHHH
Confidence            5533

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]

Probab=95.05  E-value=0.24  Score=52.96  Aligned_cols=95  Identities=33%  Similarity=0.464  Sum_probs=74.7

Q ss_pred             ccchhhhhhhhhhhHHHHHHHHhHHhH------------HHHH----HhhhcHHHHHHHHHHHHHHHHHHHHHH------
Q 003366          718 SLGANLGQLKQENHELKKRLEKKEGEL------------QEER----ERCRSLEAQLKVMQQTIEELNKEQESL------  775 (826)
Q Consensus       718 ~~~~~~~~~~~e~~~~~~~~~~~~~~~------------~~e~----~~~~~l~~~~~~~~~~~~~~~keq~~l------  775 (826)
                      +|+.-+.++..+..++++|+.+.|..+            .+|.    ++..+|+.+|.++...++.+.++++.|      
T Consensus        56 ~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~  135 (239)
T COG1579          56 DLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLER  135 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345557788888889999998887764            4444    677788888877777777776666554      


Q ss_pred             -HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003366          776 -IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIK  812 (826)
Q Consensus       776 -i~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~  812 (826)
                       -.-|+|.|.+-+.|.+.++.+....++.+..|.++|+
T Consensus       136 ~e~~~~e~~~~~e~e~~~i~e~~~~~~~~~~~L~~~l~  173 (239)
T COG1579         136 LEKNLAEAEARLEEEVAEIREEGQELSSKREELKEKLD  173 (239)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence             4568999999999999999999999999988888775

>PRK11091 aerobic respiration control sensor protein ArcB; Provisional

Probab=94.93  E-value=0.064  Score=64.03  Aligned_cols=92  Identities=17%  Similarity=0.223  Sum_probs=62.9

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc-CCcccCcccCccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK-AANTIGQYGNGFK  230 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~-~~~~IGrfG~GfK  230 (826)
                      ....++..||+||+++..  ...|.|.+.... ++.-.|.|.|||.||+++++.+++..-+..|.. .....+.-|+|+.
T Consensus       398 ~l~qvl~NLl~NAik~~~--~g~v~i~~~~~~-~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL~  474 (779)
T PRK11091        398 RLRQILWNLISNAVKFTQ--QGGVTVRVRYEE-GDMLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLA  474 (779)
T ss_pred             HHHHHHHHHHHHHHHhCC--CCcEEEEEEEcc-CCEEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHHH
Confidence            455789999999999953  344666665432 345689999999999999999987654544321 1223455678875


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-..|-.+.|.|..
T Consensus       475 i~~~iv~~~gG~i~v~s~~  493 (779)
T PRK11091        475 VSKRLAQAMGGDITVTSEE  493 (779)
T ss_pred             HHHHHHHHcCCEEEEEecC
Confidence            32   22478888888874

>PLN03128 DNA topoisomerase 2; Provisional

Probab=94.83  E-value=0.041  Score=69.46  Aligned_cols=86  Identities=20%  Similarity=0.266  Sum_probs=58.5

Q ss_pred             HHHHHHhccchhhhh--CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh------hcccc---ccccccC---Cc
Q 003366          155 GAFAELLDNSLDEVC--NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH------CMSLG---YSAKSKA---AN  220 (826)
Q Consensus       155 gAIAELIDNAiDA~~--~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~------~LsfG---~SsK~~~---~~  220 (826)
                      --+-|+||||+|...  ..++.|.|.+..    ....|+|.|||.||+-+--..      -|-||   .+.|..+   ..
T Consensus        55 ki~dEIldNAvDe~~~~g~~~~I~V~i~~----~dgsIsV~DnGrGIPv~ih~~~g~~~~ElIft~LhaGgkFdd~~ykv  130 (1135)
T PLN03128         55 KIFDEILVNAADNKQRDPSMDSLKVDIDV----EQNTISVYNNGKGIPVEIHKEEGVYVPELIFGHLLTSSNFDDNEKKT  130 (1135)
T ss_pred             HHHHHHHHHHHHHhhhcCCCcEEEEEEEc----CCCeEEEEecCccccCCCCCCCCCccceEEEEeeccccccCCcccee
Confidence            458899999999752  235777777743    134799999999997652211      11133   3444332   24


Q ss_pred             ccCcccCcccccccccCCeEEEEee
Q 003366          221 TIGQYGNGFKTSTMRLGADVIVFSC  245 (826)
Q Consensus       221 ~IGrfG~GfKsAsmrLG~~v~V~SK  245 (826)
                      +-|+-|+|.+. .=.|+..+.|.++
T Consensus       131 SGGlhGvGasv-vNaLS~~f~Vev~  154 (1135)
T PLN03128        131 TGGRNGYGAKL-ANIFSTEFTVETA  154 (1135)
T ss_pred             eccccCCCCeE-EEeecCeEEEEEE
Confidence            68999999874 4458999999998

>PRK10490 sensor protein KdpD; Provisional

Probab=94.83  E-value=0.055  Score=66.77  Aligned_cols=91  Identities=16%  Similarity=0.140  Sum_probs=61.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...++..||+||+.+... ...|.|.+...  ++.-.|.|.|||.||+++++.+.+...++.+.  ....+-.|+|+.
T Consensus       777 ~~L~qVL~NLL~NAik~s~~-g~~I~I~~~~~--~~~v~I~V~D~G~GI~~e~~~~IFepF~~~~~--~~~~~G~GLGL~  851 (895)
T PRK10490        777 PLFERVLINLLENAVKYAGA-QAEIGIDAHVE--GERLQLDVWDNGPGIPPGQEQLIFDKFARGNK--ESAIPGVGLGLA  851 (895)
T ss_pred             HHHHHHHHHHHHHHHHhCCC-CCeEEEEEEEe--CCEEEEEEEECCCCCCHHHHHHhcCCCccCCC--CCCCCCccHHHH
Confidence            45667899999999998432 34566666433  35668999999999999999988764443321  122334678875


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-..|-.+.+.|..
T Consensus       852 Ivk~ive~hGG~I~v~s~~  870 (895)
T PRK10490        852 ICRAIVEVHGGTIWAENRP  870 (895)
T ss_pred             HHHHHHHHcCCEEEEEECC
Confidence            32   12467888888764

>PRK10547 chemotaxis protein CheA; Provisional

Probab=94.83  E-value=0.089  Score=63.35  Aligned_cols=89  Identities=19%  Similarity=0.331  Sum_probs=59.2

Q ss_pred             HHHHHHhccchhhhhC-----------CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh-----------------
Q 003366          155 GAFAELLDNSLDEVCN-----------GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH-----------------  206 (826)
Q Consensus       155 gAIAELIDNAiDA~~~-----------gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~-----------------  206 (826)
                      .+|..||.||+|+-..           ....|.|.....  ++.-.|.|.|||.||+++.+..                 
T Consensus       388 dpL~hLirNAidHgie~p~~R~~~gkp~~G~I~l~a~~~--~~~v~I~V~DdG~GId~e~i~~~a~~~Gl~~~~~ls~~e  465 (670)
T PRK10547        388 DPLTHLVRNSLDHGIELPEKRLAAGKNSVGNLILSAEHQ--GGNICIEVTDDGAGLNRERILAKAASQGLAVSENMSDEE  465 (670)
T ss_pred             HHHHHHHHHHHHhhccchhhHHhcCCCCCCceEEEEEEc--CCEEEEEEEeCCCCCCHHHHHHHHHHcCCCccccCCHHH
Confidence            3456899999998311           012466666432  4556799999999999987752                 


Q ss_pred             ----hccccccccccCCcccCcccCccc---ccccccCCeEEEEeee
Q 003366          207 ----CMSLGYSAKSKAANTIGQYGNGFK---TSTMRLGADVIVFSCC  246 (826)
Q Consensus       207 ----~LsfG~SsK~~~~~~IGrfG~GfK---sAsmrLG~~v~V~SK~  246 (826)
                          .+..|++.+.. ...+.-.|+|+.   ...-.+|-.+.|.|..
T Consensus       466 ~~~lIF~pgfst~~~-~~~~sGrGvGL~iVk~~ve~lgG~I~v~S~~  511 (670)
T PRK10547        466 VGMLIFAPGFSTAEQ-VTDVSGRGVGMDVVKRNIQEMGGHVEIQSKQ  511 (670)
T ss_pred             HHHHhhcCCcccccc-cccCCCCchhHHHHHHHHHHcCCEEEEEecC
Confidence                33456776532 233455699985   3333688999999975

>PRK11466 hybrid sensory histidine kinase TorS; Provisional

Probab=94.79  E-value=0.06  Score=65.08  Aligned_cols=89  Identities=18%  Similarity=0.217  Sum_probs=62.3

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...++..||+||+.+..  ...|.|.+...  ++...|.|.|||.||+++++.+.+...+...    ...|..|+|+.
T Consensus       560 ~~l~qil~NLl~NAik~~~--~g~I~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~----~~~~g~GLGL~  631 (914)
T PRK11466        560 RRIRQVITNLLSNALRFTD--EGSIVLRSRTD--GEQWLVEVEDSGCGIDPAKLAEIFQPFVQVS----GKRGGTGLGLT  631 (914)
T ss_pred             HHHHHHHHHHHHHHHHhCC--CCeEEEEEEEc--CCEEEEEEEECCCCCCHHHHHHHhchhhcCC----CCCCCCcccHH
Confidence            4566789999999999843  34567766543  3456799999999999999998875433322    12356788876


Q ss_pred             cc---ccccCCeEEEEeeec
Q 003366          231 TS---TMRLGADVIVFSCCC  247 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~~  247 (826)
                      .+   .-.+|-.+.|-|...
T Consensus       632 i~~~l~~~~gG~i~v~s~~~  651 (914)
T PRK11466        632 ISSRLAQAMGGELSATSTPE  651 (914)
T ss_pred             HHHHHHHHcCCEEEEEecCC
Confidence            32   225778888888643

>TIGR01925 spIIAB anti-sigma F factor

Probab=94.73  E-value=0.095  Score=49.21  Aligned_cols=85  Identities=22%  Similarity=0.230  Sum_probs=51.6

Q ss_pred             HHHHHHHHhccchhhhh--CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          153 ALGAFAELLDNSLDEVC--NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~--~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      +-.|+.||+.||+.+.-  .....|.|.+...  ++...|.|.|+|.||+.  +..++...++.+.    ..+..|+|+.
T Consensus        40 l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~--~~~~~i~I~D~G~gi~~--~~~~~~~~~~~~~----~~~~~GlGL~  111 (137)
T TIGR01925        40 IKTAVSEAVTNAIIHGYEENCEGVVYISATIE--DHEVYITVRDEGIGIEN--LEEAREPLYTSKP----ELERSGMGFT  111 (137)
T ss_pred             HHHHHHHHHHHHHHhccCCCCCcEEEEEEEEe--CCEEEEEEEEcCCCcCc--hhHhhCCCcccCC----CCCCCcccHH
Confidence            34689999999997511  0124567766543  35678999999999973  3444433333221    2234677875


Q ss_pred             ccccccCCeEEEEeee
Q 003366          231 TSTMRLGADVIVFSCC  246 (826)
Q Consensus       231 sAsmrLG~~v~V~SK~  246 (826)
                      .. -+++.++.+.+..
T Consensus       112 lv-~~~~~~l~~~~~~  126 (137)
T TIGR01925       112 VM-ENFMDDVSVDSEK  126 (137)
T ss_pred             HH-HHhCCcEEEEECC
Confidence            42 2456677776653

This model describes the SpoIIAB anti-sigma F factor. Sigma F regulates spore development in B subtilis. SpoIIAB binds to sigma F, preventing formation of the transcription complex at the promoter. SpoIIAA (anti-anti-sigma F factor) binds to SpoIIAB to inhibit association with sigma F, however SpoIIAB can phosphorylate SpoIIAA, causing disassociation of the SpoIIAA/B complex. The SpoIIE phosphatase dephosphorylates SpoIIAA.

>COG2433 Uncharacterized conserved protein [Function unknown]

Probab=94.73  E-value=0.22  Score=58.90  Aligned_cols=87  Identities=26%  Similarity=0.421  Sum_probs=51.7

Q ss_pred             HHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHH-----hhhHHHHHHHHHHHHHHHHHHHH
Q 003366          733 LKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIF-AEER-----DRREREEENLRKKIKDASDTIQD  806 (826)
Q Consensus       733 ~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f-~eer-----~rr~~e~~~lr~kl~~a~~~i~~  806 (826)
                      ..+++.+.++-+++=...++.|+..++++++.||.|..+-+.+..-. .+.|     ..+|.+-+.|+++|++....|.+
T Consensus       420 ~~~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~  499 (652)
T COG2433         420 YEKRIKKLEETVERLEEENSELKRELEELKREIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEE  499 (652)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444333334444555555555555555544444443221 1222     22566678999999999999999


Q ss_pred             HHHHHhhhhhcCC
Q 003366          807 LLDKIKLLEKMKT  819 (826)
Q Consensus       807 ~~~~~~~~~~~~~  819 (826)
                      |-.+|+.+++|..
T Consensus       500 L~~~l~~l~k~~~  512 (652)
T COG2433         500 LERKLAELRKMRK  512 (652)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998887753

>PRK04069 serine-protein kinase RsbW; Provisional

Probab=94.69  E-value=0.047  Score=53.80  Aligned_cols=85  Identities=18%  Similarity=0.196  Sum_probs=52.9

Q ss_pred             HHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccc
Q 003366          155 GAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTS  232 (826)
Q Consensus       155 gAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsA  232 (826)
                      -|+.|++-||+.....+.  ..|.|.+...  ++...|.|.|+|.||+++.+...+.+.+..+..  .....-|.|+...
T Consensus        45 lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~--~~~l~i~V~D~G~g~d~~~~~~~~~p~~~~~~~--~~~~~~G~GL~li  120 (161)
T PRK04069         45 IAVSEACTNAVQHAYKEDEVGEIHIRFEIY--EDRLEIVVADNGVSFDYETLKSKLGPYDISKPI--EDLREGGLGLFLI  120 (161)
T ss_pred             HHHHHHHHHHHHhccCCCCCCeEEEEEEEE--CCEEEEEEEECCcCCChHHhccccCCCCCCCcc--cccCCCceeHHHH
Confidence            489999999999832211  3466666543  467889999999999998887655432221111  1111236777543


Q ss_pred             ccccCCeEEEEe
Q 003366          233 TMRLGADVIVFS  244 (826)
Q Consensus       233 smrLG~~v~V~S  244 (826)
                      - +|.+++.+.+
T Consensus       121 ~-~l~d~v~~~~  131 (161)
T PRK04069        121 E-TLMDDVTVYK  131 (161)
T ss_pred             H-HHHHhEEEEc
Confidence            3 4667776664

>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS

Probab=94.69  E-value=0.071  Score=64.68  Aligned_cols=90  Identities=17%  Similarity=0.158  Sum_probs=61.1

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCc-eEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGS-RMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~-~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      .+...+|..||+||+.+..  ...|.|.+....  +. ..|.|.|+|.||+++++.+.+..-+..+  .....|..|+||
T Consensus       578 ~~l~~il~nLi~NAik~~~--~g~i~i~~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~--~~~~~~g~GLGL  651 (968)
T TIGR02956       578 PRIRQVLINLVGNAIKFTD--RGSVVLRVSLND--DSSLLFEVEDTGCGIAEEEQATLFDAFTQAD--GRRRSGGTGLGL  651 (968)
T ss_pred             HHHHHHHHHHHHHHHhhCC--CCeEEEEEEEcC--CCeEEEEEEeCCCCCCHHHHHHHHhhhhccC--CCCCCCCccHHH
Confidence            4566789999999999843  345667665432  34 6899999999999999998775222222  122335678888


Q ss_pred             ccc---ccccCCeEEEEeee
Q 003366          230 KTS---TMRLGADVIVFSCC  246 (826)
Q Consensus       230 KsA---smrLG~~v~V~SK~  246 (826)
                      ..+   .-.+|-.+.|.|..
T Consensus       652 ~i~~~l~~~~gG~i~~~s~~  671 (968)
T TIGR02956       652 AISQRLVEAMDGELGVESEL  671 (968)
T ss_pred             HHHHHHHHHcCCEEEEEecC
Confidence            632   22567788887764

This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).

>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes

Probab=94.64  E-value=0.1  Score=63.04  Aligned_cols=39  Identities=31%  Similarity=0.509  Sum_probs=22.7

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQL  758 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~  758 (826)
                      ...|.+|++||.+|..||..+.-..++|+.-..+||.+|
T Consensus       459 k~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL  497 (697)
T PF09726_consen  459 KSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRL  497 (697)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334666777777777766666655555554444444444

; GO: 0016021 integral to membrane

>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional

Probab=94.42  E-value=0.079  Score=65.57  Aligned_cols=92  Identities=12%  Similarity=0.122  Sum_probs=61.5

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      ...-.+|..||+||+.+..  ...|.|.+...  ++...|.|.|+|.||+++++.+.+...+..........+-.|+||.
T Consensus       561 ~~L~qvl~NLl~NAik~t~--~G~I~I~v~~~--~~~l~i~V~DtG~GI~~e~~~~lFepF~~~~~~~~~~~~GtGLGL~  636 (924)
T PRK10841        561 MRLQQVISNLLSNAIKFTD--TGCIVLHVRVD--GDYLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLA  636 (924)
T ss_pred             HHHHHHHHHHHHHHHhhCC--CCcEEEEEEEe--CCEEEEEEEEcCcCCCHHHHHHHhcccccCCCCCCCCCCCeehhHH
Confidence            3455789999999999853  23466655432  3556799999999999999998775333222111123345788886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+.   -.+|-.+.|.|..
T Consensus       637 I~k~lv~~~gG~I~v~S~~  655 (924)
T PRK10841        637 ICEKLINMMDGDISVDSEP  655 (924)
T ss_pred             HHHHHHHHCCCEEEEEEcC
Confidence            432   2577888888864

>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]

Probab=94.32  E-value=0.063  Score=63.29  Aligned_cols=59  Identities=25%  Similarity=0.446  Sum_probs=45.2

Q ss_pred             HHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccc
Q 003366          155 GAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAK  215 (826)
Q Consensus       155 gAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK  215 (826)
                      ..+-.||.||+||.... ...|+|....  .++.-.|.|.|||+|+.++-+.+++..=+.+|
T Consensus       500 QVLvNLl~NALDA~~~~~~~~i~i~~~~--~~~~v~l~VrDnGpGi~~e~~~~lFePF~TtK  559 (603)
T COG4191         500 QVLVNLLQNALDAMAGQEDRRLSIRAQR--EGGQVVLTVRDNGPGIAPEALPHLFEPFFTTK  559 (603)
T ss_pred             HHHHHHHHHHHHHhcCCCCCeeEEEEEe--cCCeEEEEEccCCCCCCHHHHHhhcCCccccC
Confidence            46889999999997532 2456676654  35778899999999999999999876444445

>PRK13557 histidine kinase; Provisional

Probab=94.30  E-value=0.12  Score=57.44  Aligned_cols=90  Identities=20%  Similarity=0.193  Sum_probs=60.3

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEc-------------cCCCceEEEEEECCCCCCHHHHhhhccccccccccC
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLIN-------------RKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA  218 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~-------------~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~  218 (826)
                      ..-.++..|+.||+++... ...|.|.....             ..++...|.|.|||.||+++.+.+++...++.+.  
T Consensus       277 ~l~~vl~nll~NA~~~~~~-~~~i~i~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~if~~~~~~~~--  353 (540)
T PRK13557        277 QAEVALLNVLINARDAMPE-GGRVTIRTRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILARVMDPFFTTKE--  353 (540)
T ss_pred             HHHHHHHHHHHHHHHhccc-CCeEEEEEeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHHHhccCCCcccCC--
Confidence            3456799999999998542 23455544311             0123457999999999999999998876555442  


Q ss_pred             CcccCcccCcccc---cccccCCeEEEEeee
Q 003366          219 ANTIGQYGNGFKT---STMRLGADVIVFSCC  246 (826)
Q Consensus       219 ~~~IGrfG~GfKs---AsmrLG~~v~V~SK~  246 (826)
                        ..+..|+||..   ..-.+|-.+.|.+..
T Consensus       354 --~~~g~GlGL~i~~~~v~~~gG~i~~~s~~  382 (540)
T PRK13557        354 --EGKGTGLGLSMVYGFAKQSGGAVRIYSEV  382 (540)
T ss_pred             --CCCCCCccHHHHHHHHHHCCCEEEEEecC
Confidence              22456778753   233578889988864

>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional

Probab=94.29  E-value=0.092  Score=65.03  Aligned_cols=94  Identities=12%  Similarity=0.050  Sum_probs=60.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccC-CCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRK-DGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~-~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      .....++..||.||+.+...  ..|.|.+..... ++.-.|.|.|+|.||+++++.+.+..-+..+.. ...-+--|+||
T Consensus       564 ~~L~QVL~NLL~NAik~t~~--G~I~I~v~~~~~~~~~l~I~V~DtG~GI~~e~l~~IFePF~t~~~~-~~~~~GtGLGL  640 (894)
T PRK10618        564 DALRKILLLLLNYAITTTAY--GKITLEVDQDESSPDRLTIRILDTGAGVSIKELDNLHFPFLNQTQG-DRYGKASGLTF  640 (894)
T ss_pred             HHHHHHHHHHHHHHHHhCCC--CeEEEEEEEccCCCcEEEEEEEECCCCCCHHHHHHhcCccccCCCC-CCCCCCcChhH
Confidence            34557899999999998542  346666543221 244679999999999999999976533333321 11123457776


Q ss_pred             ccc---ccccCCeEEEEeeec
Q 003366          230 KTS---TMRLGADVIVFSCCC  247 (826)
Q Consensus       230 KsA---smrLG~~v~V~SK~~  247 (826)
                      ..+   .-.+|-.+.|-|...
T Consensus       641 aI~k~Lve~~GG~I~v~S~~g  661 (894)
T PRK10618        641 FLCNQLCRKLGGHLTIKSREG  661 (894)
T ss_pred             HHHHHHHHHcCCEEEEEECCC
Confidence            432   225788899988753

>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional

Probab=94.05  E-value=0.14  Score=64.18  Aligned_cols=94  Identities=15%  Similarity=0.138  Sum_probs=58.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccC-CCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRK-DGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~-~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      .....+|..||+||+++...+...|.+....... .....|.|.|||.||+++++.+++...+..+.  ...-+..|+||
T Consensus       827 ~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~--~~~~~G~GLGL  904 (1197)
T PRK09959        827 QAFKQVLSNLLSNALKFTTEGAVKITTSLGHIDDNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSA--GRQQTGSGLGL  904 (1197)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEEEeeecCCceEEEEEEEEcCCCCCHHHHHHhhcccccccc--CCCCCCcCchH
Confidence            3566789999999999954332223332211111 12245899999999999999998764443321  11234578888


Q ss_pred             ccc---ccccCCeEEEEeee
Q 003366          230 KTS---TMRLGADVIVFSCC  246 (826)
Q Consensus       230 KsA---smrLG~~v~V~SK~  246 (826)
                      ..+   .-.+|-.+.|.|..
T Consensus       905 ~i~~~iv~~~gG~i~v~s~~  924 (1197)
T PRK09959        905 MICKELIKNMQGDLSLESHP  924 (1197)
T ss_pred             HHHHHHHHHcCCEEEEEeCC
Confidence            642   22477888888864

>TIGR01924 rsbW_low_gc serine-protein kinase RsbW

Probab=93.94  E-value=0.12  Score=51.09  Aligned_cols=85  Identities=15%  Similarity=0.221  Sum_probs=53.4

Q ss_pred             HHHHHHhccchhhhhCC--CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccc
Q 003366          155 GAFAELLDNSLDEVCNG--ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTS  232 (826)
Q Consensus       155 gAIAELIDNAiDA~~~g--At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsA  232 (826)
                      -|+.||+.||+...-.+  ...|.|.+...  ++...|.|.|+|.||+++.+......-...  ........-|.|+...
T Consensus        45 lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~--~~~l~i~V~D~G~gfd~~~~~~~~~~~~~~--~~~~~~~~~G~GL~Li  120 (159)
T TIGR01924        45 IAVSEACTNAVKHAYKEGENGEIGISFHIY--EDRLEIIVSDQGDSFDMDTFKQSLGPYDGS--EPIDDLREGGLGLFLI  120 (159)
T ss_pred             HHHHHHHHHHHHhccCCCCCCeEEEEEEEe--CCEEEEEEEEcccccCchhhccccCCCCCC--CCcccCCCCccCHHHH
Confidence            48999999999983211  13577776553  466789999999999998876543211111  1111122337777643


Q ss_pred             ccccCCeEEEEe
Q 003366          233 TMRLGADVIVFS  244 (826)
Q Consensus       233 smrLG~~v~V~S  244 (826)
                      - .|.+++.+.+
T Consensus       121 ~-~L~D~v~~~~  131 (159)
T TIGR01924       121 E-TLMDEVEVYE  131 (159)
T ss_pred             H-HhccEEEEEe
Confidence            3 5778887765

This model describes the anti-sigma B factor also known as serine-protein kinase RsbW. Sigma B controls the general stress regulon in B subtilis and is activated by cell stresses such as stationary phase and heat shock. RsbW binds to sigma B and prevents formation of the transcription complex at the promoter. RsbV (anti-anti-sigma factor) binds to RsbW to inhibit association with sigma B, however RsbW can phosphorylate RsbV, causing disassociation of the RsbV/RsbW complex. Low ATP level or environmental stress causes the dephosphorylation of RsbV.

>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain

Probab=93.83  E-value=0.14  Score=47.30  Aligned_cols=80  Identities=18%  Similarity=0.249  Sum_probs=53.0

Q ss_pred             HHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          153 ALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      ..-|+.|++-||+.....+.  ..|.|.+...  .+.-.|.|.|+|.|+++..+.....-+.       .....-|.|+.
T Consensus        32 ~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~--~~~l~i~v~D~G~~~d~~~~~~~~~~~~-------~~~~~~G~Gl~  102 (125)
T PF13581_consen   32 LELAVSEALTNAVEHGYPGDPDGPVDVRLEVD--PDRLRISVRDNGPGFDPEQLPQPDPWEP-------DSLREGGRGLF  102 (125)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEc--CCEEEEEEEECCCCCChhhccCcccccC-------CCCCCCCcCHH
Confidence            34689999999999843322  3466665443  4667899999999999997765432111       23334466765


Q ss_pred             ccccccCCeEEE
Q 003366          231 TSTMRLGADVIV  242 (826)
Q Consensus       231 sAsmrLG~~v~V  242 (826)
                      ... ++++++.+
T Consensus       103 li~-~l~D~~~~  113 (125)
T PF13581_consen  103 LIR-SLMDEVDY  113 (125)
T ss_pred             HHH-HHHcEEEE
Confidence            322 57888888

>PRK11644 sensory histidine kinase UhpB; Provisional

Probab=93.79  E-value=0.14  Score=59.07  Aligned_cols=70  Identities=26%  Similarity=0.363  Sum_probs=49.6

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      -.+.++.|+++||+.+.  .+..|.|.+...  ++.-.|.|.|||.||++++.                   ..|+|+..
T Consensus       410 ~L~ril~nlL~NAiKha--~~~~I~I~l~~~--~~~i~l~V~DnG~Gi~~~~~-------------------~~GLGL~i  466 (495)
T PRK11644        410 TLFRVCQEGLNNIVKHA--DASAVTLQGWQQ--DERLMLVIEDDGSGLPPGSG-------------------QQGFGLRG  466 (495)
T ss_pred             HHHHHHHHHHHHHHHhC--CCCEEEEEEEEc--CCEEEEEEEECCCCCCcCCC-------------------CCCCcHHH
Confidence            35568899999999983  356677777543  35678999999999987531                   23777753


Q ss_pred             c---ccccCCeEEEEe
Q 003366          232 S---TMRLGADVIVFS  244 (826)
Q Consensus       232 A---smrLG~~v~V~S  244 (826)
                      +   .-.+|-++.+.|
T Consensus       467 vr~iv~~~GG~i~v~S  482 (495)
T PRK11644        467 MRERVTALGGTLTISC  482 (495)
T ss_pred             HHHHHHHcCCEEEEEc
Confidence            2   225777888877

>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT)

Probab=93.72  E-value=1.6  Score=42.36  Aligned_cols=94  Identities=27%  Similarity=0.380  Sum_probs=77.4

Q ss_pred             hhhhhhhhhhhHHHHHHHHhHHhHHHHH-------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHH
Q 003366          721 ANLGQLKQENHELKKRLEKKEGELQEER-------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENL  793 (826)
Q Consensus       721 ~~~~~~~~e~~~~~~~~~~~~~~~~~e~-------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~l  793 (826)
                      .-+..++++.....++....+....+|+       .....|.++++.++.++.++..+=++....+.+.+..=..+++-|
T Consensus        24 ~~~~~~~~dl~~q~~~a~~Aq~~YE~El~~Ha~~~~~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l~~~e~sw~~qk~~l  103 (132)
T PF07926_consen   24 EQLQSLREDLESQAKIAQEAQQKYERELVKHAEDIKELQQLREELQELQQEINELKAEAESAKAELEESEASWEEQKEQL  103 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            3456666666777777777777777777       667788889999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHhhh
Q 003366          794 RKKIKDASDTIQDLLDKIKLL  814 (826)
Q Consensus       794 r~kl~~a~~~i~~~~~~~~~~  814 (826)
                      .+-+.++-..|.||-+|=+.|
T Consensus       104 e~e~~~~~~r~~dL~~QN~lL  124 (132)
T PF07926_consen  104 EKELSELEQRIEDLNEQNKLL  124 (132)
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999988774443

These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore

>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans

Probab=93.28  E-value=2.8  Score=48.01  Aligned_cols=76  Identities=33%  Similarity=0.397  Sum_probs=42.3

Q ss_pred             hhhhhhhhhHHHHHHHHhHHh-----------HHHHHHhhhcHHHHHHHHHH--HHHHHHHHHH-----HHHHHHHHHHh
Q 003366          723 LGQLKQENHELKKRLEKKEGE-----------LQEERERCRSLEAQLKVMQQ--TIEELNKEQE-----SLIDIFAEERD  784 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~-----------~~~e~~~~~~l~~~~~~~~~--~~~~~~keq~-----~li~~f~eer~  784 (826)
                      +..++++...|.+.+.++++.           |+.|+.|+..||+||.|+-+  |-|-.|=.|+     .=++--+.||.
T Consensus       221 l~eik~~~~~L~~~~e~Lk~~~~~e~~~~~~~LqEEr~R~erLEeqlNd~~elHq~Ei~~LKqeLa~~EEK~~Yqs~eRa  300 (395)
T PF10267_consen  221 LREIKESQSRLEESIEKLKEQYQREYQFILEALQEERYRYERLEEQLNDLTELHQNEIYNLKQELASMEEKMAYQSYERA  300 (395)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            344444444444455554443           57777889999999977655  3333333333     23455777886


Q ss_pred             hhHHHH-HHHHHHHH
Q 003366          785 RREREE-ENLRKKIK  798 (826)
Q Consensus       785 rr~~e~-~~lr~kl~  798 (826)
                      |-=+|. |+...|+.
T Consensus       301 Rdi~E~~Es~qtRis  315 (395)
T PF10267_consen  301 RDIWEVMESCQTRIS  315 (395)
T ss_pred             hHHHHHHHHHHHHHH
Confidence            543332 44444443

Its function is unknown.

>KOG3850 consensus Predicted membrane protein [Function unknown]

Probab=93.15  E-value=6.1  Score=45.16  Aligned_cols=67  Identities=34%  Similarity=0.410  Sum_probs=43.5

Q ss_pred             hhhhhhhhhHHHHHHHHhHHh------------------HHHHHHhhhcHHHHHHHHH----HHHHHHHHHHHHH---HH
Q 003366          723 LGQLKQENHELKKRLEKKEGE------------------LQEERERCRSLEAQLKVMQ----QTIEELNKEQESL---ID  777 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~------------------~~~e~~~~~~l~~~~~~~~----~~~~~~~keq~~l---i~  777 (826)
                      +..+.+|..|.|+-...++++                  ||.|+=||..||+||-++-    ..|-.|+.||.+.   |+
T Consensus       262 l~aileeL~eIk~~q~~Leesye~Lke~~krdy~fi~etLQEERyR~erLEEqLNdlteLqQnEi~nLKqElasmeerva  341 (455)
T KOG3850|consen  262 LDAILEELREIKETQALLEESYERLKEQIKRDYKFIAETLQEERYRYERLEEQLNDLTELQQNEIANLKQELASMEERVA  341 (455)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555556666665554444444                  5888888999999996553    2566666677654   56


Q ss_pred             HHHHHHhhhHHH
Q 003366          778 IFAEERDRRERE  789 (826)
Q Consensus       778 ~f~eer~rr~~e  789 (826)
                      --+-||.|-=||
T Consensus       342 YQsyERaRdIqE  353 (455)
T KOG3850|consen  342 YQSYERARDIQE  353 (455)
T ss_pred             HHHHHHHHHHHH
Confidence            667788764444

>PF06705 SF-assemblin: SF-assemblin/beta giardin

Probab=93.03  E-value=1.1  Score=47.42  Aligned_cols=47  Identities=34%  Similarity=0.581  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 003366          767 ELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKL  813 (826)
Q Consensus       767 ~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~  813 (826)
                      ++-++-..|..+|-+||.-|.+.|+++.+||.+....|++-++.=+.
T Consensus       125 ~l~~~l~~l~~~~~~Er~~R~erE~~i~krl~e~~~~l~~~i~~Ek~  171 (247)
T PF06705_consen  125 ELVRELNELQEAFENERNEREEREENILKRLEEEENRLQEKIEKEKN  171 (247)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35556677889999999999999999999999999998777765443

>PRK03660 anti-sigma F factor; Provisional

Probab=93.01  E-value=0.31  Score=46.18  Aligned_cols=83  Identities=20%  Similarity=0.279  Sum_probs=49.4

Q ss_pred             HHHHHHHhccchhhhhCC-C-ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          154 LGAFAELLDNSLDEVCNG-A-TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       154 FgAIAELIDNAiDA~~~g-A-t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      --|+.||+.||+...... . ..|.|.+...  ++...+.|.|+|.||++  +...+...++.+.    .-+.-|+|+..
T Consensus        41 ~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~--~~~l~i~I~D~G~g~~~--~~~~~~~~~~~~~----~~~~~GlGL~i  112 (146)
T PRK03660         41 KTAVSEAVTNAIIHGYENNPDGVVYIEVEIE--EEELEITVRDEGKGIED--IEEAMQPLYTTKP----ELERSGMGFTV  112 (146)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCCEEEEEEEEC--CCEEEEEEEEccCCCCh--HHHhhCCCcccCC----CCCCccccHHH
Confidence            458999999999652111 1 3466665432  35667999999999986  3334433332221    11235888864


Q ss_pred             cccccCCeEEEEee
Q 003366          232 STMRLGADVIVFSC  245 (826)
Q Consensus       232 AsmrLG~~v~V~SK  245 (826)
                      +. +++..+.+-+.
T Consensus       113 ~~-~~~~~i~~~~~  125 (146)
T PRK03660        113 ME-SFMDEVEVESE  125 (146)
T ss_pred             HH-HhCCeEEEEec
Confidence            33 46777766554

>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]

Probab=92.39  E-value=0.21  Score=58.59  Aligned_cols=74  Identities=27%  Similarity=0.397  Sum_probs=57.8

Q ss_pred             HHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc-cc
Q 003366          155 GAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT-ST  233 (826)
Q Consensus       155 gAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs-As  233 (826)
                      --|+|-+.||+-..  .|+.|+|.+..+.  |...+.|.|||+|++..                ....|.||+-.-- =+
T Consensus       484 qIvREAlsNa~KHa--~As~i~V~~~~~~--g~~~~~VeDnG~Gi~~~----------------~e~~gHyGL~IM~ERA  543 (574)
T COG3850         484 QIVREALSNAIKHA--QASEIKVTVSQND--GQVTLTVEDNGVGIDEA----------------AEPSGHYGLNIMRERA  543 (574)
T ss_pred             HHHHHHHHHHHHhc--ccCeEEEEEEecC--CeEEEEEeeCCcCCCCc----------------cCCCCCcchHHHHHHH
Confidence            46999999999973  5899999987753  78899999999999876                2356899976521 12


Q ss_pred             cccCCeEEEEeeecC
Q 003366          234 MRLGADVIVFSCCCG  248 (826)
Q Consensus       234 mrLG~~v~V~SK~~g  248 (826)
                      -+|+..+.|-.|..|
T Consensus       544 ~~L~~~L~i~~~~~g  558 (574)
T COG3850         544 QRLGGQLRIRRREGG  558 (574)
T ss_pred             HHhcCeEEEeecCCC
Confidence            268999999988654

>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch

Probab=92.19  E-value=1.3  Score=43.45  Aligned_cols=72  Identities=29%  Similarity=0.492  Sum_probs=36.9

Q ss_pred             hhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhhhHHHHHHHHHHHH
Q 003366          727 KQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLI-------DIFAEERDRREREEENLRKKIK  798 (826)
Q Consensus       727 ~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li-------~~f~eer~rr~~e~~~lr~kl~  798 (826)
                      +..+..|++++...|-++..-..+.+.|+.++..++.++.....|-..|.       --+.-|..|+|+|-+.|+++|.
T Consensus        72 ~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~~~~tq~~~e~rkke~E~~kLk~rL~  150 (151)
T PF11559_consen   72 QNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQQRKTQYEHELRKKEREIEKLKERLN  150 (151)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            33333333333333333333335556666666555555544444433333       2355677777777777776663

pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=91.79  E-value=2.9  Score=42.08  Aligned_cols=64  Identities=25%  Similarity=0.399  Sum_probs=32.1

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEER  783 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer  783 (826)
                      ...+.+|.+|...+.+++...+..+....+....+.+.++.++.++..++...+.+...|.+=+
T Consensus        87 ~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~  150 (191)
T PF04156_consen   87 QQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ  150 (191)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4456666666666666666666555444433333334444444444444444444444444333

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]

Probab=91.53  E-value=0.31  Score=55.11  Aligned_cols=88  Identities=20%  Similarity=0.358  Sum_probs=61.8

Q ss_pred             HHHHHhccchhhhhCC-------CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC------Cccc
Q 003366          156 AFAELLDNSLDEVCNG-------ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA------ANTI  222 (826)
Q Consensus       156 AIAELIDNAiDA~~~g-------At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~------~~~I  222 (826)
                      .+-||..||+-|....       -..|.|.+..+  +....|.|.|-|+|++++++..+++|++|.-...      ...+
T Consensus       264 mlfElfKNamrATve~h~~~~~~~ppI~V~V~~g--deDl~ikISDrGGGV~~~~~drlf~Y~ySTa~~~~~d~~~~~pl  341 (414)
T KOG0787|consen  264 MLFELFKNAMRATVEHHGDDGDELPPIKVTVAKG--DEDLLIKISDRGGGVPHRDIDRLFSYMYSTAPAPSSDNNRTAPL  341 (414)
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecC--CcceEEEEecCCCCcChhHHHHHHhhhcccCCCCCCCCCCcCcc
Confidence            6899999999997541       12366666543  3567899999999999999999999999865321      2356


Q ss_pred             CcccCccccccc---ccCCeEEEEee
Q 003366          223 GQYGNGFKTSTM---RLGADVIVFSC  245 (826)
Q Consensus       223 GrfG~GfKsAsm---rLG~~v~V~SK  245 (826)
                      --||-|+-.+-.   ..|-++-+.|-
T Consensus       342 aGfG~GLPisrlYa~yf~Gdl~L~Sl  367 (414)
T KOG0787|consen  342 AGFGFGLPISRLYARYFGGDLKLQSL  367 (414)
T ss_pred             cccccCCcHHHHHHHHhCCCeeEEee
Confidence            677877753221   24455556665

>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]

Probab=91.51  E-value=0.17  Score=57.70  Aligned_cols=81  Identities=20%  Similarity=0.291  Sum_probs=51.3

Q ss_pred             HHHHHhccchhhhhC-CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccccc
Q 003366          156 AFAELLDNSLDEVCN-GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTSTM  234 (826)
Q Consensus       156 AIAELIDNAiDA~~~-gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsAsm  234 (826)
                      .|-=|||||+-|... .....+|.+.....++.-.+.|.|||.||++..+....+-|..+          -|+|+...--
T Consensus       354 ~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~~i~i~i~Dng~g~~~~~~~~~~~~~~~r----------~giGL~Nv~~  423 (456)
T COG2972         354 VLQPLVENAIEHGIEPKRPGGSIAISAKKQDDVIQISISDNGPGIDEEKLEGLSTKGENR----------SGIGLSNVKE  423 (456)
T ss_pred             HHhHHHHHHHHHhcccCCCCCEEEEEEEEcCCEEEEEEeeCCCCCChhHHHHHHhhccCc----------ccccHHHHHH
Confidence            578899999998421 12234555544434567889999999999999888544222111          4888876554


Q ss_pred             ccC----C-eEEEEeee
Q 003366          235 RLG----A-DVIVFSCC  246 (826)
Q Consensus       235 rLG----~-~v~V~SK~  246 (826)
                      |+.    . .+.+.|+.
T Consensus       424 rl~~~~g~~~~~i~s~~  440 (456)
T COG2972         424 RLKLYFGEPGLSIDSQP  440 (456)
T ss_pred             HHHHeeCCcceeEeecC
Confidence            443    3 24455554

>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]

Probab=91.39  E-value=0.26  Score=53.96  Aligned_cols=74  Identities=27%  Similarity=0.334  Sum_probs=55.7

Q ss_pred             cccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          150 HKWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      ..-.|-++.|.|-|++-.-  +|+.|.|.+...  ++.-.|.|.|||.|.+.+...                 |  |.|+
T Consensus       277 e~~l~rivQEaltN~~rHa--~A~~v~V~l~~~--~~~l~l~V~DnG~Gf~~~~~~-----------------~--~~GL  333 (365)
T COG4585         277 EDALFRIVQEALTNAIRHA--QATEVRVTLERT--DDELRLEVIDNGVGFDPDKEG-----------------G--GFGL  333 (365)
T ss_pred             HHHHHHHHHHHHHHHHhcc--CCceEEEEEEEc--CCEEEEEEEECCcCCCccccC-----------------C--Ccch
Confidence            3557788999999999983  689999988764  456899999999999987642                 1  3344


Q ss_pred             c---ccccccCCeEEEEeee
Q 003366          230 K---TSTMRLGADVIVFSCC  246 (826)
Q Consensus       230 K---sAsmrLG~~v~V~SK~  246 (826)
                      +   -=...+|-.+.|.|..
T Consensus       334 ~~mreRv~~lgG~l~i~S~~  353 (365)
T COG4585         334 LGMRERVEALGGTLTIDSAP  353 (365)
T ss_pred             hhHHHHHHHcCCEEEEEecC
Confidence            3   2233588899999986

>PRK10600 nitrate/nitrite sensor protein NarX; Provisional

Probab=91.23  E-value=0.27  Score=56.88  Aligned_cols=75  Identities=21%  Similarity=0.195  Sum_probs=53.0

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+.+.+|.|+|.||+.+.  .+..|.|.+...  ++...|.|.|||.||+++.-          +        .-|+|+.
T Consensus       468 ~~l~~il~ell~NA~kha--~a~~i~V~~~~~--~~~~~l~V~D~G~Gi~~~~~----------~--------~~glGL~  525 (569)
T PRK10600        468 IHLLQIAREALSNALKHA--QASEVVVTVAQN--QNQVKLSVQDNGCGVPENAE----------R--------SNHYGLI  525 (569)
T ss_pred             HHHHHHHHHHHHHHHHhC--CCCeEEEEEEEc--CCEEEEEEEECCCCCCcccc----------C--------CCCccHH
Confidence            457788999999999973  356777777543  35678999999999998631          0        1255654


Q ss_pred             c---cccccCCeEEEEeeec
Q 003366          231 T---STMRLGADVIVFSCCC  247 (826)
Q Consensus       231 s---AsmrLG~~v~V~SK~~  247 (826)
                      .   -.-++|..+.|.+...
T Consensus       526 i~~~~~~~lgG~l~i~s~~~  545 (569)
T PRK10600        526 IMRDRAQSLRGDCRVRRRES  545 (569)
T ss_pred             HHHHHHHHcCCEEEEEECCC
Confidence            2   2225888999888753

>PF14362 DUF4407: Domain of unknown function (DUF4407)

Probab=91.08  E-value=1.3  Score=47.91  Aligned_cols=100  Identities=18%  Similarity=0.288  Sum_probs=73.8

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHHH------------hhhcHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEERE------------RCRSLEAQLKVMQQTIEELNKEQESLIDIFA----EER  783 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~------------~~~~l~~~~~~~~~~~~~~~keq~~li~~f~----eer  783 (826)
                      .+.++.|+.|+.++..++.+.+..++.|..            .++...++++.++++++++.++..+.+....    .++
T Consensus       141 ~~~i~~l~~~~~~~~~~~~~~~~~~~~E~~g~~~tg~~G~Gp~~~~~~~~~~~~~~~l~~l~~~~~~~~~~l~~~~~~~~  220 (301)
T PF14362_consen  141 DAEIAALQAEIDQLEKEIDRAQQEAQCEIFGTGGTGVPGKGPRYKEKRAQLDAAQAELDTLQAQIDAAIAALDAQIAARK  220 (301)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCcHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhHHHHH
Confidence            456889999999999999999999988882            3888899999999999999998888887777    444


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC
Q 003366          784 DRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT  819 (826)
Q Consensus       784 ~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~~~~  819 (826)
                      .+.+...+.....-....+.-..+|+++.++.....
T Consensus       221 ~~l~~~~~~~~a~~~~~~~~~~G~l~R~~Al~~L~~  256 (301)
T PF14362_consen  221 ARLDEARQAKVAEFQAIISANDGFLARLEALWELTK  256 (301)
T ss_pred             HHHHHHHHHHHHHHhHhhccCCCHHHHHHHHHHHHh
Confidence            444433333333333333445779999999887663

>PRK10884 SH3 domain-containing protein; Provisional

Probab=90.72  E-value=2.3  Score=44.64  Aligned_cols=56  Identities=16%  Similarity=0.303  Sum_probs=33.1

Q ss_pred             cccchhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHH
Q 003366          717 CSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL  775 (826)
Q Consensus       717 ~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~l  775 (826)
                      |++...+.+|++|..+|+++|.....+...+   ...|...++++.++++++++|...|
T Consensus        89 p~~~~rlp~le~el~~l~~~l~~~~~~~~~~---~~~l~~~~~~~~~~~~~L~~~n~~L  144 (206)
T PRK10884         89 PSLRTRVPDLENQVKTLTDKLNNIDNTWNQR---TAEMQQKVAQSDSVINGLKEENQKL  144 (206)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHHhHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556678888888888888887776664422   2223344444444555544444444

>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]

Probab=90.70  E-value=0.72  Score=56.22  Aligned_cols=89  Identities=21%  Similarity=0.405  Sum_probs=60.8

Q ss_pred             HHHHHhccchhhhhC--------C---CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh-hccc-------------
Q 003366          156 AFAELLDNSLDEVCN--------G---ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH-CMSL-------------  210 (826)
Q Consensus       156 AIAELIDNAiDA~~~--------g---At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~-~Lsf-------------  210 (826)
                      -+-.||-||+|.-.-        |   .-.|.|.-.  -.++.-.|.|.|||.|++++.++. ++.-             
T Consensus       436 PL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~--~~gn~ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lSd  513 (716)
T COG0643         436 PLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAY--HEGNNIVIEVSDDGAGIDREKIREKAIERGLITEEEAETLSD  513 (716)
T ss_pred             cHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEE--cCCCeEEEEEeeCCCCCCHHHHHHHHHHcCCCChHHhccCCH
Confidence            356799999997211        0   123555543  335677899999999999998875 4433             


Q ss_pred             ----------cccccccCCcccCcccCcc---cccccccCCeEEEEeeec
Q 003366          211 ----------GYSAKSKAANTIGQYGNGF---KTSTMRLGADVIVFSCCC  247 (826)
Q Consensus       211 ----------G~SsK~~~~~~IGrfG~Gf---KsAsmrLG~~v~V~SK~~  247 (826)
                                |+|.+. .-+.+--.|+|+   |+..=+||-.|.|-|+..
T Consensus       514 ~Ei~~LIF~PGFSTa~-~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G  562 (716)
T COG0643         514 EEILNLIFAPGFSTAE-QVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPG  562 (716)
T ss_pred             HHHHHHHhcCCCCcch-hhhcccCCccCHHHHHHHHHHcCCEEEEEecCC
Confidence                      444442 224566679998   566668999999999864

>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking

Probab=90.52  E-value=4.5  Score=42.67  Aligned_cols=67  Identities=31%  Similarity=0.508  Sum_probs=46.6

Q ss_pred             hhhhhhhhhhhHHHHHHHHhHH-----h----------HHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 003366          721 ANLGQLKQENHELKKRLEKKEG-----E----------LQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDR  785 (826)
Q Consensus       721 ~~~~~~~~e~~~~~~~~~~~~~-----~----------~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~r  785 (826)
                      .-|.+++.++..|+.++...-+     .          +.+..+++..|..+++.+++.+++..++-+.+-+.....|..
T Consensus        27 ~~l~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~~~r~~l~~~~~~l~~~~~~  106 (302)
T PF10186_consen   27 SELQQLKEENEELRRRIEEILESDSNGQLLEIQQLKREIEELRERLERLRERIERLRKRIEQKRERLEELRESLEQRRSR  106 (302)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3478888888888888877654     2          222337777777777777777777777777777776666654


Q ss_pred             hH
Q 003366          786 RE  787 (826)
Q Consensus       786 r~  787 (826)
                      -+
T Consensus       107 l~  108 (302)
T PF10186_consen  107 LS  108 (302)
T ss_pred             HH
Confidence            33

In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy

>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]

Probab=90.52  E-value=2.3  Score=56.77  Aligned_cols=92  Identities=26%  Similarity=0.394  Sum_probs=64.4

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhHHHHHHHHHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL---IDIFAEERDRREREEENLRKK  796 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~l---i~~f~eer~rr~~e~~~lr~k  796 (826)
                      ...+.+|.+...+|..|+..++++|+.|+..+..++.+..++...+++++++.+-.   +..-.|-+.+|+.|.+.||..
T Consensus      1089 ~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~~Lee~~~~t~~q~e~~~k~e~e~~~l~~~ 1168 (1930)
T KOG0161|consen 1089 QAEVAQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKEELEEQGGTTAAQLELNKKREAEVQKLRRD 1168 (1930)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence            45677888888889899999999998888777777777777777777777665544   444556667777777777777


Q ss_pred             HHHHHHHHHHHHHHH
Q 003366          797 IKDASDTIQDLLDKI  811 (826)
Q Consensus       797 l~~a~~~i~~~~~~~  811 (826)
                      |+++..+-...++.+
T Consensus      1169 leee~~~~e~~~~~l 1183 (1930)
T KOG0161|consen 1169 LEEETLDHEAQIEEL 1183 (1930)
T ss_pred             HHHHHHhHHHHHHHH
Confidence            766655444433333

>PF15254 CCDC14: Coiled-coil domain-containing protein 14

Probab=90.29  E-value=2.7  Score=51.37  Aligned_cols=94  Identities=27%  Similarity=0.413  Sum_probs=64.4

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHH-HH------------------HhhhcHHHHHHHHHHHHHHHHHHHHHHHH------
Q 003366          723 LGQLKQENHELKKRLEKKEGELQE-ER------------------ERCRSLEAQLKVMQQTIEELNKEQESLID------  777 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~-e~------------------~~~~~l~~~~~~~~~~~~~~~keq~~li~------  777 (826)
                      +.-|+-||..|+.||.-+...|+. |+                  -.|.+|+.||+|..+.+|.+...+|.|+.      
T Consensus       389 ~QplrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~k~~e~lq~kneellk~~e~q~  468 (861)
T PF15254_consen  389 MQPLRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESLKSQELLQSKNEELLKVIENQK  468 (861)
T ss_pred             hhhhhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHHHhHHHHHHhHHHHHHHHHHHH
Confidence            778999999999999988888743 44                  24567888887766666555544444433      


Q ss_pred             --------HHH-------HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 003366          778 --------IFA-------EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK  816 (826)
Q Consensus       778 --------~f~-------eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~  816 (826)
                              +|-       |-+.-.|.|-.+++.-+++|.-..+.+-=+|.+.|+
T Consensus       469 ~Enk~~~~~~~ekd~~l~~~kq~~d~e~~rik~ev~eal~~~k~~q~kLe~sek  522 (861)
T PF15254_consen  469 EENKRLRKMFQEKDQELLENKQQFDIETTRIKIEVEEALVNVKSLQFKLEASEK  522 (861)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHh
Confidence                    332       224455666777777777888888888777777664

>PRK13560 hypothetical protein; Provisional

Probab=90.16  E-value=0.29  Score=57.35  Aligned_cols=73  Identities=21%  Similarity=0.252  Sum_probs=46.4

Q ss_pred             HHHHHhccchhhhhCC--CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccccc
Q 003366          156 AFAELLDNSLDEVCNG--ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTST  233 (826)
Q Consensus       156 AIAELIDNAiDA~~~g--At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsAs  233 (826)
                      .|.+||.||+.+...+  +..|.|.+.... ++...|.|.|||+||+++..     +.          .| -|+||..+-
T Consensus       715 il~NLl~NAik~~~~~~~~~~i~i~~~~~~-~~~v~i~V~D~G~GI~~~~~-----~~----------~~-~gLGLai~~  777 (807)
T PRK13560        715 IISELLSNALKHAFPDGAAGNIKVEIREQG-DGMVNLCVADDGIGLPAGFD-----FR----------AA-ETLGLQLVC  777 (807)
T ss_pred             HHHHHHHHHHHhhccCCCCceEEEEEEEcC-CCEEEEEEEeCCCcCCcccc-----cc----------cc-CCccHHHHH
Confidence            6789999999974222  234666654321 34568999999999998631     10          01 157775322


Q ss_pred             ---cccCCeEEEEee
Q 003366          234 ---MRLGADVIVFSC  245 (826)
Q Consensus       234 ---mrLG~~v~V~SK  245 (826)
                         -..|-.+.|-|.
T Consensus       778 ~iv~~~gG~I~v~S~  792 (807)
T PRK13560        778 ALVKQLDGEIALDSR  792 (807)
T ss_pred             HHHHHcCCEEEEEcC
Confidence               257888888884

>PRK11637 AmiB activator; Provisional

Probab=90.07  E-value=4.1  Score=46.40  Aligned_cols=79  Identities=16%  Similarity=0.275  Sum_probs=53.3

Q ss_pred             hHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          731 HELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLD  809 (826)
Q Consensus       731 ~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~  809 (826)
                      ...++.|.....+++.++...+.+..+++..+++|+...+|+..+++-+..++..++.+.+.|+...+.....|.+|..
T Consensus       176 ~~~~~~L~~~k~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~~~~~~~~~l~~l~~~~~~L~~~I~~l~~  254 (428)
T PRK11637        176 KQTREELAAQKAELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLESSLQKDQQQLSELRANESRLRDSIARAER  254 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444555555666666666666677777777777788888888888888887777777777666666666655543

>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion

Probab=90.03  E-value=5.7  Score=40.06  Aligned_cols=88  Identities=28%  Similarity=0.490  Sum_probs=52.1

Q ss_pred             hhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          726 LKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELN---KEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       726 ~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~---keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      +..|-.+++.+|...++++..+.+++..++.++...+.......   +.=+.-++.|.++......|-..|++++++.-.
T Consensus        79 ~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~  158 (191)
T PF04156_consen   79 LQGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQKELQDSRE  158 (191)
T ss_pred             hhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33456666777777777776666666666666655554443333   333444566666666666666666666665555


Q ss_pred             HHHHHHHHHhh
Q 003366          803 TIQDLLDKIKL  813 (826)
Q Consensus       803 ~i~~~~~~~~~  813 (826)
                      .++++...+..
T Consensus       159 ~~~~~~~~~~~  169 (191)
T PF04156_consen  159 EVQELRSQLER  169 (191)
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].

>KOG0243 consensus Kinesin-like protein [Cytoskeleton]

Probab=89.75  E-value=3.6  Score=51.88  Aligned_cols=98  Identities=19%  Similarity=0.356  Sum_probs=69.2

Q ss_pred             hhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-----------------
Q 003366          722 NLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD-----------------  784 (826)
Q Consensus       722 ~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~-----------------  784 (826)
                      -|++|++|...++++|..+++.+..+++-++.|.++++..+.+|..-++|-+.+-.-|.+-+.                 
T Consensus       449 ~ieele~el~~~~~~l~~~~e~~~~~~~~~~~l~~~~~~~k~~L~~~~~el~~~~ee~~~~~~~l~~~e~ii~~~~~se~  528 (1041)
T KOG0243|consen  449 QIEELEEELENLEKQLKDLTELYMNQLEIKELLKEEKEKLKSKLQNKNKELESLKEELQQAKATLKEEEEIISQQEKSEE  528 (1041)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            488888999999999999998887777667777777766666666555555554444433332                 


Q ss_pred             -hhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCCC
Q 003366          785 -RREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTP  820 (826)
Q Consensus       785 -rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~~~~~  820 (826)
                       .+|+ ...||.-|+++..-++.|.++|....+.-.+
T Consensus       529 ~l~~~-a~~l~~~~~~s~~d~s~l~~kld~~~~~~d~  564 (1041)
T KOG0243|consen  529 KLVDR-ATKLRRSLEESQDDLSSLFEKLDRKDRLDDD  564 (1041)
T ss_pred             HHHHH-HHHHHHHHHHHHHHHHHHHHHhhhhhccccc
Confidence             2333 5678888899999999999998866554443

>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]

Probab=89.25  E-value=0.66  Score=53.96  Aligned_cols=63  Identities=19%  Similarity=0.176  Sum_probs=47.9

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKS  216 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~  216 (826)
                      +-..+-.|+-||+||+...|.-|+|+.... ..+..+|.|.|||.|-..+-+.+.+..-+++|.
T Consensus       565 ieQVlvNl~~NaldA~~h~~p~i~~~~~~~-~~e~l~i~i~DnGqGwp~~l~dkLl~PFttsK~  627 (673)
T COG4192         565 IEQVLVNLIVNALDASTHFAPWIKLIALGT-EQEMLRIAIIDNGQGWPHELVDKLLTPFTTSKE  627 (673)
T ss_pred             HHHHHHHHHHHHHhhhccCCceEEEEeecC-cccceEEEEecCCCCCchhHHHHhcCCcccccc
Confidence            335678899999999876666566655432 356788999999999999999998876666663

>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]

Probab=89.17  E-value=2.7  Score=49.86  Aligned_cols=93  Identities=29%  Similarity=0.471  Sum_probs=67.8

Q ss_pred             cchhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHh
Q 003366          719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKV--------------MQQTIEELNKEQESLIDIFAEERD  784 (826)
Q Consensus       719 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~--------------~~~~~~~~~keq~~li~~f~eer~  784 (826)
                      ++-.|.+|+.|+.+|+.++.+.+..+...+++-+.++..|-+              ++-.+..+.+|+.-|.+-+..-|.
T Consensus       111 ~e~ei~kl~~e~~elr~~~~~~~k~~~~~re~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~  190 (546)
T KOG0977|consen  111 LEIEITKLREELKELRKKLEKAEKERRGAREKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARK  190 (546)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            455699999999999999999998887666555544444333              333445567788888888888888


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 003366          785 RREREEENLRKKIKDASDTIQDLLDKIKLLE  815 (826)
Q Consensus       785 rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~  815 (826)
                      ..|+|- .||.   |+.+.+|+||+.|+-+.
T Consensus       191 ~ld~Et-llr~---d~~n~~q~Lleel~f~~  217 (546)
T KOG0977|consen  191 QLDDET-LLRV---DLQNRVQTLLEELAFLK  217 (546)
T ss_pred             HHHHHH-HHHH---HHHhHHHHHHHHHHHHH
Confidence            888764 3332   67789999999988654

>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]

Probab=89.15  E-value=3  Score=52.54  Aligned_cols=88  Identities=28%  Similarity=0.458  Sum_probs=61.2

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhH-------HHHH-HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh---HH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGEL-------QEER-ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRR---ER  788 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~-------~~e~-~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr---~~  788 (826)
                      +..|.++|.+-..|++.+...++++       +.|+ +|.+.|+.+++.++-++..|..|++-+..-..++..++   ..
T Consensus       364 ~n~i~~~k~~~d~l~k~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~  443 (1074)
T KOG0250|consen  364 ENSIRKLKKEVDRLEKQIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEG  443 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            3357777777777777776666654       2222 88999999999999999999999988887666554444   34


Q ss_pred             HHHHHHHHHHHHHHHHHHH
Q 003366          789 EEENLRKKIKDASDTIQDL  807 (826)
Q Consensus       789 e~~~lr~kl~~a~~~i~~~  807 (826)
                      +.-.||+|+..-+.+|++|
T Consensus       444 ~i~~l~k~i~~~~~~l~~l  462 (1074)
T KOG0250|consen  444 EILQLRKKIENISEELKDL  462 (1074)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4556666666666665554

>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]

Probab=89.11  E-value=2.9  Score=44.72  Aligned_cols=68  Identities=24%  Similarity=0.326  Sum_probs=43.4

Q ss_pred             hhhHHHHHHHHhHHhHHHHH-------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Q 003366          729 ENHELKKRLEKKEGELQEER-------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDA  800 (826)
Q Consensus       729 e~~~~~~~~~~~~~~~~~e~-------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a  800 (826)
                      +...|||++....+.|+.+.       +.+..|+.++++.|..|+.+.+|.-    .+-|+++++-.|...|++++.+-
T Consensus       129 ~~~d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s----~LeE~~~~l~~ev~~L~~r~~EL  203 (290)
T COG4026         129 EYMDLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENS----RLEEMLKKLPGEVYDLKKRWDEL  203 (290)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHhchhHHHHHHHHHHHh
Confidence            44566676666665554444       3344455555555555555555543    35688899999999999998754

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=88.72  E-value=4.3  Score=52.20  Aligned_cols=98  Identities=30%  Similarity=0.440  Sum_probs=80.0

Q ss_pred             hhhhhhhhhhHHHHHHHHhHHh----------HHHHHH-------hhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003366          722 NLGQLKQENHELKKRLEKKEGE----------LQEERE-------RCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD  784 (826)
Q Consensus       722 ~~~~~~~e~~~~~~~~~~~~~~----------~~~e~~-------~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~  784 (826)
                      .|.+|+++...|.++|...++.          ++.+..       ....|.+++.++++++.++..+...++..|...|.
T Consensus       772 ~I~~l~~~i~~L~~~l~~ie~~r~~V~eY~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  851 (1201)
T PF12128_consen  772 RIQQLKQEIEQLEKELKRIEERRAEVIEYEDWLQEEWDKVDELREEKPELEEQLRDLEQELQELEQELNQLQKEVKQRRK  851 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6889999999999999888876          233334       48899999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC
Q 003366          785 RREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT  819 (826)
Q Consensus       785 rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~~~~  819 (826)
                      +-+++...++..++.+...+..|..-+..+.....
T Consensus       852 ~le~~~~~~~~~~~~~~~~l~~l~~~~~~l~~~~~  886 (1201)
T PF12128_consen  852 ELEEELKALEEQLEQLEEQLRRLRDLLEKLAELSE  886 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC
Confidence            99999999999998888777765555554444433

>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]

Probab=88.23  E-value=0.77  Score=56.39  Aligned_cols=88  Identities=14%  Similarity=0.171  Sum_probs=56.1

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-ccccccccCCcccCcccCcccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      +-.+|..|||||+-..- ..+.|+|.....  ...-++.|.|+|.|++++++.+.+- |-+-.|.+   ...--|+|+.-
T Consensus       776 ieQVLiNLleNA~Kyap-~~s~I~I~~~~~--~~~v~~~V~DeGpGIP~~~~~~IFD~F~r~~~~~---~~~G~GLGLsI  849 (890)
T COG2205         776 IEQVLINLLENALKYAP-PGSEIRINAGVE--RENVVFSVIDEGPGIPEGELERIFDKFYRGNKES---ATRGVGLGLAI  849 (890)
T ss_pred             HHHHHHHHHHHHHhhCC-CCCeEEEEEEEe--cceEEEEEEeCCCCCChhHHHHhhhhhhcCCCCC---CCCCccccHHH
Confidence            45789999999999832 234577776543  3677899999999999999999774 43333321   12222444432


Q ss_pred             c--cc-ccCCeEEEEeee
Q 003366          232 S--TM-RLGADVIVFSCC  246 (826)
Q Consensus       232 A--sm-rLG~~v~V~SK~  246 (826)
                      +  .. ..|..+.+..+.
T Consensus       850 c~~iv~ahgG~I~a~~~~  867 (890)
T COG2205         850 CRGIVEAHGGTISAENNP  867 (890)
T ss_pred             HHHHHHHcCCeEEEEEcC
Confidence            1  11 345677777643

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=87.60  E-value=3.8  Score=49.16  Aligned_cols=55  Identities=24%  Similarity=0.270  Sum_probs=28.0

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 003366          749 ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDT  803 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~  803 (826)
                      ++...++.++++++++++++..+..+.--.+.++|+.-..+.+.++..++++...
T Consensus       230 ~~i~~l~~ele~a~~~l~~l~~~~~~~GG~~~~~r~~Le~ei~~le~e~~e~~~~  284 (650)
T TIGR03185       230 QEIAHLRNELEEAQRSLESLEKKFRSEGGDLFEEREQLERQLKEIEAARKANRAQ  284 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344455555555555555555444444455555555555555555555444333

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=87.60  E-value=3.7  Score=48.71  Aligned_cols=79  Identities=23%  Similarity=0.415  Sum_probs=47.8

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      ..+|.++..+|.+++...++.+.....-...++.+++++.++++++.++|..+.+...+=|    .+|...|++|+....
T Consensus       350 ~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lr----k~E~eAr~kL~~~~~  425 (569)
T PRK04778        350 VRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLR----KDELEAREKLERYRN  425 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Confidence            5555555555555555555555444444666777788888888888888887776665433    334444555554444


Q ss_pred             HHH
Q 003366          803 TIQ  805 (826)
Q Consensus       803 ~i~  805 (826)
                      ++.
T Consensus       426 ~L~  428 (569)
T PRK04778        426 KLH  428 (569)
T ss_pred             HHH
Confidence            443

>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins

Probab=87.41  E-value=5.8  Score=38.77  Aligned_cols=93  Identities=26%  Similarity=0.355  Sum_probs=53.5

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHhhhHHHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE---------ERDRREREE  790 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~e---------er~rr~~e~  790 (826)
                      ...+..|..+|.+|-++...++..|..-+..+..+-..+..++++..++.++|..+..-|+-         .=..-|.|-
T Consensus        33 ~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l~~~~s~~~l~~~L~~~~~e~eeeS  112 (150)
T PF07200_consen   33 QQEREELLAENEELAEQNLSLEPELEELRSQLQELYEELKELESEYQEKEQQQDELSSNYSPDALLARLQAAASEAEEES  112 (150)
T ss_dssp             HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHHH
Confidence            44567788888888888888888877666666666666666666666666666666555553         334444444


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Q 003366          791 ENLRKKIKDASDTIQDLLDKIK  812 (826)
Q Consensus       791 ~~lr~kl~~a~~~i~~~~~~~~  812 (826)
                      +.|..+.-+....+++.+.+-.
T Consensus       113 e~lae~fl~g~~d~~~Fl~~f~  134 (150)
T PF07200_consen  113 EELAEEFLDGEIDVDDFLKQFK  134 (150)
T ss_dssp             HHHC-S-SSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCHHHHHHHHH
Confidence            4454444444444455555444

The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.

>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD

Probab=87.23  E-value=5.7  Score=47.75  Aligned_cols=84  Identities=23%  Similarity=0.346  Sum_probs=58.3

Q ss_pred             HHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003366          733 LKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIK  812 (826)
Q Consensus       733 ~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~  812 (826)
                      +.+++...+..+..-..+...++.++..++.+++++.++.+.|-+.|..+-..+.+|.+.|+.+++.+-....+...+++
T Consensus       207 ~~~~~~~le~el~~l~~~~e~l~~~i~~l~~ele~a~~~l~~l~~~~~~~GG~~~~~r~~Le~ei~~le~e~~e~~~~l~  286 (650)
T TIGR03185       207 ILSEIEALEAELKEQSEKYEDLAQEIAHLRNELEEAQRSLESLEKKFRSEGGDLFEEREQLERQLKEIEAARKANRAQLR  286 (650)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444445566677777777777777788888888888777777777778888888887777777777776


Q ss_pred             hhhh
Q 003366          813 LLEK  816 (826)
Q Consensus       813 ~~~~  816 (826)
                      .+-.
T Consensus       287 ~l~~  290 (650)
T TIGR03185       287 ELAA  290 (650)
T ss_pred             HHhc
Confidence            5543

This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.

>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type

Probab=87.18  E-value=6.1  Score=49.28  Aligned_cols=20  Identities=15%  Similarity=0.273  Sum_probs=12.2

Q ss_pred             eEEEEEECCCCCCHHHHhhhcc
Q 003366          188 RMLLIEDNGGGMNPDKMRHCMS  209 (826)
Q Consensus       188 ~~L~I~DNG~GMs~eeL~~~Ls  209 (826)
                      ..+.+--||.|=|-  |.+++.
T Consensus        25 ~~~i~G~NGsGKS~--ildAi~   44 (1164)
T TIGR02169        25 FTVISGPNGSGKSN--IGDAIL   44 (1164)
T ss_pred             eEEEECCCCCCHHH--HHHHHH
Confidence            45777888888543  444443

SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=86.37  E-value=2.1  Score=45.50  Aligned_cols=46  Identities=30%  Similarity=0.503  Sum_probs=22.0

Q ss_pred             hhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHH
Q 003366          726 LKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKE  771 (826)
Q Consensus       726 ~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~ke  771 (826)
                      |..||.++++.+.+++++++..-.+.+.++++...+++|.|++++|
T Consensus       149 ~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~E  194 (216)
T KOG1962|consen  149 LEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDE  194 (216)
T ss_pred             hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccH
Confidence            3344444445555554444444444444444444444444444444

>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope

Probab=86.12  E-value=8.4  Score=41.58  Aligned_cols=80  Identities=31%  Similarity=0.466  Sum_probs=52.0

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      +..++.|+.+++..+..++.++..=..++.+|+.++.+++.++....+.       |...-...+.|-..||..+..-..
T Consensus       211 ~~~~~~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~~~~~~-------~~~~i~~le~el~~l~~~~~~~~~  283 (312)
T PF00038_consen  211 LESAKEELKELRRQIQSLQAELESLRAKNASLERQLRELEQRLDEEREE-------YQAEIAELEEELAELREEMARQLR  283 (312)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhHhHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHHHHHHH-------HHHhhhccchhHHHHHHHHHHHHH
Confidence            5566677777777776666666665566666666666666655544333       333445566677777777777777


Q ss_pred             HHHHHHH
Q 003366          803 TIQDLLD  809 (826)
Q Consensus       803 ~i~~~~~  809 (826)
                      .-|+||+
T Consensus       284 ey~~Ll~  290 (312)
T PF00038_consen  284 EYQELLD  290 (312)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7788776

They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=86.08  E-value=9.3  Score=44.53  Aligned_cols=66  Identities=23%  Similarity=0.337  Sum_probs=27.7

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 003366          749 ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLL  814 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~  814 (826)
                      .|+..|.+.+...++++++...+...||.=..--+..-...+|.+.+-+..--..|+||-|||+-+
T Consensus       382 ~k~~q~q~k~~k~~kel~~~~E~n~~l~knq~vw~~kl~~~~e~~~~~~~s~d~~I~dLqEQlrDl  447 (493)
T KOG0804|consen  382 RKLQQLQTKLKKCQKELKEEREENKKLIKNQDVWRGKLKELEEREKEALGSKDEKITDLQEQLRDL  447 (493)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence            344444444444444444443333333333322222222233333332332333466777776644

>PF15294 Leu_zip: Leucine zipper

Probab=86.04  E-value=7.4  Score=42.86  Aligned_cols=45  Identities=36%  Similarity=0.500  Sum_probs=34.8

Q ss_pred             cchhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHH
Q 003366          719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQ  763 (826)
Q Consensus       719 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~  763 (826)
                      |..-|..|+.||..||+||+..|...-.=++-...|+.+|.++|.
T Consensus       130 l~kEi~rLq~EN~kLk~rl~~le~~at~~l~Ek~kl~~~L~~lq~  174 (278)
T PF15294_consen  130 LNKEIDRLQEENEKLKERLKSLEKQATSALDEKSKLEAQLKELQD  174 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            445699999999999999999998865555555666666666665

>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]

Probab=85.82  E-value=1.2  Score=53.37  Aligned_cols=56  Identities=21%  Similarity=0.322  Sum_probs=41.7

Q ss_pred             HHHHHHHhccchhhhhCC-CceE---EEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc
Q 003366          154 LGAFAELLDNSLDEVCNG-ATYS---NIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS  209 (826)
Q Consensus       154 FgAIAELIDNAiDA~~~g-At~V---~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls  209 (826)
                      =.|+-.||.||.+|+... +...   .|.+..+..+|..++.|.|||.|.+.+.+++++-
T Consensus       602 ~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~g~i~v~V~DNGkG~p~e~r~r~~E  661 (712)
T COG5000         602 GQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDADGRIVVDVIDNGKGFPRENRHRALE  661 (712)
T ss_pred             HHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCCCeEEEEEecCCCCCChHHhhhhcc
Confidence            357889999999997531 1111   2444444457889999999999999999999874

>PRK11637 AmiB activator; Provisional

Probab=85.79  E-value=9  Score=43.72  Aligned_cols=19  Identities=16%  Similarity=0.321  Sum_probs=8.8

Q ss_pred             hhhhhhhhhHHHHHHHHhH
Q 003366          723 LGQLKQENHELKKRLEKKE  741 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~  741 (826)
                      |++++++..+++..|...+
T Consensus        49 l~~l~~qi~~~~~~i~~~~   67 (428)
T PRK11637         49 LKSIQQDIAAKEKSVRQQQ   67 (428)
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            4444444444444444333

>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]

Probab=85.38  E-value=4.6  Score=51.58  Aligned_cols=69  Identities=28%  Similarity=0.448  Sum_probs=42.9

Q ss_pred             HHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhh-h---------HHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          744 LQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIF---AEERDR-R---------EREEENLRKKIKDASDTIQDLLDK  810 (826)
Q Consensus       744 ~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f---~eer~r-r---------~~e~~~lr~kl~~a~~~i~~~~~~  810 (826)
                      +..|.++.+.|+.++.+.+..|+.+.+....+-|..   ..+|.. .         -.++..||+..++-+..||++++.
T Consensus       503 ~~~~~~~~~~l~~~~~~~~eele~~q~~~~~~~~~~~kv~~~rk~le~~~~d~~~e~~~~~kl~~~~~e~~~~iq~~~e~  582 (1317)
T KOG0612|consen  503 LSEEEAKKRKLEALVRQLEEELEDAQKKNDNAADSLEKVNSLRKQLEEAELDMRAESEDAGKLRKHSKELSKQIQQELEE  582 (1317)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhhhhhhhhHHHHhhHhhhhhhhhHHHHHHhhc
Confidence            445557777777777777777777755555443221   112211 1         123567888889999999998884


Q ss_pred             Hh
Q 003366          811 IK  812 (826)
Q Consensus       811 ~~  812 (826)
                      .+
T Consensus       583 ~~  584 (1317)
T KOG0612|consen  583 NR  584 (1317)
T ss_pred             cc
Confidence            43

>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast)

Probab=85.30  E-value=11  Score=38.98  Aligned_cols=62  Identities=29%  Similarity=0.434  Sum_probs=45.0

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHH------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEER------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE  781 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~e  781 (826)
                      ...+..|+++..++++++..+++.+..+.      +.+..|.+++++++++++++.+|-+++.+.=.+
T Consensus        68 ~~~~~~l~~~~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~  135 (188)
T PF03962_consen   68 QNKLEKLQKEIEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSENDPE  135 (188)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHH
Confidence            34577788888888888888777775554      566677788888888888888887765544333

The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].

>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function

Probab=84.84  E-value=5.4  Score=44.92  Aligned_cols=60  Identities=30%  Similarity=0.370  Sum_probs=31.3

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---------------------hhHHHHHHHHHHHHHHHHHHHHH
Q 003366          749 ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD---------------------RREREEENLRKKIKDASDTIQDL  807 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~---------------------rr~~e~~~lr~kl~~a~~~i~~~  807 (826)
                      +.+..|+-||++++|+..|+..|-..|-.-++|++.                     .|..---+|+.|..|-...|..|
T Consensus       141 EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~EirnL  220 (401)
T PF06785_consen  141 EENQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEIRNL  220 (401)
T ss_pred             HHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            555555555555555554444444444333444332                     23333445666766666666666


Q ss_pred             H
Q 003366          808 L  808 (826)
Q Consensus       808 ~  808 (826)
                      |
T Consensus       221 L  221 (401)
T PF06785_consen  221 L  221 (401)
T ss_pred             H
Confidence            5

>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]

Probab=84.76  E-value=1.4  Score=46.25  Aligned_cols=59  Identities=22%  Similarity=0.277  Sum_probs=39.0

Q ss_pred             hhcccccccccHHHHHHHHhccchhhhhCC--CceEEEEEEEccCCCceEEEEEECCCCCCHH
Q 003366          142 FLHSNATSHKWALGAFAELLDNSLDEVCNG--ATYSNIDMLINRKDGSRMLLIEDNGGGMNPD  202 (826)
Q Consensus       142 fLhSNSTSH~wpFgAIAELIDNAiDA~~~g--At~V~Idi~~~~~~g~~~L~I~DNG~GMs~e  202 (826)
                      +|..+....--.  +|-||+-||+.+-.-+  ...|.|.+.....++...+.|.|||.|+..+
T Consensus       114 ~l~~d~A~~Lgl--iv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~deg~G~~~~  174 (221)
T COG3920         114 FLDPDTAVPLGL--IVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWDEGGGPPVE  174 (221)
T ss_pred             EECchhhHHHHH--HHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCCeEEEEEEECCCCCCCC
Confidence            555554443332  5899999999983322  3457777765432114789999999999865

>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]

Probab=84.57  E-value=13  Score=43.89  Aligned_cols=99  Identities=24%  Similarity=0.366  Sum_probs=79.4

Q ss_pred             hhhhhhhhh---hHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHH---HHHHHHH
Q 003366          722 NLGQLKQEN---HELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRRER---EEENLRK  795 (826)
Q Consensus       722 ~~~~~~~e~---~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~---e~~~lr~  795 (826)
                      ++|+|++-|   .++.|-|.++..++.+-.+.+-+|..||-++|+|+..+--|-|.|..++.+-.|+.++   |++.|..
T Consensus       203 ~~KelrdtN~q~~s~~eel~~kt~el~~q~Ee~skLlsql~d~qkk~k~~~~Ekeel~~~Lq~~~da~~ql~aE~~EleD  282 (596)
T KOG4360|consen  203 CVKELRDTNTQARSGQEELQSKTKELSRQQEENSKLLSQLVDLQKKIKYLRHEKEELDEHLQAYKDAQRQLTAELEELED  282 (596)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            488888877   5677888999999988899999999999999999999999999999999888887765   6677777


Q ss_pred             HHHHHHHHHHHHHHHHhhhhhcCCC
Q 003366          796 KIKDASDTIQDLLDKIKLLEKMKTP  820 (826)
Q Consensus       796 kl~~a~~~i~~~~~~~~~~~~~~~~  820 (826)
                      |.-|-....-+--|.|+.|+---.|
T Consensus       283 kyAE~m~~~~EaeeELk~lrs~~~p  307 (596)
T KOG4360|consen  283 KYAECMQMLHEAEEELKCLRSCDAP  307 (596)
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCc
Confidence            7776666666666666666543333

>PRK04863 mukB cell division protein MukB; Provisional

Probab=84.35  E-value=2.9  Score=54.88  Aligned_cols=101  Identities=23%  Similarity=0.345  Sum_probs=68.3

Q ss_pred             cccchhhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHH-------------------HHHHH
Q 003366          717 CSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQ-------------------ESLID  777 (826)
Q Consensus       717 ~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq-------------------~~li~  777 (826)
                      +.|+.-|++++++...+++.+++.+..+.+-..+-++|...+++++++++++..+-                   +-|-.
T Consensus       988 ~~Le~~Le~iE~~~~~areql~qaq~q~~q~~q~l~slksslq~~~e~L~E~eqe~~~~g~~~~~~~~~~~~~~~~~l~~ 1067 (1486)
T PRK04863        988 EKLRQRLEQAEQERTRAREQLRQAQAQLAQYNQVLASLKSSYDAKRQMLQELKQELQDLGVPADSGAEERARARRDELHA 1067 (1486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCccHHHHHHHhHHHHHH
Confidence            34566678888888888888887777765555555666666666666665554443                   33334


Q ss_pred             HHHHHHhhh----------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhc
Q 003366          778 IFAEERDRR----------EREEENLRKKIKDASDTIQDLLDKIKLLEKM  817 (826)
Q Consensus       778 ~f~eer~rr----------~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~~  817 (826)
                      -++.-|.||          ..|-++|.+||+.+.+.+.++.+.|+.+...
T Consensus      1068 ~l~~~~~~~~~~~~~~~~re~EIe~L~kkL~~~~~e~~~~re~I~~aK~~ 1117 (1486)
T PRK04863       1068 RLSANRSRRNQLEKQLTFCEAEMDNLTKKLRKLERDYHEMREQVVNAKAG 1117 (1486)
T ss_pred             HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444444444          4577899999999999999999888876543

>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]

Probab=84.25  E-value=17  Score=36.48  Aligned_cols=90  Identities=24%  Similarity=0.330  Sum_probs=51.5

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      ++.-+.+..+|+.++..+|.+|+-=-...-.++.+.+++++.++++.-+    |...+.+|.+-..|-.+||.--+.--.
T Consensus        12 LK~~~~e~dsle~~v~~LEreLe~~q~~~e~~~~daEn~k~eie~L~~e----l~~lt~el~~L~~EL~~l~sEk~~L~k   87 (140)
T PF10473_consen   12 LKESESEKDSLEDHVESLERELEMSQENKECLILDAENSKAEIETLEEE----LEELTSELNQLELELDTLRSEKENLDK   87 (140)
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            5556678888888888888887433333344455555555555554433    334455555555555555555555555


Q ss_pred             HHHHHHHHHhhhhh
Q 003366          803 TIQDLLDKIKLLEK  816 (826)
Q Consensus       803 ~i~~~~~~~~~~~~  816 (826)
                      ..|..-++|..|+.
T Consensus        88 ~lq~~q~kv~eLE~  101 (140)
T PF10473_consen   88 ELQKKQEKVSELES  101 (140)
T ss_pred             HHHHHHHHHHHHHH
Confidence            55555555555543

There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding

>PRK05431 seryl-tRNA synthetase; Provisional

Probab=84.24  E-value=7.6  Score=44.72  Aligned_cols=97  Identities=18%  Similarity=0.355  Sum_probs=51.5

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHhhhHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE------ERDRREREEENLRKK  796 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~e------er~rr~~e~~~lr~k  796 (826)
                      ++-+++.-...++.|.++.  +....|+.-.|..+..+++.+++++++|+-.+-..+..      +++.--.|-..|+++
T Consensus         4 ~k~ir~n~~~v~~~l~~R~--~~~~vd~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~   81 (425)
T PRK05431          4 IKLIRENPEAVKEALAKRG--FPLDVDELLELDEERRELQTELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEE   81 (425)
T ss_pred             HHHHHhCHHHHHHHHHhcC--CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHH
Confidence            5556655555677777662  12224555555555555555555555555555444443      222233344556666


Q ss_pred             HHHHHHHHHHHHHHHhhhhhcCCCCc
Q 003366          797 IKDASDTIQDLLDKIKLLEKMKTPSI  822 (826)
Q Consensus       797 l~~a~~~i~~~~~~~~~~~~~~~~~~  822 (826)
                      |++.-..+.++-+++..+- ++.||.
T Consensus        82 ~~~~~~~~~~~~~~~~~~~-~~iPN~  106 (425)
T PRK05431         82 IKALEAELDELEAELEELL-LRIPNL  106 (425)
T ss_pred             HHHHHHHHHHHHHHHHHHH-HhCCCC
Confidence            6666666666666666533 555654

>PLN02320 seryl-tRNA synthetase

Probab=84.01  E-value=7.3  Score=46.07  Aligned_cols=97  Identities=15%  Similarity=0.307  Sum_probs=59.2

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHhhhHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE-----ERDRREREEENLRKKI  797 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~e-----er~rr~~e~~~lr~kl  797 (826)
                      ++.+++.-..+++.|.++--++.  +|..-.|.++...++++++++..|+-.+..-+.+     ++..--.|...|+++|
T Consensus        69 ~k~ir~n~~~v~~~l~~R~~~~~--vd~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~~~~~~~~~~l~~~~k~lk~~i  146 (502)
T PLN02320         69 FKWIRDNKEAVAINIRNRNSNAN--LELVLELYENMLALQKEVERLRAERNAVANKMKGKLEPSERQALVEEGKNLKEGL  146 (502)
T ss_pred             HHHHHhCHHHHHHHHHhcCCCcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhCCCCHHHHHHHHHHHHHHH
Confidence            67777766777888887753322  5555566666666666666666666666665554     2222223556667777


Q ss_pred             HHHHHHHHHHHHHHhhhhhcCCCCc
Q 003366          798 KDASDTIQDLLDKIKLLEKMKTPSI  822 (826)
Q Consensus       798 ~~a~~~i~~~~~~~~~~~~~~~~~~  822 (826)
                      ++.-..++++-+++..+- +..||.
T Consensus       147 ~~le~~~~~~~~~l~~~~-l~iPN~  170 (502)
T PLN02320        147 VTLEEDLVKLTDELQLEA-QSIPNM  170 (502)
T ss_pred             HHHHHHHHHHHHHHHHHH-HhCCCC
Confidence            766666666666666533 555654

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=83.81  E-value=11  Score=46.70  Aligned_cols=14  Identities=29%  Similarity=0.513  Sum_probs=8.1

Q ss_pred             HHHHHHHhccchhh
Q 003366          154 LGAFAELLDNSLDE  167 (826)
Q Consensus       154 FgAIAELIDNAiDA  167 (826)
                      +..+.+.|++++|.
T Consensus       128 ~~~l~~~i~~~id~  141 (782)
T PRK00409        128 LPELEQEIHNCIDE  141 (782)
T ss_pred             cHHHHHHHHHHhCC
Confidence            34466666666664

>smart00502 BBC B-Box C-terminal domain

Probab=83.65  E-value=35  Score=31.12  Aligned_cols=81  Identities=14%  Similarity=0.253  Sum_probs=40.7

Q ss_pred             hHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          731 HELKKRLEKKEGELQEERERCRSLEAQLKVMQQT--------IEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       731 ~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~--------~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      ..|+.++..++..+..=-+.++.|+.+.+.++++        ++.++++...|++-+.+++.++-..-......|.....
T Consensus        10 ~~l~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~I~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~   89 (127)
T smart00502       10 TKLRKKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQE   89 (127)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444333333444444444443333        34456666777777777776666555555555554444


Q ss_pred             HHHHHHHHH
Q 003366          803 TIQDLLDKI  811 (826)
Q Consensus       803 ~i~~~~~~~  811 (826)
                      .+..+.+-+
T Consensus        90 ~l~~~~~~~   98 (127)
T smart00502       90 KLSHAINFT   98 (127)
T ss_pred             HHHHHHHHH
Confidence            444444443

Coiled coil region C-terminal to (some) B-Box domains

>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]

Probab=83.53  E-value=4  Score=46.98  Aligned_cols=80  Identities=30%  Similarity=0.422  Sum_probs=53.5

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHH-HhhhcHHH----------HH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEER-ERCRSLEA----------QL-KVMQQTIEELNKEQESLIDIFAEERDRRE  787 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~-~~~~~l~~----------~~-~~~~~~~~~~~keq~~li~~f~eer~rr~  787 (826)
                      -..++||++|-..|..-|..-+|=+...+ .|.+.||.          || .++-+--.++.+|||+|++-+=---|.-+
T Consensus       135 srkl~qLr~ek~~lEq~leqeqef~vnKlm~ki~Klen~t~~kq~~leQLRre~V~lentlEQEqEalvN~LwKrmdkLe  214 (552)
T KOG2129|consen  135 SRKLKQLRHEKLPLEQLLEQEQEFFVNKLMNKIRKLENKTLLKQNTLEQLRREAVQLENTLEQEQEALVNSLWKRMDKLE  214 (552)
T ss_pred             hHHHHHHHhhhccHHHHHHHHHHHHHHHHHHHHHHhhhhhHHhhhhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence            34599999888888655544333332222 33333332          22 22333345688999999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 003366          788 REEENLRKKIKD  799 (826)
Q Consensus       788 ~e~~~lr~kl~~  799 (826)
                      +|..-|.+||.+
T Consensus       215 ~ekr~Lq~KlDq  226 (552)
T KOG2129|consen  215 QEKRYLQKKLDQ  226 (552)
T ss_pred             HHHHHHHHHhcC
Confidence            999999999964

>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT)

Probab=83.42  E-value=14  Score=44.26  Aligned_cols=89  Identities=29%  Similarity=0.449  Sum_probs=48.3

Q ss_pred             hhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhHHHHHHHHHHHHHH
Q 003366          724 GQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL---IDIFAEERDRREREEENLRKKIKDA  800 (826)
Q Consensus       724 ~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~l---i~~f~eer~rr~~e~~~lr~kl~~a  800 (826)
                      ....+|+.+|.+-...++++...-..+...|+++|...+++.+.+..+++.|   .+...+|++--..+.+.++.++++-
T Consensus       146 E~~qkE~eeL~~~~~~Le~e~~~l~~~v~~l~~eL~~~~ee~e~L~~~~kel~~~~e~l~~E~~~L~~q~~e~~~ri~~L  225 (546)
T PF07888_consen  146 EECQKEKEELLKENEQLEEEVEQLREEVERLEAELEQEEEEMEQLKQQQKELTESSEELKEERESLKEQLAEARQRIREL  225 (546)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3334555555554444444443333555556666665555555544444433   3445566666556666666666666


Q ss_pred             HHHHHHHHHHHh
Q 003366          801 SDTIQDLLDKIK  812 (826)
Q Consensus       801 ~~~i~~~~~~~~  812 (826)
                      -..|+.|..++.
T Consensus       226 Eedi~~l~qk~~  237 (546)
T PF07888_consen  226 EEDIKTLTQKEK  237 (546)
T ss_pred             HHHHHHHHHHHH
Confidence            666666655553

This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].

>TIGR01069 mutS2 MutS2 family protein

Probab=83.32  E-value=9.9  Score=47.05  Aligned_cols=13  Identities=8%  Similarity=0.171  Sum_probs=6.8

Q ss_pred             HHHHHHhccchhh
Q 003366          155 GAFAELLDNSLDE  167 (826)
Q Consensus       155 gAIAELIDNAiDA  167 (826)
                      ..+.+.|++++|.
T Consensus       124 ~~l~~~i~~~id~  136 (771)
T TIGR01069       124 PPLENDIIACIDD  136 (771)
T ss_pred             HHHHHHHHHHhCC
Confidence            3455555555553

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]

Probab=83.26  E-value=7.1  Score=41.59  Aligned_cols=70  Identities=31%  Similarity=0.396  Sum_probs=42.6

Q ss_pred             hhhhHHHHHHHH---hHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhhHHHHHHHHHHH
Q 003366          728 QENHELKKRLEK---KEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA---EERDRREREEENLRKKI  797 (826)
Q Consensus       728 ~e~~~~~~~~~~---~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~---eer~rr~~e~~~lr~kl  797 (826)
                      ++|..+++-+..   +|++.....++-+.|+++++.-+.+||.+++.-++|.--+.   -|=||--.|-++||+++
T Consensus       134 ~~~~~lk~~~~~~~~~~~~~~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i  209 (216)
T KOG1962|consen  134 KENEALKKQLENSSKLEEENDKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQI  209 (216)
T ss_pred             HHHHHHHHhhhcccchhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            367777666654   34445555567777888888888888888777766654433   24444444444444443

>PHA02562 46 endonuclease subunit; Provisional

Probab=82.85  E-value=13  Score=43.07  Aligned_cols=30  Identities=20%  Similarity=0.304  Sum_probs=18.5

Q ss_pred             eEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc
Q 003366          174 YSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS  209 (826)
Q Consensus       174 ~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls  209 (826)
                      .+.|++..    ....+.+-+||.|  ...|.+++.
T Consensus        19 ~~~i~f~~----~g~~~i~G~NG~G--KStll~aI~   48 (562)
T PHA02562         19 PIEIQLDK----VKKTLITGKNGAG--KSTMLEALT   48 (562)
T ss_pred             ceEEEEcC----CCEEEEECCCCCC--HHHHHHHHH
Confidence            34566521    2467888899999  455555544

>PRK10780 periplasmic chaperone; Provisional

Probab=82.80  E-value=13  Score=37.17  Aligned_cols=81  Identities=19%  Similarity=0.309  Sum_probs=39.1

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhh---h-cH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-HHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERC---R-SL-EAQLKVMQQTIEELNKEQESLIDIFAEERDRREREE-ENLRKK  796 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~---~-~l-~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~-~~lr~k  796 (826)
                      -++|+.+.......|++++.+++.+.++-   . .| +.+.++.+++|....++.......|.++-.+|.+|+ ..+..|
T Consensus        45 ~~~le~~~~~~q~el~~~~~elq~~~~~~q~~~~~ms~~~~~~~~~el~~~~~~~q~~~~~~qq~~~~~~~e~~~~i~~k  124 (165)
T PRK10780         45 SKQLENEFKGRASELQRMETDLQAKMQKLQRDGSTMKGSDRTKLEKDVMAQRQTFSQKAQAFEQDRRRRSNEERNKILTR  124 (165)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44566666666666666666665444221   1 11 122333344444444444444555655544444443 555555


Q ss_pred             HHHHHHH
Q 003366          797 IKDASDT  803 (826)
Q Consensus       797 l~~a~~~  803 (826)
                      +.+|...
T Consensus       125 i~~ai~~  131 (165)
T PRK10780        125 IQTAVKS  131 (165)
T ss_pred             HHHHHHH
Confidence            5555443

>TIGR02449 conserved hypothetical protein TIGR02449

Probab=82.76  E-value=11  Score=33.41  Aligned_cols=61  Identities=23%  Similarity=0.342  Sum_probs=45.2

Q ss_pred             hcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 003366          752 RSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK  816 (826)
Q Consensus       752 ~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~  816 (826)
                      +.|+.+++.+.+-.+++..|...|-.-...    -..|-..|..|...|.+-|..++.+|+++|.
T Consensus         3 ~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~----~~~ER~~L~ekne~Ar~rvEamI~RLk~leq   63 (65)
T TIGR02449         3 QALAAQVEHLLEYLERLKSENRLLRAQEKT----WREERAQLLEKNEQARQKVEAMITRLKALEQ   63 (65)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHhhhhhcc
Confidence            467777877777777777777766433222    2234456999999999999999999999885

Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.

>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins

Probab=82.74  E-value=11  Score=48.82  Aligned_cols=60  Identities=15%  Similarity=0.366  Sum_probs=47.2

Q ss_pred             cchhhhhhhhhhhHHHHHHHHhHHhHHHHH-------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          719 LGANLGQLKQENHELKKRLEKKEGELQEER-------ERCRSLEAQLKVMQQTIEELNKEQESLIDI  778 (826)
Q Consensus       719 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~e~-------~~~~~l~~~~~~~~~~~~~~~keq~~li~~  778 (826)
                      |+.+-.++.+.+.+.++++..++..+..||       +....|..+++.++++|+...+.+.-+++-
T Consensus       734 i~~i~~~i~~~~~~~~~~~~~le~~~~~eL~~~GvD~~~I~~l~~~i~~L~~~l~~ie~~r~~V~eY  800 (1201)
T PF12128_consen  734 IEQIKQEIAAAKQEAKEQLKELEQQYNQELAGKGVDPERIQQLKQEIEQLEKELKRIEERRAEVIEY  800 (1201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence            455566677778888888888888888888       577888888888888888888777666654

>PRK13559 hypothetical protein; Provisional

Probab=82.66  E-value=1.7  Score=46.72  Aligned_cols=75  Identities=13%  Similarity=0.029  Sum_probs=47.4

Q ss_pred             HHHHHHHHhccchhhhh--CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          153 ALGAFAELLDNSLDEVC--NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~--~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      ..-++-|||.||+.+-.  .....|.|.+.....++...|.+.|||.||.++.-                   .-|+|+.
T Consensus       268 l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~~~~~i~v~d~G~~~~~~~~-------------------~~g~Gl~  328 (361)
T PRK13559        268 LGLVLHELAVNAIKHGALSADQGRISISWKPSPEGAGFRIDWQEQGGPTPPKLA-------------------KRGFGTV  328 (361)
T ss_pred             HHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCCCeEEEEEECCCCCCCCCCC-------------------CCCcHHH
Confidence            34588999999999721  12345777663233355678999999999876521                   1255654


Q ss_pred             cc---ccc-cCCeEEEEeee
Q 003366          231 TS---TMR-LGADVIVFSCC  246 (826)
Q Consensus       231 sA---smr-LG~~v~V~SK~  246 (826)
                      ..   .-+ +|-.+.+.+..
T Consensus       329 i~~~~v~~~~gG~i~~~~~~  348 (361)
T PRK13559        329 IIGAMVESQLNGQLEKTWSD  348 (361)
T ss_pred             HHHHHHHHHcCCeEEEEEcC
Confidence            22   223 78888887753

>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells

Probab=82.52  E-value=18  Score=40.16  Aligned_cols=62  Identities=18%  Similarity=0.313  Sum_probs=33.6

Q ss_pred             hhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 003366          751 CRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK  816 (826)
Q Consensus       751 ~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~  816 (826)
                      +..|+.++++++.++++++++.+.    |-.+++-...|--.+.+.+....+.++-+.++|..|++
T Consensus        73 ~~~l~~el~~le~e~~~l~~eE~~----~~~~~n~~~~~l~~~~~e~~sl~~q~~~~~~~L~~L~k  134 (314)
T PF04111_consen   73 REELDQELEELEEELEELDEEEEE----YWREYNELQLELIEFQEERDSLKNQYEYASNQLDRLRK  134 (314)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            445566666666666666554443    33344444455555555555555555555555555554

In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.

>PRK10884 SH3 domain-containing protein; Provisional

Probab=82.35  E-value=9.6  Score=40.14  Aligned_cols=45  Identities=13%  Similarity=0.184  Sum_probs=23.5

Q ss_pred             hhhhhHHHHHHHHhHHhHHH---HH-HhhhcHHHHHHHHHHHHHHHHHH
Q 003366          727 KQENHELKKRLEKKEGELQE---ER-ERCRSLEAQLKVMQQTIEELNKE  771 (826)
Q Consensus       727 ~~e~~~~~~~~~~~~~~~~~---e~-~~~~~l~~~~~~~~~~~~~~~ke  771 (826)
                      -....++++||.++|.++..   ++ +-...+..+..++++++++++++
T Consensus        85 Ls~~p~~~~rlp~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~~  133 (206)
T PRK10884         85 LSTTPSLRTRVPDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDSV  133 (206)
T ss_pred             hcCCccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            35567888888877766532   22 11222334444455555554433

>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional

Probab=82.31  E-value=1.8  Score=49.33  Aligned_cols=47  Identities=23%  Similarity=0.307  Sum_probs=34.4

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHH
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPD  202 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~e  202 (826)
                      ....+.+|+.||+.+.  .+..|.|.+.... ++...|.|.|||.||+++
T Consensus       472 l~qv~~nll~NA~k~~--~~~~i~i~~~~~~-~~~~~i~V~D~G~Gi~~~  518 (565)
T PRK10935        472 LLQIIREATLNAIKHA--NASEIAVSCVTNP-DGEHTVSIRDDGIGIGEL  518 (565)
T ss_pred             HHHHHHHHHHHHHhcC--CCCeEEEEEEEcC-CCEEEEEEEECCcCcCCC
Confidence            4467899999999973  3455677664431 355679999999999974

>PF15236 CCDC66: Coiled-coil domain-containing protein 66

Probab=82.20  E-value=41  Score=34.43  Aligned_cols=42  Identities=29%  Similarity=0.471  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 003366          764 TIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQ  805 (826)
Q Consensus       764 ~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~  805 (826)
                      ..+-+-.|++.|-.-|-+|+.+.-+=|+....|....-.+||
T Consensus        88 EE~Rl~rere~~q~~~E~E~~~~~~KEe~~~~k~~~l~e~~q  129 (157)
T PF15236_consen   88 EEERLAREREELQRQFEEEQRKQREKEEEQTRKTQELYEAMQ  129 (157)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334467778888888888887766666666666665555554

>PF00769 ERM: Ezrin/radixin/moesin family; InterPro: IPR011259 The ERM family consists of three closely-related proteins, ezrin, radixin and moesin []

Probab=82.19  E-value=16  Score=39.29  Aligned_cols=39  Identities=26%  Similarity=0.505  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          773 ESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKI  811 (826)
Q Consensus       773 ~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~  811 (826)
                      +..|.-+.+++.+++.|-+.|+.+|..|-.....-.++|
T Consensus        88 ~~~i~~l~ee~~~ke~Ea~~lq~el~~ar~~~~~ak~~L  126 (246)
T PF00769_consen   88 EAEIARLEEESERKEEEAEELQEELEEAREDEEEAKEEL  126 (246)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            456777889999999999999999998877665544444

Ezrin was first identified as a constituent of microvilli [], radixin as a barbed, end-capping actin-modulating protein from isolated junctional fractions [], and moesin as a heparin binding protein []. A tumour suppressor molecule responsible for neurofibromatosis type 2 (NF2) is highly similar to ERM proteins and has been designated merlin (moesin-ezrin-radixin-like protein). ERM molecules contain 3 domains, an N-terminal globular domain; an extended alpha-helical domain; and a charged C-terminal domain []. Ezrin, radixin and merlin also contain a polyproline region between the helical and C-terminal domains. The N-terminal domain is highly conserved, and is also found in merlin, band 4.1 proteins and members of the band 4.1 superfamily. ERM proteins crosslink actin filaments with plasma membranes. They co-localise with CD44 at actin filament-plasma membrane interaction sites, associating with CD44 via their N-terminal domains and with actin filaments via their C-terminal domains [].; GO: 0008092 cytoskeletal protein binding, 0005737 cytoplasm, 0019898 extrinsic to membrane; PDB: 2I1J_A 2I1K_A 1E5W_A 1EF1_C.

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=82.05  E-value=16  Score=38.18  Aligned_cols=80  Identities=30%  Similarity=0.496  Sum_probs=46.6

Q ss_pred             hhhhhhhhhHHHHHHHHhHHh---HHHHH-------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGE---LQEER-------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEEN  792 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~---~~~e~-------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~  792 (826)
                      +..+.+||..|.|=|.+.+++   |++++       ...+.+..++..++++|..+..|.+.|-.-|..=    .+|-..
T Consensus        50 m~ei~~eN~~L~epL~~a~~e~~eL~k~L~~y~kdK~~L~~~k~rl~~~ek~l~~Lk~e~evL~qr~~kl----e~Erde  125 (201)
T PF13851_consen   50 MAEISQENKRLSEPLKKAEEEVEELRKQLKNYEKDKQSLQNLKARLKELEKELKDLKWEHEVLEQRFEKL----EQERDE  125 (201)
T ss_pred             HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHH
Confidence            444555555555555555544   33333       2233566777778888888888888887777643    233344


Q ss_pred             HHHHHHHHHHHHHH
Q 003366          793 LRKKIKDASDTIQD  806 (826)
Q Consensus       793 lr~kl~~a~~~i~~  806 (826)
                      |..|...+...+|.
T Consensus       126 L~~kf~~~i~evqQ  139 (201)
T PF13851_consen  126 LYRKFESAIQEVQQ  139 (201)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66666655555543

>PRK04778 septation ring formation regulator EzrA; Provisional

Probab=81.86  E-value=17  Score=43.36  Aligned_cols=97  Identities=24%  Similarity=0.403  Sum_probs=71.5

Q ss_pred             cchhhhhhhhhhhHHHHHHHHhHHhH---HHHHHhhhcHHHHHHHHHHHHHHHH--------------HHHH---HHHHH
Q 003366          719 LGANLGQLKQENHELKKRLEKKEGEL---QEERERCRSLEAQLKVMQQTIEELN--------------KEQE---SLIDI  778 (826)
Q Consensus       719 ~~~~~~~~~~e~~~~~~~~~~~~~~~---~~e~~~~~~l~~~~~~~~~~~~~~~--------------keq~---~li~~  778 (826)
                      |...|.+++++|..|+.-|..+..+.   ..|.+..+.++.+|++++++++++.              ++.+   .=++.
T Consensus       315 l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~~~~~~~~i~~~~~~ysel~e~leel~e~lee  394 (569)
T PRK04778        315 LPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQYDEITERIAEQEIAYSELQEELEEILKQLEE  394 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHH
Confidence            34458899999999999999998883   5667777777777777766665322              2222   23456


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 003366          779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLE  815 (826)
Q Consensus       779 f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~  815 (826)
                      |.+++..-....+.||+.-.+|-+.|+.+-.+|+...
T Consensus       395 ie~eq~ei~e~l~~Lrk~E~eAr~kL~~~~~~L~~ik  431 (569)
T PRK04778        395 IEKEQEKLSEMLQGLRKDELEAREKLERYRNKLHEIK  431 (569)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6777777778888899999999999988888887554

>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]

Probab=81.75  E-value=16  Score=40.03  Aligned_cols=63  Identities=21%  Similarity=0.262  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 003366          754 LEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK  816 (826)
Q Consensus       754 l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~  816 (826)
                      |++|+.+++-.-..|.-||+.+.+-|---|...-+-++.|+.-|-..-..-..|-+.|+.||.
T Consensus        57 ~etrnrdl~t~nqrl~~E~e~~Kek~e~q~~q~y~q~s~Leddlsqt~aikeql~kyiReLEQ  119 (333)
T KOG1853|consen   57 LETRNRDLETRNQRLTTEQERNKEKQEDQRVQFYQQESQLEDDLSQTHAIKEQLRKYIRELEQ  119 (333)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            344444444444556679999999999999998888888887665433333344445555553

>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association []

Probab=81.44  E-value=15  Score=40.75  Aligned_cols=41  Identities=32%  Similarity=0.384  Sum_probs=24.4

Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 003366          776 IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK  816 (826)
Q Consensus       776 i~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~  816 (826)
                      |..+..+-.....|-+.|..++++....+++++++|+.+++
T Consensus       225 i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~  265 (325)
T PF08317_consen  225 IEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEK  265 (325)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444455555566666666666666666666666654

>PF14662 CCDC155: Coiled-coil region of CCDC155

Probab=81.44  E-value=22  Score=37.45  Aligned_cols=62  Identities=27%  Similarity=0.410  Sum_probs=44.3

Q ss_pred             hhhcHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          750 RCRSLEAQLKVMQQTIEELNKEQESL---IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKI  811 (826)
Q Consensus       750 ~~~~l~~~~~~~~~~~~~~~keq~~l---i~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~  811 (826)
                      -+++||++-.-+..+-..+++||-+|   |..|.||-..--.|-+.|.++.++-......|--||
T Consensus        75 ~~~~lEE~~~~L~aq~rqlEkE~q~L~~~i~~Lqeen~kl~~e~~~lk~~~~eL~~~~~~Lq~Ql  139 (193)
T PF14662_consen   75 LAKSLEEENRSLLAQARQLEKEQQSLVAEIETLQEENGKLLAERDGLKKRSKELATEKATLQRQL  139 (193)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhHHHHHHHHHHhhHHHHHHH
Confidence            34455555555556667788888887   578888888888888888888887766666666555

>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family

Probab=81.42  E-value=11  Score=44.11  Aligned_cols=80  Identities=24%  Similarity=0.316  Sum_probs=50.5

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      |.-|--+..+++.+|..++.+=..-++.|+.|..|.+++-++|..          .++-||.+-.+|.+.|...+.....
T Consensus        61 lrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i~~----------av~~~~~~~~~~~~ql~~~~~~~~~  130 (472)
T TIGR03752        61 LRTLVAEVKELRKRLAKLISENEALKAENERLQKREQSIDQQIQQ----------AVQSETQELTKEIEQLKSERQQLQG  130 (472)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH----------HHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            333444446677777777665444344444555555555554443          3455677777777888888888888


Q ss_pred             HHHHHHHHHh
Q 003366          803 TIQDLLDKIK  812 (826)
Q Consensus       803 ~i~~~~~~~~  812 (826)
                      .|++|..||.
T Consensus       131 ~l~~l~~~l~  140 (472)
T TIGR03752       131 LIDQLQRRLA  140 (472)
T ss_pred             HHHHHHHHHh
Confidence            8889888885

Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.

>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]

Probab=81.20  E-value=4.8  Score=50.04  Aligned_cols=97  Identities=24%  Similarity=0.335  Sum_probs=76.3

Q ss_pred             ccCCCCcccccccchhhhhhh-------hhhhHHHHHHHHhHHhHH----HHHHhhhcHHHHHHHHHHHHHHHHHHHHHH
Q 003366          707 VNYPEHFLSDCSLGANLGQLK-------QENHELKKRLEKKEGELQ----EERERCRSLEAQLKVMQQTIEELNKEQESL  775 (826)
Q Consensus       707 ~~~~~~~~~~~~~~~~~~~~~-------~e~~~~~~~~~~~~~~~~----~e~~~~~~l~~~~~~~~~~~~~~~keq~~l  775 (826)
                      ++|=.-++.+.  ++.||+||       +|.++++=|+...|..|.    .+=++.+.+++.+++.++.|-.-.||-+-.
T Consensus       950 aegL~~tle~r--e~eikeLkk~aKmkqeelSe~qvRldmaEkkLss~~k~~~h~v~~~~ek~ee~~a~lr~Ke~efeet 1027 (1243)
T KOG0971|consen  950 AEGLGLTLEDR--ETEIKELKKSAKMKQEELSEAQVRLDLAEKKLSSAAKDADHRVEKVQEKLEETQALLRKKEKEFEET 1027 (1243)
T ss_pred             hhhhhhhHHhh--HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            35555566665  67787776       467777778877777764    344788889999999999998888999999


Q ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 003366          776 IDIFAEERDRREREEENLRKKIKDASDTIQ  805 (826)
Q Consensus       776 i~~f~eer~rr~~e~~~lr~kl~~a~~~i~  805 (826)
                      .|.+.-+-+.-+.|.+.|+.+|+--++-||
T Consensus      1028 mdaLq~di~~lEsek~elKqrl~~~~~k~q 1057 (1243)
T KOG0971|consen 1028 MDALQADIDQLESEKAELKQRLNSQSKKTQ 1057 (1243)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHhhhcccccC
Confidence            999999999999999999999976665544

>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells

Probab=81.06  E-value=31  Score=34.31  Aligned_cols=51  Identities=22%  Similarity=0.393  Sum_probs=29.7

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQE  773 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~  773 (826)
                      ..+|...+..|..|+..+|.++..=-.|+..|+.+|+.++.+|.+++...+
T Consensus        16 ~e~~e~~~K~le~~~~~~E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~le   66 (143)
T PF12718_consen   16 AEELEAKVKQLEQENEQKEQEITSLQKKNQQLEEELDKLEEQLKEAKEKLE   66 (143)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            345555666666666666666554445666666666666665555544433

In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].

>PF13851 GAS: Growth-arrest specific micro-tubule binding

Probab=80.95  E-value=32  Score=36.04  Aligned_cols=50  Identities=32%  Similarity=0.434  Sum_probs=35.3

Q ss_pred             hhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHH
Q 003366          722 NLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKE  771 (826)
Q Consensus       722 ~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~ke  771 (826)
                      .|+.||+|..++|.+....+..+..=...++.|.+-|+.|++..+++.++
T Consensus        28 lIksLKeei~emkk~e~~~~k~m~ei~~eN~~L~epL~~a~~e~~eL~k~   77 (201)
T PF13851_consen   28 LIKSLKEEIAEMKKKEERNEKLMAEISQENKRLSEPLKKAEEEVEELRKQ   77 (201)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            69999999999999988888776554455666655555555555555443

>PRK02224 chromosome segregation protein; Provisional

Probab=80.91  E-value=18  Score=44.72  Aligned_cols=32  Identities=6%  Similarity=0.237  Sum_probs=14.1

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          749 ERCRSLEAQLKVMQQTIEELNKEQESLIDIFA  780 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~  780 (826)
                      .....|.+++..++++++.+.++.+.|-+.+.
T Consensus       213 ~~l~el~~~i~~~~~~~~~l~~~l~~l~~~~~  244 (880)
T PRK02224        213 SELAELDEEIERYEEQREQARETRDEADEVLE  244 (880)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33344444444444444444444444444443

>TIGR00606 rad50 rad50

Probab=80.62  E-value=13  Score=48.49  Aligned_cols=60  Identities=15%  Similarity=0.171  Sum_probs=44.9

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 003366          749 ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLL  808 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~  808 (826)
                      +.+..|.++++++.++|+.+..+.+.+..-+.+-|.+++.+++.++.++.....++++|-
T Consensus       895 ~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  954 (1311)
T TIGR00606       895 TEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIH  954 (1311)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            334445555566777778888888888889999999999999999998877666655443

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6

Probab=80.61  E-value=15  Score=34.03  Aligned_cols=98  Identities=22%  Similarity=0.397  Sum_probs=54.6

Q ss_pred             hhhhhhhhhHHHHHHHHhH--HhHHHHH----HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKE--GELQEER----ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKK  796 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~--~~~~~e~----~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~k  796 (826)
                      |+.+++--...++.|.++-  ...-.++    ++.+.|..++++++.+-.++.|+=-.+...= +++..--.|-..|+++
T Consensus         4 ik~ir~n~e~v~~~l~~R~~~~~~vd~i~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~-~~~~~l~~e~~~lk~~   82 (108)
T PF02403_consen    4 IKLIRENPEEVRENLKKRGGDEEDVDEIIELDQERRELQQELEELRAERNELSKEIGKLKKAG-EDAEELKAEVKELKEE   82 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTT-CCTHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHcCCCHhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCc-ccHHHHHHHHHHHHHH
Confidence            5566665556677777663  1222222    5556666666666655555554422222211 4555556677777888


Q ss_pred             HHHHHHHHHHHHHHHhhhhhcCCCCc
Q 003366          797 IKDASDTIQDLLDKIKLLEKMKTPSI  822 (826)
Q Consensus       797 l~~a~~~i~~~~~~~~~~~~~~~~~~  822 (826)
                      +++.-..+.++-+++..+- +..||+
T Consensus        83 i~~le~~~~~~e~~l~~~l-~~iPNi  107 (108)
T PF02403_consen   83 IKELEEQLKELEEELNELL-LSIPNI  107 (108)
T ss_dssp             HHHHHHHHHHHHHHHHHHH-CTS---
T ss_pred             HHHHHHHHHHHHHHHHHHH-HcCCCC
Confidence            8777777777777777654 555653

1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....

>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []

Probab=80.51  E-value=16  Score=37.09  Aligned_cols=52  Identities=33%  Similarity=0.479  Sum_probs=39.5

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH-HHHHHHHHHH
Q 003366          749 ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLR-KKIKDASDTI  804 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr-~kl~~a~~~i  804 (826)
                      --|+.-|.++.+++.+.+|.|||-..|+..+-|    --.|-|.|| +||++-|.+|
T Consensus       105 ~~cqKKEkEykealea~nEknkeK~~Lv~~L~e----Lv~eSE~~rmKKLEELsk~i  157 (159)
T PF04949_consen  105 QSCQKKEKEYKEALEAFNEKNKEKAQLVTRLME----LVSESERLRMKKLEELSKEI  157 (159)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhc
Confidence            567777888888888999999998888877765    344555565 6788888776

This entry represents proteins annotated as RAB6-interacting golgins.

>PRK09039 hypothetical protein; Validated

Probab=80.46  E-value=13  Score=41.71  Aligned_cols=46  Identities=22%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             HHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          733 LKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDI  778 (826)
Q Consensus       733 ~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~  778 (826)
                      +..|+...+++|..++..-...--+++-+++||+.+.+...+|=..
T Consensus       114 ~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~Qla~le~~  159 (343)
T PRK09039        114 AEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRRQLAALEAA  159 (343)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3333433344444444333333445566667777766665544433

>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division []

Probab=80.38  E-value=8.6  Score=34.59  Aligned_cols=26  Identities=38%  Similarity=0.457  Sum_probs=23.6

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQ  745 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~  745 (826)
                      +..|..|+.||=.||=|+--+|+.|+
T Consensus         6 e~~i~~L~KENF~LKLrI~fLee~l~   31 (75)
T PF07989_consen    6 EEQIDKLKKENFNLKLRIYFLEERLQ   31 (75)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            56799999999999999999999887

>PRK09039 hypothetical protein; Validated

Probab=80.15  E-value=21  Score=40.16  Aligned_cols=59  Identities=15%  Similarity=0.257  Sum_probs=47.4

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE  781 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~e  781 (826)
                      |..+++|..+|..+|..+-+.|.-|+.++..|+.+|.+++.+++.+.++.+.|-..+++
T Consensus        48 i~~~~~eL~~L~~qIa~L~e~L~le~~~~~~l~~~l~~l~~~l~~a~~~r~~Le~~~~~  106 (343)
T PRK09039         48 ISGKDSALDRLNSQIAELADLLSLERQGNQDLQDSVANLRASLSAAEAERSRLQALLAE  106 (343)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            55566677777777777777778888999999999999999999888888888887764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	826
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	4e-09
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-08
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	2e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	5e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-07
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	7e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	9e-06
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	3e-05
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	5e-08
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	3e-06
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	4e-06
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-04
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	2e-04
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	2e-07
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	2e-04
2efr_A	155	General control protein GCN4 and tropomyosin 1 Al;	4e-04
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	2e-06
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	8e-06
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-06
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	4e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	6e-05
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	2e-04
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-04
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	6e-06
2e7s_A	135	RAB guanine nucleotide exchange factor SEC2; coile	9e-06
3lvg_D	190	LCB, clathrin light chain B; SELF assembly, coated	2e-05
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	8e-05
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	3e-04
2zbk_B	530	Type 2 DNA topoisomerase 6 subunit B; DNA binding	3e-04
2q2e_B	621	Type 2 DNA topoisomerase 6 subunit B; DNA-binding,	3e-04
2b9c_A	147	Striated-muscle alpha tropomyosin; alpha-helix, co	4e-04
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	4e-04
1u2m_A	143	Histone-like protein HLP-1; coiled coil, chaperone	4e-04
2xs1_A	704	Programmed cell death 6-interacting protein; prote	4e-04
3ghg_C	411	Fibrinogen gamma chain; triple-stranded coiled coi	5e-04
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	7e-04
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	9e-04

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 59.5 bits (144), Expect = 4e-09
 Identities = 25/105 (23%), Positives = 48/105 (45%), Gaps = 3/105 (2%)

Query: 718  SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
             L   + +L+ +  ELK +L KKE ELQ    R     +Q     + I EL      L +
Sbjct: 1071 DLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQE 1130

Query: 778  IFAEERDRR---EREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
                E+  R   E+++ +L ++++     ++D LD     ++++ 
Sbjct: 1131 DLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRG 1175

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 57.2 bits (138), Expect = 2e-08
 Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 4/92 (4%)

Query: 725  QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
            + +    EL+ RL+K+E   QE  +  R LE +   + + I EL  +   L      +  
Sbjct: 1036 KHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAEL----KAQLA 1091

Query: 785  RREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
            ++E E +    +++D +    + L KI+ LE 
Sbjct: 1092 KKEEELQAALARLEDETSQKNNALKKIRELES 1123

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 55.2 bits (133), Expect = 9e-08
 Identities = 19/97 (19%), Positives = 41/97 (42%), Gaps = 3/97 (3%)

Query: 725  QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL---IDIFAE 781
             L+++  E +   +K + E      + + +E  + +M+    +L KE++ L   +     
Sbjct: 959  DLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTT 1018

Query: 782  ERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
                 E + +NL K        I +L  ++K  EK +
Sbjct: 1019 NLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSR 1055

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 53.7 bits (129), Expect = 2e-07
 Identities = 25/112 (22%), Positives = 57/112 (50%), Gaps = 17/112 (15%)

Query: 725  QLKQENHELKKRLEKKE---GELQEE----RERCRSLEAQLKVMQQTIEELNKEQESL-- 775
            +L++  HE++ R+E++E    +LQ E    +++   LE QL+  +   ++L  E+ +   
Sbjct: 924  ELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADG 983

Query: 776  --------IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
                    I I  ++ ++  +E + L +++ D +  + +  +K K L K+K 
Sbjct: 984  KIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKN 1035

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 52.5 bits (126), Expect = 5e-07
 Identities = 22/102 (21%), Positives = 48/102 (47%), Gaps = 4/102 (3%)

Query: 718  SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
             L   L + ++   EL+K   K EGE  +  E+   L+AQ+  ++  + +  +E ++ + 
Sbjct: 1043 ELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALA 1102

Query: 778  IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
               +E  ++     N  KKI++    I DL + ++  +  + 
Sbjct: 1103 RLEDETSQK----NNALKKIRELESHISDLQEDLESEKAARN 1140

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 52.1 bits (125), Expect = 7e-07
 Identities = 27/96 (28%), Positives = 47/96 (48%), Gaps = 4/96 (4%)

Query: 723  LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
              +L  +  EL++ L + E  ++EE ER + L+A+ K MQQ + +L ++ E         
Sbjct: 915  RVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEE----EAA 970

Query: 783  RDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
            R + + E+     KIK   D I  + D+   L K +
Sbjct: 971  RQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKER 1006

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 51.8 bits (124), Expect = 9e-07
 Identities = 22/95 (23%), Positives = 43/95 (45%), Gaps = 3/95 (3%)

Query: 725  QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE-ER 783
            +L +E   L++R+      L EE E+ ++L       +  I EL    +       E E+
Sbjct: 1001 KLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEK 1060

Query: 784  DRREREEEN--LRKKIKDASDTIQDLLDKIKLLEK 816
             +R+ E E+  L ++I +    I +L  ++   E+
Sbjct: 1061 IKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEE 1095

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 51.8 bits (124), Expect = 9e-07
 Identities = 17/99 (17%), Positives = 43/99 (43%), Gaps = 3/99 (3%)

Query: 721  ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELN---KEQESLID 777
            A   +L+ E      +++K E ++    ++   L  + K++++ + +L     E+E    
Sbjct: 969  AARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAK 1028

Query: 778  IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
               + +++ E     L  ++K    + Q+L    + LE 
Sbjct: 1029 NLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEG 1067

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 48.7 bits (116), Expect = 7e-06
 Identities = 18/105 (17%), Positives = 41/105 (39%), Gaps = 3/105 (2%)

Query: 718  SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
            +    + +++ +   ++ +  K   E +   ER   L   L   ++  + L K +     
Sbjct: 980  TADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHES 1039

Query: 778  IFAEERDRREREE---ENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
            + +E   R ++EE   + L K  +       DL ++I  L+    
Sbjct: 1040 MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIA 1084

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 48.3 bits (115), Expect = 9e-06
 Identities = 14/72 (19%), Positives = 33/72 (45%)

Query: 725  QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
               ++  EL+  +   + +L+ E+      E Q + + + +E L  E E  +D  A +++
Sbjct: 1113 NALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQE 1172

Query: 785  RREREEENLRKK 796
             R  + ++   K
Sbjct: 1173 LRGSDYKDDDDK 1184

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A Length = 1184

 Score = 46.8 bits (111), Expect = 3e-05
 Identities = 17/97 (17%), Positives = 45/97 (46%), Gaps = 8/97 (8%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
           QL +E + L+++L+ +     E  E    L A+ + +++ + E+    E       EE  
Sbjct: 889 QLCEEKNLLQEKLQAETELYAEAEEMRVRLAAKKQELEEILHEMEARIEE------EEER 942

Query: 785 RREREEEN--LRKKIKDASDTIQDLLDKIKLLEKMKT 819
            ++ + E   +++++ D  + +++     + L+  K 
Sbjct: 943 SQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKV 979

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 55.9 bits (135), Expect = 5e-08
 Identities = 16/95 (16%), Positives = 40/95 (42%), Gaps = 4/95 (4%)

Query: 725  QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
             L+ +  +L+++++++  E +   E+  +LE          E+L  + E L  +  EE  
Sbjct: 925  GLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITY---STETEKLRSDVERL-RMSEEEAK 980

Query: 785  RREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
                   +L+++I      +     + K +E+   
Sbjct: 981  NATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWAD 1015

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 50.1 bits (120), Expect = 3e-06
 Identities = 15/106 (14%), Positives = 42/106 (39%), Gaps = 7/106 (6%)

Query: 718  SLGANLGQLKQENHELKKRLEKKEGELQEERE-------RCRSLEAQLKVMQQTIEELNK 770
            SL   +  L+       ++L      L+   E       R  SL+ ++  +++ + +   
Sbjct: 946  SLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQT 1005

Query: 771  EQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
            E++++ +   + +   E+    L+++        ++L  +I    K
Sbjct: 1006 EKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEELNRRIHDQAK 1051

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 49.7 bits (119), Expect = 4e-06
 Identities = 17/85 (20%), Positives = 42/85 (49%), Gaps = 3/85 (3%)

Query: 735 KRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLR 794
           K+L+ +   ++  ++    LE ++  +Q+ I+E NKE +SL++           E E LR
Sbjct: 907 KKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLR 966

Query: 795 KKIKDAS---DTIQDLLDKIKLLEK 816
             ++      +  ++  +++  L++
Sbjct: 967 SDVERLRMSEEEAKNATNRVLSLQE 991

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 17/89 (19%), Positives = 35/89 (39%), Gaps = 4/89 (4%)

Query: 718  SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
             L   L Q + E   +++  +K + E ++       L+ Q  +++   EELN+       
Sbjct: 995  KLRKELHQTQTEKKTIEEWADKYKHETEQLVSE---LKEQNTLLKTEKEELNRRIHDQAK 1051

Query: 778  IFAEERDRR-EREEENLRKKIKDASDTIQ 805
               E  +++   E + L   + D     Q
Sbjct: 1052 EITETMEKKLVEETKQLELDLNDERLRYQ 1080

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus} Length = 1080

 Score = 43.9 bits (104), Expect = 2e-04
 Identities = 17/98 (17%), Positives = 38/98 (38%), Gaps = 15/98 (15%)

Query: 725  QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIE----ELNKEQESLIDIFA 780
                    L++ + K   EL + +   +++E      +   E    EL ++   L     
Sbjct: 981  NATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLL----- 1035

Query: 781  EERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
                  + E+E L ++I D +  I + ++K  + E  +
Sbjct: 1036 ------KTEKEELNRRIHDQAKEITETMEKKLVEETKQ 1067

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A Length = 155

 Score = 50.4 bits (120), Expect = 2e-07
 Identities = 19/95 (20%), Positives = 46/95 (48%), Gaps = 3/95 (3%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELN---KEQESLIDIFAE 781
           +L  +N+ L+  + + +  L+   ER    E +   +++ ++ +    K  E+  + +++
Sbjct: 11  ELLSKNYHLENEVARLKKLLERAEERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQ 70

Query: 782 ERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           + D+ E E + L  K+K+A    +     +  LEK
Sbjct: 71  KEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEK 105

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A Length = 155

 Score = 41.5 bits (97), Expect = 2e-04
 Identities = 21/101 (20%), Positives = 42/101 (41%), Gaps = 3/101 (2%)

Query: 719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL--- 775
           L   L  +      L+ + EK   +  +  E  + L  +LK  +   E   +    L   
Sbjct: 47  LEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAEFAERSVTKLEKS 106

Query: 776 IDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           ID   +E   ++ + + + +++K   D +++LL K   LE 
Sbjct: 107 IDDLEDELYAQKLKYKAISEEMKQLEDKVEELLSKNYHLEN 147

>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing cluster, hydrophobic core, contractIle protein; 1.80A {Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A Length = 155

 Score = 40.7 bits (95), Expect = 4e-04
 Identities = 27/94 (28%), Positives = 38/94 (40%), Gaps = 7/94 (7%)

Query: 732 ELKKRLEKKEGELQEE----RERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRR- 786
           E  +  E K  EL+EE        +SLEAQ +   Q  ++  +E + L D   E   R  
Sbjct: 35  ERAELSEGKSAELEEELKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLKEAETRAE 94

Query: 787 --EREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
             ER    L K I D  D +     K K + +  
Sbjct: 95  FAERSVTKLEKSIDDLEDELYAQKLKYKAISEEM 128

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A Length = 129

 Score = 47.2 bits (112), Expect = 2e-06
 Identities = 18/84 (21%), Positives = 42/84 (50%), Gaps = 3/84 (3%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELN---KEQESLIDIFAE 781
            L QE ++L+ +++ ++  L +  ERC  L      ++  ++E+N   +++E +      
Sbjct: 45  SLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTA 104

Query: 782 ERDRREREEENLRKKIKDASDTIQ 805
           ++ + E E   L++ I D   T+ 
Sbjct: 105 KKRKLEDECSELKRDIDDLELTLA 128

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A Length = 129

 Score = 44.9 bits (106), Expect = 8e-06
 Identities = 27/97 (27%), Positives = 48/97 (49%), Gaps = 6/97 (6%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           +  +K+E   LK+ LEK E   +E  E+  SL  +   +Q    ++  EQ++L D  AEE
Sbjct: 15  MASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQ---LQVQAEQDNLAD--AEE 69

Query: 783 RDRREREEEN-LRKKIKDASDTIQDLLDKIKLLEKMK 818
           R  +  + +  L  K+K+ +  ++D  +    L   K
Sbjct: 70  RCDQLIKNKIQLEAKVKEMNKRLEDEEEMNAELTAKK 106

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 49.3 bits (117), Expect = 2e-06
 Identities = 19/92 (20%), Positives = 43/92 (46%), Gaps = 4/92 (4%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
           ++ ++   ++  LE+ E   +    +C  LE ++K +   ++ L  + E      +++ D
Sbjct: 164 EVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKY----SQKED 219

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           + E E + L  K+K+A    +     +  LEK
Sbjct: 220 KYEEEIKVLSDKLKEAETRAEFAERSVTKLEK 251

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 45.4 bits (107), Expect = 4e-05
 Identities = 20/104 (19%), Positives = 43/104 (41%), Gaps = 3/104 (2%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
           +    L + ++   E ++ ++  E   Q++ E+    E QLK  +   E+ +++ E +  
Sbjct: 108 TALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVAR 167

Query: 778 IFAEERDRREREEENL---RKKIKDASDTIQDLLDKIKLLEKMK 818
                    ER EE       K  +  + I+ + + +K LE   
Sbjct: 168 KLVIIESDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQA 211

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 45.0 bits (106), Expect = 6e-05
 Identities = 20/95 (21%), Positives = 41/95 (43%), Gaps = 3/95 (3%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL---IDIFAE 781
            +K++   LK   E       E     ++ E + K ++  +  L K+ ++    +D ++E
Sbjct: 3   AIKKKMQMLKLDKENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSE 62

Query: 782 ERDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
                + + E   KK  DA   +  L  +I+L E+
Sbjct: 63  ALKDAQEKLELAEKKATDAEADVASLNRRIQLFEE 97

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A Length = 284

 Score = 43.5 bits (102), Expect = 2e-04
 Identities = 23/100 (23%), Positives = 43/100 (43%), Gaps = 3/100 (3%)

Query: 721 ANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA 780
           ++L + ++     + +  + E E++      +SLEAQ +   Q  ++  +E + L D   
Sbjct: 174 SDLERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLK 233

Query: 781 EERDRREREEEN---LRKKIKDASDTIQDLLDKIKLLEKM 817
           E   R E  E +   L K I D  D +     K K + + 
Sbjct: 234 EAETRAEFAERSVTKLEKSIDDLEDELYAQKLKYKAISEE 273

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus} Length = 189

 Score = 47.8 bits (113), Expect = 3e-06
 Identities = 25/120 (20%), Positives = 47/120 (39%), Gaps = 11/120 (9%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKV-----------MQQTIE 766
           SL       K+ + + K+  ++   EL E +E  R LEA+L+            +Q   +
Sbjct: 7   SLKEETAYWKELSMKYKQSFQEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQADNQ 66

Query: 767 ELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTPSIRAGR 826
            L  E E+L +    +  +  ++   L   +       + L   ++ LE+      RA R
Sbjct: 67  RLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQLHKYVRELEQANDDLERAKR 126

>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 = 50.2 bits (119), Expect = 3e-06
 Identities = 72/455 (15%), Positives = 141/455 (30%), Gaps = 140/455 (30%)

Query: 223 GQYGNGFKTSTMRLGADV----------------IVFSCCCGKDGKSPTRSIGLLSYTFL 266
           G  G+G KT    +  DV                +    C      SP   + +L     
Sbjct: 157 GVLGSG-KTW---VALDVCLSYKVQCKMDFKIFWLNLKNCN-----SPETVLEMLQKLLY 207

Query: 267 R-----STGKEDIVVPMLDYEGSQQEWKKIIRSS--------LDD-WNRNVETIVQWSPF 312
           +     ++  +      L     Q E +++++S         L +  N        W+ F
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA-----WNAF 262

Query: 313 ------------SSEADLL---HQFNLMKDHGTRIIIYNLWEDD-QGLLELDFDSDKHDI 356
                           D L      ++  DH +      L  D+ + LL    D    D+
Sbjct: 263 NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSM----TLTPDEVKSLLLKYLDCRPQDL 318

Query: 357 --QLRGVN-----------RDEQNIKMAQHYPNSRHFLTYRHSLRSYASI---------- 393
             ++   N           RD         + N +H    + +    +S+          
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLA-----TWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373

Query: 394 LYLRL---PPGFRI------II--RGKDVEHHNIVNDMMLSKKVTYRPQPGASGIPTDLH 442
           ++ RL   PP   I      +I       +   +VN +     V  +P+     IP  ++
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP-SIY 432

Query: 443 MAVDVTIGFVKDAKHH---ID-VQGFNVYHKNRLIKPFWRLWNASGSDG--RGVIGV-LE 495
           +  ++ +    +   H   +D       +  + LI P+         D      IG  L+
Sbjct: 433 L--ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL--------DQYFYSHIGHHLK 482

Query: 496 ANFVEPAHDKQGFERTTV-LARLEARLIQMQKDYWN------NNCHEIGYAPRRYKKYIK 548
              +E       F    +    LE ++       WN      N   ++    + YK YI 
Sbjct: 483 N--IEHPERMTLFRMVFLDFRFLEQKIRH-DSTAWNASGSILNTLQQL----KFYKPYIC 535

Query: 549 DS---YDREISSKKSYPSRH--KITDSSHSDKHQL 578
           D+   Y+R +++   +  +    +  S ++D  ++
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI 570

>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 = 42.5 bits (99), Expect = 7e-04
 Identities = 46/316 (14%), Positives = 90/316 (28%), Gaps = 74/316 (23%)

Query: 136 VRVHPKFLHSNAT-SHKWALGAFAELLDNSLD----EVCNGATYSNIDML-------INR 183
              H    H + T +         + LD        EV        + ++       +  
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR-LSIIAESIRDGLAT 343

Query: 184 KDGSRML-------LIEDNGGGMNPDKMRHC-MSLG---YSAKSKAANTIGQYGNGFKTS 232
            D  + +       +IE +   + P + R     L     SA       +         S
Sbjct: 344 WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI-LLSLIWFDVIKS 402

Query: 233 TMRLGADVIVFSCCCGKDGKSPTRSIGLL--------------------SYTFLRSTGKE 272
            + +  + +       K  K  T SI  +                     Y   ++   +
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462

Query: 273 DIVVPMLD-Y----------EGSQQEWKKIIRSSLDDWN------RNVETIVQWSPFSSE 315
           D++ P LD Y               E   + R    D+       R+  T   W+   S 
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDST--AWNASGSI 520

Query: 316 ADLLHQFNLMKDHGTRIIIYNLWEDDQGLLEL-DFDSDKHDIQLRGVNRDEQNI-KMAQH 373
            + L Q    K +    I  N  + ++ +  + DF   K +  L  +     ++ ++A  
Sbjct: 521 LNTLQQLKFYKPY----ICDNDPKYERLVNAILDF-LPKIEENL--ICSKYTDLLRIALM 573

Query: 374 YPNSRHFL-TYRHSLR 388
             +   F   ++   R
Sbjct: 574 AEDEAIFEEAHKQVQR 589

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1 Length = 154

 Score = 46.0 bits (108), Expect = 6e-06
 Identities = 17/105 (16%), Positives = 47/105 (44%), Gaps = 4/105 (3%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNK----EQE 773
            L  +   LK+E  +    +++   ++ +E E     E +   + + +E+L      E  
Sbjct: 41  QLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFDEAN 100

Query: 774 SLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMK 818
           +++    +E+   E   + L +++++    +  L  ++K L+K+ 
Sbjct: 101 NMVADARKEKYAIEILNKRLTEQLREKDTLLDTLTLQLKNLKKVM 145

>2e7s_A RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 3.00A {Saccharomyces cerevisiae} SCOP: h.1.33.1 Length = 135

 Score = 45.2 bits (106), Expect = 9e-06
 Identities = 18/104 (17%), Positives = 46/104 (44%), Gaps = 4/104 (3%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNK----EQE 773
            L  +   LK+E  +    +++   ++ +E E     E +   + + +E+L      E  
Sbjct: 29  QLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFDEAN 88

Query: 774 SLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           +L+     E+   E   + L +++++    +  L  ++K L+K+
Sbjct: 89  NLVADARMEKYAIEILNKRLTEQLREKDMLLDTLTLQLKNLKKV 132

>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190

 Score = 45.5 bits (107), Expect = 2e-05
 Identities = 17/81 (20%), Positives = 39/81 (48%), Gaps = 6/81 (7%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVM-QQTIEELNKEQESLIDIFAEER 783
           +L QE   ++K  E++   LQE     + +E + +   ++ +EE N+ Q   ++    + 
Sbjct: 79  RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVE--KNKI 136

Query: 784 DRREREEENLRKKIKDASDTI 804
           + R  ++   ++   D +D I
Sbjct: 137 NNRIADKAFYQQ--PD-ADII 154

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens} Length = 168

 Score = 43.2 bits (101), Expect = 8e-05
 Identities = 18/101 (17%), Positives = 39/101 (38%), Gaps = 4/101 (3%)

Query: 719 LGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDI 778
           +  ++ QL+  N EL++R    E    +  +    L+A L+  ++     ++    L   
Sbjct: 39  MSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQAR 98

Query: 779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT 819
               ++  +  + NL K         ++  D +   EK K 
Sbjct: 99  ITSLQEEVKHLKHNLEK----VEGERKEAQDMLNHSEKEKN 135

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens} Length = 168

 Score = 41.3 bits (96), Expect = 3e-04
 Identities = 16/94 (17%), Positives = 39/94 (41%)

Query: 717 CSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLI 776
             L  +  Q  ++ ++L+  LE +  +   + E    L+A++  +Q+ ++ L    E + 
Sbjct: 58  RILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHLKHNLEKVE 117

Query: 777 DIFAEERDRREREEENLRKKIKDASDTIQDLLDK 810
               E +D     E+       D +  ++ L  +
Sbjct: 118 GERKEAQDMLNHSEKEKNNLEIDLNYKLKSLQQR 151

>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae} Length = 530

 Score = 43.6 bits (102), Expect = 3e-04
 Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 8/102 (7%)

Query: 156 AFAELLDNSLDEVCNGATYSNIDMLINRKDGSR---MLLIEDNGGGMNPDKMRHCMS-LG 211
              EL++NSLD         NI + I+  D +R    + + DNG G+ P ++ +    + 
Sbjct: 35  TVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRVL 94

Query: 212 YSAKSKAANTIGQYGNGFKT----STMRLGADVIVFSCCCGK 249
           YS+K     T G YG G K     S M     + + +     
Sbjct: 95  YSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNS 136

>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei} Length = 621

 Score = 43.3 bits (101), Expect = 3e-04
 Identities = 21/101 (20%), Positives = 36/101 (35%), Gaps = 7/101 (6%)

Query: 156 AFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLL-IEDNGGGMNPDKMRHCMSLGY-- 212
              E +DN+LD         +I + + R     + + IEDNG G+  +++    +     
Sbjct: 41  TVKEAVDNALDACEEAGILPDILVQVERTGPDYVTVIIEDNGPGIVREQIPKVFAKLLYG 100

Query: 213 SAKSKAANTIGQYGNGFKT----STMRLGADVIVFSCCCGK 249
           S       + GQ G G       + M  G    + S     
Sbjct: 101 SRFHALKQSRGQQGIGISAAVLYAQMTAGRHTKILSKTSPT 141

>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil, alanine, axial stagger, radius, SIDE-chain packing, crystal packing; 2.30A {Rattus norvegicus} SCOP: h.1.5.1 Length = 147

 Score = 40.4 bits (94), Expect = 4e-04
 Identities = 19/96 (19%), Positives = 45/96 (46%), Gaps = 3/96 (3%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESL---IDIF 779
           L + ++   E ++ ++  E   Q++ E+    E QLK  +   E+ +++ E +   + I 
Sbjct: 26  LEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVII 85

Query: 780 AEERDRREREEENLRKKIKDASDTIQDLLDKIKLLE 815
             + +R E   E    K  +  + ++ + + +K LE
Sbjct: 86  ESDLERAEERAELSEGKCAELEEELKTVTNNLKSLE 121

>2oto_A M protein; helical coiled coil, fibrinogen-binding, virulence factor, S active protein, toxin; 3.04A {Streptococcus pyogenes serotype M1} PDB: 2xny_M Length = 155

 Score = 40.8 bits (94), Expect = 4e-04
 Identities = 19/94 (20%), Positives = 41/94 (43%)

Query: 723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
              LK       +   +     +E  +  ++LE Q K ++  ++EL ++ +   +  + +
Sbjct: 31  NKDLKARLENAMEVAGRDFKRAEELEKAKQALEDQRKDLETKLKELQQDYDLAKESTSWD 90

Query: 783 RDRREREEENLRKKIKDASDTIQDLLDKIKLLEK 816
           R R E+E E  ++ ++ A D       +   LEK
Sbjct: 91  RQRLEKELEEKKEALELAIDQASRDYHRATALEK 124

>1u2m_A Histone-like protein HLP-1; coiled coil, chaperone; 2.30A {Escherichia coli} SCOP: f.48.1.1 PDB: 1sg2_A Length = 143

 Score = 40.6 bits (95), Expect = 4e-04
 Identities = 16/83 (19%), Positives = 37/83 (44%), Gaps = 3/83 (3%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSL--EAQLKVMQQTIEELNKEQESLIDIFAEE 782
            L+ E       L++ E +LQ + ++ +S+   +    +++ +    +        F ++
Sbjct: 27  TLENEFKGRASELQRMETDLQAKMKKLQSMKAGSDRTKLEKDVMAQRQTFAQKAQAFEQD 86

Query: 783 RDRREREEEN-LRKKIKDASDTI 804
           R RR  EE   L  +I+ A  ++
Sbjct: 87  RARRSNEERGKLVTRIQTAVKSV 109

>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral protein complex, cell cycle; 2.30A {Homo sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A Length = 704

 Score = 42.6 bits (99), Expect = 4e-04
 Identities = 14/98 (14%), Positives = 33/98 (33%)

Query: 725 QLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERD 784
            L+ E    +  L+K      + +E  +S    + ++ +   ELN    S       +  
Sbjct: 493 PLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQGS 552

Query: 785 RREREEENLRKKIKDASDTIQDLLDKIKLLEKMKTPSI 822
                 ++L   + +     + L + +K +    T   
Sbjct: 553 EVVNVLKSLLSNLDEVKKEREGLENDLKSVNFDMTSKF 590

>3ghg_C Fibrinogen gamma chain; triple-stranded coiled coil, beta sheets, alpha helices, AMY amyloidosis, blood coagulation, disease mutation, glycoprot phosphoprotein; HET: NAG NDG BMA MAN GAL SIA; 2.90A {Homo sapiens} PDB: 1deq_C Length = 411

 Score = 42.6 bits (100), Expect = 5e-04
 Identities = 13/103 (12%), Positives = 36/103 (34%), Gaps = 3/103 (2%)

Query: 715 SDCSLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQES 774
           + C +   L   + +  +  + LE    +++ +      ++  +K +Q T       + +
Sbjct: 21  TTCGIADFLSTYQTKVDKDLQSLEDILHQVENKTSE---VKQLIKAIQLTYNPDESSKPN 77

Query: 775 LIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           +ID    +  +   E       I     +I+ L +      + 
Sbjct: 78  MIDAATLKSRKMLEEIMKYEASILTHDSSIRYLQEIYNSNNQK 120

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori} Length = 256

 Score = 41.3 bits (96), Expect = 7e-04
 Identities = 11/103 (10%), Positives = 31/103 (30%), Gaps = 12/103 (11%)

Query: 722 NLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAE 781
            +  L +E   L+  + +K  +L +      +    +  +++    L  +         +
Sbjct: 12  EISHLDKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQD 71

Query: 782 ERDRRE------------REEENLRKKIKDASDTIQDLLDKIK 812
              +              RE  +L  +   A +       +I+
Sbjct: 72  TNAKIASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIE 114

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1 Length = 97

 Score = 38.6 bits (89), Expect = 9e-04
 Identities = 13/87 (14%), Positives = 38/87 (43%), Gaps = 4/87 (4%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELN----KEQE 773
            L  +   LK+E  +    +++   ++ +E E     E +   + + +E+L      E  
Sbjct: 9   QLKEDYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTASLFDEAN 68

Query: 774 SLIDIFAEERDRREREEENLRKKIKDA 800
           +++    +E+   E   + L +++++ 
Sbjct: 69  NMVADARKEKYAIEILNKRLTEQLREK 95

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	826
1y4s_A	559	Chaperone protein HTPG; HSP90, molecular chaperone	99.67
2ioq_A	624	Chaperone protein HTPG; heat shock protein, HSP90;	99.62
3nmq_A	239	Heat shock protein HSP 90-beta; ATPase, chaperone-	99.6
3peh_A	281	Endoplasmin homolog; structural genomics, structur	99.6
3ied_A	272	Heat shock protein; HSP90, chaperone, structural g	99.57
1qy5_A	269	Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: N	99.56
3t0h_A	228	Heat shock protein HSP 90-alpha; chaperone, ATPase	99.55
3o0i_A	256	HSP90AA1 protein; HSP90 heat-shock proteins, chape	99.53
2gqp_A	236	Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone,	99.52
2wer_A	220	ATP-dependent molecular chaperone HSP82; ATPase, A	99.51
2cg9_A	677	ATP-dependent molecular chaperone HSP82; chaperone	99.51
1yc1_A	264	HSP 86, heat shock protein HSP 90-alpha; cell-cycl	99.5
2o1u_A	666	Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone,	99.48
2ior_A	235	Chaperone protein HTPG; heat shock protein, HSP90;	99.45
1b63_A	333	MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A	99.12
3na3_A	348	DNA mismatch repair protein MLH1; MUTL protein hom	99.01
3h4l_A	367	DNA mismatch repair protein PMS1; ATP binding, DNA	99.0
1h7s_A	365	PMS1 protein homolog 2; DNA repair, GHL ATPase, mi	98.96
3fv5_A	201	DNA topoisomerase 4 subunit B; topoisomerase IV B	98.78
1ei1_A	391	DNA gyrase B, GYRB; ATPase domain, dimer, isomeras	98.47
1s16_A	390	Topoisomerase IV subunit B; two-domain protein com	98.37
4duh_A	220	DNA gyrase subunit B; structure-based drug design,	98.35
4emv_A	226	DNA topoisomerase IV, B subunit; protein-inhibitor	98.2
1kij_A	390	DNA gyrase subunit B; topoisomerase, gyrase B-coum	98.11
3cwv_A	369	DNA gyrase, B subunit, truncated; structural genom	98.09
1mu5_A	471	Type II DNA topoisomerase VI subunit B; GHKL ATPas	98.07
1zxm_A	400	TOPO IIA ATPase, DNA topoisomerase II, alpha isozy	97.98
2zbk_B	530	Type 2 DNA topoisomerase 6 subunit B; DNA binding	97.98
3lnu_A	408	Topoisomerase IV subunit B; PARE, ATP-binding, nuc	97.84
1id0_A	152	PHOQ histidine kinase; PHOQ/PHOP, signal transduct	97.64
2q2e_B	621	Type 2 DNA topoisomerase 6 subunit B; DNA-binding,	97.63
2c2a_A	258	Sensor histidine kinase; phosphotransfer, PHOQ, se	97.63
3sl2_A	177	Sensor histidine kinase YYCG; ATP binding, intact	97.61
1bxd_A	161	ENVZ(290-450), protein (osmolarity sensor protein	97.56
3a0y_A	152	Sensor protein; ATP-LID, kinase, phosphoprotein, t	97.49
2btz_A	394	Pyruvate dehydrogenase kinase isoenzyme 2; GHKL mo	97.48
2q8g_A	407	[pyruvate dehydrogenase [lipoamide]] kinase isozy;	97.46
1i58_A	189	Chemotaxis protein CHEA; beta-alpha sandwich, sign	97.46
2e0a_A	394	Pyruvate dehydrogenase kinase isozyme 4; PDK4, ATP	97.41
4ew8_A	268	Sensor protein DIVL; signal transduction, two-comp	97.33
1y8o_A	419	[pyruvate dehydrogenase [lipoamide]] kinase isozy;	97.32
1ysr_A	150	Sensor-type histidine kinase PRRB; ATP-binding dom	97.31
1r62_A	160	Nitrogen regulation protein NR(II); PII, histidine	97.29
3d36_A	244	Sporulation kinase B; GHKL ATPase, four helix bund	97.29
3ttz_A	198	DNA gyrase subunit B; protein-inhibitor complex, A	97.27
1gkz_A	388	[3-methyl-2-oxobutanoate dehydrogenase [lipoamide]	97.23
1th8_A	145	Anti-sigma F factor; SPOIIAB, SPOIIAA, anti-ANTI-s	97.21
3ehg_A	128	Sensor kinase (YOCF protein); GHL ATPase domain, t	97.15
1pvg_A	418	DNA topoisomerase II; GHKL ATPase domain; HET: DNA	97.13
3ehh_A	218	Sensor kinase (YOCF protein); four-helix bundle, G	96.99
1b3q_A	379	Protein (chemotaxis protein CHEA); histine kinase,	96.97
3jz3_A	222	Sensor protein QSEC; helix-turn-helix, kinase doma	96.96
3a0r_A	349	Sensor protein; four helix bundle, PAS fold, kinas	96.93
3zxo_A	129	Redox sensor histidine kinase response regulator;	96.75
3zxq_A	124	Hypoxia sensor histidine kinase response regulato;	96.04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	94.06
4fpp_A	247	Phosphotransferase; four helix bundle, bergerat fo	93.62
4gfh_A	1177	DNA topoisomerase 2; topoisomerase, protein-DNA co	92.56
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	92.22
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	90.19
3na7_A	256	HP0958; flagellar biogenesis, flagellum export, C4	89.9
2fxo_A	129	Myosin heavy chain, cardiac muscle beta isoform; c	89.53
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	89.18
2dfs_A	1080	Myosin-5A; myosin-V, inhibited state, cryoelectron	88.89
3ke6_A	399	Protein RV1364C/MT1410; anti-sigma factor, anti-si	88.75
2v71_A	189	Nuclear distribution protein NUDE-like 1; developm	88.48
3u59_A	101	Tropomyosin beta chain; muscle contraction, actin,	88.2
1l8d_A	112	DNA double-strand break repair RAD50 ATPase; zinc	88.12
3o0z_A	168	RHO-associated protein kinase 1; coiled-coil, tran	87.17
1i84_S	1184	Smooth muscle myosin heavy chain; muscle protein,	87.12
3u1c_A	101	Tropomyosin alpha-1 chain; anti-parallel coiled co	86.83
1ixm_A	192	SPO0B, protein (sporulation response regulatory pr	86.81
2ocy_A	154	RAB guanine nucleotide exchange factor SEC2; RAB,	86.63
1ses_A	421	Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A	86.04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	86.02
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	85.52
2jee_A	81	YIIU; FTSZ, septum, coiled-coil, cell division, ce	85.48
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	84.98
1c1g_A	284	Tropomyosin; contractIle protein; 7.00A {Sus scrof	84.58
2eqb_B	97	RAB guanine nucleotide exchange factor SEC2; coile	84.58
2oto_A	155	M protein; helical coiled coil, fibrinogen-binding	83.05
3a7p_A	152	Autophagy protein 16; coiled-coil, coiled coil, cy	82.98
3tnu_A	131	Keratin, type I cytoskeletal 14; coiled-coil, stru	80.63
2dq0_A	455	Seryl-tRNA synthetase; coiled-coil, homodimer, str	80.1

>1y4s_A Chaperone protein HTPG; HSP90, molecular chaperone, ATPase; HET: ADP; 2.90A {Escherichia coli} PDB: 1y4u_A

Probab=99.67  E-value=3.4e-16  Score=177.95  Aligned_cols=113  Identities=27%  Similarity=0.431  Sum_probs=87.5

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.++.++-+|.-|      ++..  .+|+|||+||+||.++             .+..+.|.+..+.  +...|+
T Consensus         8 ~Fqaei~~Ll~ll~~~lY------sn~~--ifLrELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~I~~d~--~~~~I~   77 (559)
T 1y4s_A            8 GFQSEVKQLLHLMIHSLY------SNKE--IFLRELISNASDAADKLRFRALSNPDLYEGDGELRVRVSFDK--DKRTLT   77 (559)
T ss_dssp             ECCTTHHHHHHHHHHHTG------GGTT--HHHHHHHHHHHHHHHHHHHHHHHCGGGGCSCCCCCEEEEEET--TTTEEE
T ss_pred             eeeecHHHHHHHHHHhcC------CChH--HHHHHHHHHHHHHhHhHHHhhccCchhccCCCccEEEEEEeC--CCcEEE
Confidence            489999999999888888      5555  4599999999999621             1444556655454  346899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc-----------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS-----------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~-----------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||+.++|..+| ++|+|.+.           .....||+||+||++++| +|++|+|.||+.+
T Consensus        78 I~DnGiGMt~edl~~~l~tiA~Sg~~~f~e~l~~~~~~~~~~iG~fGvGfyS~f~-VadkV~V~Sr~~~  145 (559)
T 1y4s_A           78 ISDNGVGMTRDEVIDHLGTIAKSGTKSFLESLGSDQAKDSQLIGQFGVGFYSAFI-VADKVTVRTRAAG  145 (559)
T ss_dssp             EEECSSCCCHHHHHHHHSCCSCCCCCCTTCC--------CCCCSSCCCSGGGHHH-HEEEEEEEEECSS
T ss_pred             EEECCCCCCHHHHHHHHhhhcccccHHHHHHhhccccccccccCCCCcchhhhhh-ccCeEEEEEcCCC
Confidence            99999999999998754 57877642           124589999999998666 8999999999875

>2ioq_A Chaperone protein HTPG; heat shock protein, HSP90; 3.50A {Escherichia coli} PDB: 2iop_A

Probab=99.62  E-value=3e-16  Score=180.40  Aligned_cols=114  Identities=26%  Similarity=0.435  Sum_probs=80.9

Q ss_pred             CCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEE
Q 003366          124 GGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRML  190 (826)
Q Consensus       124 ~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L  190 (826)
                      ..||+++.++.++-+|.-|      ++...  +|+|||+||+||.++             .+..+.|.+..+.  +...|
T Consensus         7 ~~Fqaei~~Ll~ll~~~lY------sn~~i--fLrELIsNA~DA~~k~r~~~l~~~~~~~~a~~~~I~I~~d~--~~~~I   76 (624)
T 2ioq_A            7 RGFQSEVKQLLHLMIHSLY------SNKEI--FLRELISNASDAADKLRFRALSNPDLYEGDGELRVRVSFDK--DKRTL   76 (624)
T ss_dssp             --------CCHHHHHHHHS------SCTTH--HHHHHHHHHHHHHHHHHHHHHTSTTTTTTCCCCCEEEEEET--TTTEE
T ss_pred             eeeeecHHHHHHHHHHhcC------CChHH--HHHHHHHHHHHhhhhhHHhhccCcccccCCCCcEEEEEEeC--CCcEE
Confidence            3599999999999998888      66664  599999999999621             1544566665543  34689


Q ss_pred             EEEECCCCCCHHHHhhhc-cccccccc-----------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          191 LIEDNGGGMNPDKMRHCM-SLGYSAKS-----------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       191 ~I~DNG~GMs~eeL~~~L-sfG~SsK~-----------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      +|.|||+||+.++|..++ .+|+|.+.           .....||+||+||++++| +|.+|+|+||+.+
T Consensus        77 ~I~DnGiGMt~edl~~~l~tiA~Sg~~~f~~~l~~~~~~~~~~iG~fGvGfyS~f~-VadkV~V~Sr~~~  145 (624)
T 2ioq_A           77 TISDNGVGMTRDEVIDHLGTIAKSGTKSFLESLGSDQAKDSQLIGQFGVGFYSAFI-VADKVTVRTRAAG  145 (624)
T ss_dssp             EEEECSCCCCHHHHHHHHHHHCC---------------CCTTHHHHHHHHHHHHHH-HEEEEEEEEECTT
T ss_pred             EEEECCCCCCHHHHHHHHHhhcccccHHHHHHhcccccccccccCCCCccHHHHHh-cCCeEEEEECCCC
Confidence            999999999999998754 57777542           134579999999998666 8999999999875

>3nmq_A Heat shock protein HSP 90-beta; ATPase, chaperone-chaperone inhibitor complex; HET: 7PP; 2.20A {Homo sapiens} SCOP: d.122.1.1

Probab=99.60  E-value=1.8e-16  Score=163.69  Aligned_cols=113  Identities=21%  Similarity=0.359  Sum_probs=90.0

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.++.++-+|.-|      ++++.|  |+|||.||+||.++             ....+.|.+..++  ....|.
T Consensus        20 ~Fqae~~~ll~ll~~~lY------s~~~if--LRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~I~~d~--~~~~L~   89 (239)
T 3nmq_A           20 AFQAEIAQLMSLIINTFY------SNKEIF--LRELISNASDALDKIRYESLTDPSKLDSGKELKIDIIPNP--QERTLT   89 (239)
T ss_dssp             ECCHHHHHHHHHHHHSCC------CCTTHH--HHHHHHHHHHHHHHHHHHHHHCGGGGTTCCCCCEEEEEET--TTTEEE
T ss_pred             eehhhHHHHHHHHHHhcc------CCcHHH--HHHHHhChHHHHHHHHHHhccCchhccCCCceEEEEEEeC--CccEEE
Confidence            489999999999999888      777876  99999999999753             1123567766554  456899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||.||++++|.+.| .+++|.+.         .....||+||+||++++| +|.+|+|+||+.+
T Consensus        90 I~DnGiGMt~edL~~~LgtIA~Sgtk~f~e~~~~~~d~~~IGqFGvGfySaf~-vadkv~V~Sk~~~  155 (239)
T 3nmq_A           90 LVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYL-VAEKVVVITKHND  155 (239)
T ss_dssp             EEECSCCCCHHHHHTHHHHHHHHHHHHHHHHHHTTCCGGGGGGGTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EEeCCCCCCHHHHHHHHHHHhcccchhhhhhhcccCCcccccccCcccccccc-cCCEEEEEEeeCC
Confidence            99999999999997644 56666432         234689999999998866 9999999999864

>3peh_A Endoplasmin homolog; structural genomics, structural genomics consortium, SGC, HE protein, chaperone, ATP binding; HET: IBD; 2.75A {Plasmodium falciparum 3D7} PDB: 3pej_A*

Probab=99.60  E-value=2.7e-16  Score=165.62  Aligned_cols=113  Identities=22%  Similarity=0.361  Sum_probs=90.0

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.+|..+-++.-|      ++.++|  |+|||.||+||+++             ....+.|.+..++  ....|+
T Consensus        27 ~Fqaei~~Ll~ll~~~lY------sn~~if--LRELIsNA~DA~~k~r~~~l~d~~~~~~~~~l~I~I~~d~--~~~tLt   96 (281)
T 3peh_A           27 QYQTEVTRLMDIIVNSLY------TQKEVF--LRELISNAADALEKIRFLSLSDESVLGEEKKLEIRISANK--EKNILS   96 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHT------TCGGGH--HHHHHHHHHHHHHHHHHHHTTCGGGGTTCCCCCEEEEEET--TTTEEE
T ss_pred             eehHHHHHHHHHHHHhcc------CChHHH--HHHHHhChHHHHHHHHHHhcCCchhccCCCceEEEEEEcC--CCcEEE
Confidence            489999999999998888      667766  99999999999752             1134667766554  346899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc----------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS----------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~----------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||++++|.+.| .+|+|.+.          .....||+||+||++++| +|.+|+|+||+.+
T Consensus        97 I~DNGiGMt~edL~~~LgtIa~Sgtk~f~e~l~~~~~d~~~IGqFGVGFySaf~-vadkV~V~Sk~~~  163 (281)
T 3peh_A           97 ITDTGIGMTKVDLINNLGTIAKSGTSNFLEAISKSGGDMSLIGQFGVGFYSAFL-VADKVIVYTKNND  163 (281)
T ss_dssp             EEECSCCCCHHHHHHHHHHHHHSCHHHHHHHHHHTTCCSTTTTTTTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EEeCCCCCCHHHHHHHHHHHHhHhhhhHHHhhhccccccccccccCccchhhcc-ccCEEEEEEecCC
Confidence            99999999999998765 46666432          235689999999998866 9999999999865

>3ied_A Heat shock protein; HSP90, chaperone, structural genomics, structura genomics consortium, SGC, stress response; HET: AN2; 2.01A {Plasmodium falciparum}

Probab=99.57  E-value=6.8e-16  Score=161.12  Aligned_cols=110  Identities=23%  Similarity=0.369  Sum_probs=90.5

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC---------------------------------
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG---------------------------------  171 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g---------------------------------  171 (826)
                      .||+++.+|.++.+|.-|      |++.+|  |+|||.||.||+.+-                                 
T Consensus        28 ~Fqae~~~ll~li~~slY------s~keiF--lRELISNasDA~dK~r~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   99 (272)
T 3ied_A           28 NFKAEVNKVMDIIVNSLY------TDKDVF--LRELISNASDACDKKRIILENNKLIKDAEVVTNEEIKNETEKEKTENV   99 (272)
T ss_dssp             ECCHHHHHHHHHHHHCTT------CCTTHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHCC------------------
T ss_pred             chHHHHHHHHHHHHhhcC------CCHHHH--HHHHHHhhHHHHHHHHHhccChhhhhcccccccccccccccccccccc
Confidence            499999999999999999      999999  999999999998640                                 


Q ss_pred             ----------------CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhc-cccccccc----------cCCcccCc
Q 003366          172 ----------------ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCM-SLGYSAKS----------KAANTIGQ  224 (826)
Q Consensus       172 ----------------At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~L-sfG~SsK~----------~~~~~IGr  224 (826)
                                      ...+.|.+..++  ....|+|.|||+||+.++|.+.| .+++|.+.          .....||+
T Consensus       100 ~~~~~~~~~~~e~~~~~~~l~I~I~~Dk--~~~tLtI~DNGiGMTkeeL~~~LgtIA~SGtk~Fle~l~~~~~d~~~IGq  177 (272)
T 3ied_A          100 NESTDKKENVEEEKNDIKKLIIKIKPDK--EKKTLTITDNGIGMDKSELINNLGTIAQSGTAKFLKQIEEGKADSNLIGQ  177 (272)
T ss_dssp             --------------CGGGGCCEEEEEET--TTTEEEEEECSCCCCHHHHHHHTTCSCCHHHHHHHHHHHTTSSCTTCGGG
T ss_pred             ccccccccccccccCCCCCcEEEEEEeC--CCCEEEEEeCCCCCCHHHHHHHHHHHhhcchhhHHHHhhcccccccccCc
Confidence                            112467776654  45689999999999999999855 56766431          23468999


Q ss_pred             ccCcccccccccCCeEEEEee
Q 003366          225 YGNGFKTSTMRLGADVIVFSC  245 (826)
Q Consensus       225 fG~GfKsAsmrLG~~v~V~SK  245 (826)
                      ||+||++|+| +|.+|+|+||
T Consensus       178 FGVGFySaFm-VAdkV~V~Sk  197 (272)
T 3ied_A          178 FGVGFYSSFL-VSNRVEVYTK  197 (272)
T ss_dssp             SCCGGGGGGG-TEEEEEEEEE
T ss_pred             ccceeheeec-cCCEEEEEEc
Confidence            9999998766 9999999999

>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A* 1u0y_A* 1yt2_A*

Probab=99.56  E-value=5.6e-16  Score=162.24  Aligned_cols=113  Identities=21%  Similarity=0.384  Sum_probs=88.4

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.+|.++.+|.-|      ++.+.|  |+|||+||+||.++             ....+.|.+..+.  +...|.
T Consensus         9 ~Fqaei~~Ll~li~~~lY------sn~eif--LrELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~--~~~~l~   78 (269)
T 1qy5_A            9 AFQAEVNRMMKLIINSLY------KNKEIF--LRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDK--EKNLLH   78 (269)
T ss_dssp             CCCHHHHHHHHHHHHHHT------TCTTHH--HHHHHHHHHHHHHHHHHHHHHCTTTTTTCCCCCEEEEEET--TTTEEE
T ss_pred             eehhhHHHHHHHHHHhcc------CCchHH--HHHHHHHHHHHHHhhhhhhccCchhccCCCceEEEEEEcC--CceEEE
Confidence            489999999999998887      666654  99999999999651             1244666665543  456899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc--------------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS--------------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~--------------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||+.++|.+.| .+|+|.+.              .....||+||+||++++| +|.+|+|+||+.+
T Consensus        79 I~DnGiGMt~edl~~~l~tia~Sgtk~F~~kl~~~~~~~~~d~~~IG~fGvGfySaf~-va~~v~V~Sk~~~  149 (269)
T 1qy5_A           79 VTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFL-VADKVIVTSKHNN  149 (269)
T ss_dssp             EEECSCCCCHHHHHHHHHSCCSHHHHHHHHHHHHHHHHTCCCHHHHHHTTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EEECCCCCCHHHHHHHhhhhcccccHHHHHhhhhcccccccchhhcCCccccHHHHhh-ccceEEEEEEecC
Confidence            99999999999997754 67777321              233579999999998866 9999999999865

>3t0h_A Heat shock protein HSP 90-alpha; chaperone, ATPase; 1.20A {Homo sapiens} SCOP: d.122.1.1 PDB: 3r4m_A 3t0z_A* 3t10_A* 3t1k_A* 3t2s_A* 1uyl_A 1uy7_A* 1uy8_A* 1uy9_A* 1uyc_A* 1uyd_A* 1uye_A* 1uyf_A* 1uyg_A* 1uyh_A* 1uyk_A* 1uy6_A 2cdd_A* 2uwd_A* 2vci_A* ...

Probab=99.55  E-value=7.4e-16  Score=157.86  Aligned_cols=113  Identities=22%  Similarity=0.361  Sum_probs=88.5

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.+|..+-+|.-|      ++.+.|  |+|||+||+||.++             ....+.|.+..+.  +...|.
T Consensus        13 ~Fq~ei~~ll~ll~~~lY------s~~~~~--lrELi~NA~DA~~k~r~~~~~~~~~~~~~~~i~I~I~~d~--~~~~i~   82 (228)
T 3t0h_A           13 AFQAEIAQLMSLIINTFY------SNKEIF--LRELISNSSDALDKIRYESLTDPSKLDSGKELHINLIPNK--QDRTLT   82 (228)
T ss_dssp             ECCHHHHHHHHHHHHSCC------SCTTHH--HHHHHHHHHHHHHHHHHHHTTCGGGGTTCCCCCEEEEEET--TTTEEE
T ss_pred             EEEeeHHHHHHHHHHhhc------CCcHHH--HHHHHHCHHHHHHHHHhhhccCcccccCCCceEEEEEEeC--CeeEEE
Confidence            488888899988888888      556654  99999999999652             0124667665443  567899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||.||++++|..+| ++++|.+.         .....||+||+||++++| +|.+|+|.||+.+
T Consensus        83 V~DnG~GMs~edl~~~l~~ia~S~~~~f~~~l~~~~~~~~iG~fG~G~~S~~~-vad~v~V~Sr~~~  148 (228)
T 3t0h_A           83 IVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYL-VAEKVTVITKHND  148 (228)
T ss_dssp             EEECSCCCCHHHHHTGGGSCHHHHHHHHHHHHHTTCCGGGGGGGTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EEeCCCCCCHHHHHHHHHhhccccchhhhhhhcccCCcccCCCCChhHHHHhc-cCCEEEEEEecCC
Confidence            99999999999998755 57776542         234689999999998866 9999999999864

>3o0i_A HSP90AA1 protein; HSP90 heat-shock proteins, chaperone-inhibitor complex; HET: P54; 1.47A {Homo sapiens} PDB: 2fwz_A* 2fwy_A* 2h55_A*

Probab=99.53  E-value=8.4e-16  Score=160.10  Aligned_cols=113  Identities=22%  Similarity=0.361  Sum_probs=89.8

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.+|..+-++.-|      ++++.|  |+|||+||+||.++             ....+.|.+..+.  +...|.
T Consensus        41 ~Fqaei~~Ll~ll~~~lY------s~~~if--lRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~I~~d~--~~~~I~  110 (256)
T 3o0i_A           41 AFQAEIAQLMSLIINTFY------SNKEIF--LRELISNSSDALDKIRYESLTDPSKLDSGKELHINLIPNK--QDRTLT  110 (256)
T ss_dssp             ECCHHHHHHHHHHHHSCC------SCTTHH--HHHHHHHHHHHHHHHHHHHHHCGGGGTTCCCCCEEEEEET--TTTEEE
T ss_pred             EeEeeHHHHHHHHHHhcc------CCcHHH--HHHHHhChHHHHHHHHHHhccCchhccCCCceEEEEEEcC--CceEEE
Confidence            589999999999998888      666765  99999999999653             1124677776553  567899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||++++|..+| ++++|.+.         .....||+||+||++++| +|.+|+|.||+.+
T Consensus       111 I~DnG~GMt~edl~~~l~~ia~S~~~~f~~~L~~~~~~~~iG~fG~Gf~S~f~-Vadkv~V~Sr~~~  176 (256)
T 3o0i_A          111 IVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYL-VAEKVTVITKHND  176 (256)
T ss_dssp             EEECSCCCCHHHHHTHHHHHHHHHHHHHHHHHHTTCCGGGGGGGTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EecCCCCcCHHHHHHHHHhhccccccchhhhhcccCCccccCCCcchHHHhhc-cCCeEEEEEcCCC
Confidence            99999999999998755 56666442         234689999999998866 9999999999864

>2gqp_A Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, ligand, NECA, NPCA, adenosine; HET: PA7 PG4 1PE; 1.50A {Canis lupus familiaris} SCOP: d.122.1.1 PDB: 1tc0_A* 1tbw_A* 1u0z_A* 1u2o_A* 1ysz_A* 1yt0_A* 1yt1_A* 2exl_A* 2fyp_A* 2gfd_A* 1tc6_A* 2h8m_A* 2hch_A* 2hg1_A* 3o2f_A* 2esa_A*

Probab=99.52  E-value=1.2e-15  Score=156.41  Aligned_cols=113  Identities=21%  Similarity=0.360  Sum_probs=81.0

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++..+.++-++.-|      ++.+  .+|+|||+||+||.++             .+..+.|.+..+.  +...|.
T Consensus        13 ~F~~ei~~L~~ll~~~ly------s~~~--~~lrELI~NA~DA~ak~~~~~~~~~~~~~~~~~~~I~i~~d~--~~~~i~   82 (236)
T 2gqp_A           13 AFQAEVNRMMKLIINSLY------KNKE--IFLRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDK--EKNLLH   82 (236)
T ss_dssp             CCCHHHHHHHHHHHHHTT------TCTT--HHHHHHHHHHHHHHHHHHHHHHHCTTTTTTCCCCCEEEEEET--TTTEEE
T ss_pred             chhHhHHHHHHHHHHhhc------CCch--HHHHHHHHhHHHhhhhhhhhcccCcccccCCCceEEEEEEcC--CCCEEE
Confidence            488888888888887766      4444  6699999999999641             1233566665443  346899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc--------------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS--------------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~--------------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||++++|..+| .+|+|.+.              .....||+||+||++++| +|.+|+|+||+.+
T Consensus        83 I~DnG~GMt~edl~~~l~~ia~Sg~~~f~~kl~~~~~~~~~d~~~iG~fGiG~~S~f~-va~~v~V~Sr~~~  153 (236)
T 2gqp_A           83 VTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFL-VADKVIVTSKHNN  153 (236)
T ss_dssp             EEECSCCCCHHHHHHHHHCC---------------------CHHHHHHTTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EEECCcCCCHHHHHHHHhhhcccccHhHHHHhhccccccccchhhcCCCCcchhhHhh-cCCEEEEEEeCCC
Confidence            99999999999997754 68887542              122479999999997655 8999999999864

>2wer_A ATP-dependent molecular chaperone HSP82; ATPase, ATP-binding, phosphoprotein, stress respo nucleotide-binding; HET: RDC; 1.60A {Saccharomyces cerevisiae} PDB: 2weq_A* 2wep_A* 1zwh_A* 1zw9_A* 2fxs_A* 3c11_A* 3c0e_A* 2yge_A* 2ygf_A* 2akp_A

Probab=99.51  E-value=2.5e-15  Score=151.82  Aligned_cols=112  Identities=20%  Similarity=0.264  Sum_probs=82.7

Q ss_pred             ccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEEE
Q 003366          126 WEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLLI  192 (826)
Q Consensus       126 ~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~I  192 (826)
                      ||+++..+.++-++.-|      +..+  .||+|||+||+||.+.             ....+.|.+..+.  +...|.|
T Consensus         8 f~~~~~~l~~ll~~~ly------s~~~--~~lrELI~NA~DA~a~~~~~~~~~~~~~~~~~~i~I~i~~~~--~~~~i~I   77 (220)
T 2wer_A            8 FQAEITQLMSLIINTVY------SNKE--IFLREIVSNASDALDKIRYKSLSDPKQLETEPDLFIRITPKP--EQKVLEI   77 (220)
T ss_dssp             CCHHHHHHHHHHHHHCC------SSTT--HHHHHHHHHHHHHHHHHHHHHTTCGGGGGGCCCCCEEEEEEG--GGTEEEE
T ss_pred             eeecHHHHHHHHHHhcc------CCch--HHHHHHHHhHHHHHHHHHhhcccCchhccCCCcEEEEEEECC--CCCEEEE
Confidence            66666666666666555      3344  5799999999999652             1245566665443  4568999


Q ss_pred             EECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          193 EDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       193 ~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .|||+||++++|..++ .+|+|.+.         .....||+||+||+++ +.++++|.|+||+.+
T Consensus        78 ~DnG~GMs~edl~~~l~~ia~S~~~~f~~k~~~~~~~~~iG~fGiG~~s~-~~~~~~v~v~S~~~~  142 (220)
T 2wer_A           78 RDSGIGMTKAELINNLGTIAKSGTKAFMEALSAGADVSMIGQFGVGFYSL-FLVADRVQVISKSND  142 (220)
T ss_dssp             EECSCCCCHHHHHHHTTTSCCTTHHHHHHHHTTTCCGGGGGGGTCGGGGG-GGTEEEEEEEEECTT
T ss_pred             EEcCCCCCHHHHHHHHHhHhcccchhHHHHhhccCCcccCCccchhHHHh-hhcCCeeEEEEecCC
Confidence            9999999999998754 68877532         1346899999999876 459999999999865

>2cg9_A ATP-dependent molecular chaperone HSP82; chaperone complex, HSP90, heat shock protein, ATP-binding, heat shock, nucleotide-binding, acetylation; HET: ATP; 3.1A {Saccharomyces cerevisiae}

Probab=99.51  E-value=7.9e-15  Score=169.77  Aligned_cols=113  Identities=20%  Similarity=0.293  Sum_probs=89.7

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.++.++-+|.-|      +++.+|  |+|||.||+||.++             .+..+.|.+..+.  +...|+
T Consensus         7 ~Fqae~~~Ll~li~~sLY------snkeif--LRELIsNA~DA~~k~r~~~ltd~~~~~~~~~~~I~I~~d~--~~~~I~   76 (677)
T 2cg9_A            7 EFQAEITQLMSLIINTVY------SNKEIF--LRELISNASDALDKIRYKSLSDPKQLETEPDLFIRITPKP--EQKVLE   76 (677)
T ss_dssp             ECCCCHHHHHHHHHHSCC------SCTTHH--HHHHHHHHHHHHHHHHHHTSSCTTTTTTCCCCCEEEEEEG--GGTEEE
T ss_pred             ehhhhHHHHHHHHHHhCC------CCchHH--HHHHhhCHHHHHHHHHHHhccChhhccCCCCcEEEEEEeC--CCCEEE
Confidence            499999999999999888      677766  99999999999741             2334566665543  346899


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||+||+.++|.++| ++++|.+.         .+...||+||+||++|+| ++.+|+|.||+.+
T Consensus        77 I~DnGiGMt~edl~~~l~tIA~Sgt~~f~~kl~~~~d~~~IGqFGvGFySaf~-vadkV~V~Sk~~~  142 (677)
T 2cg9_A           77 IRDSGIGMTKAELINNLGTIAKSGTKAFMEALSAGADVSMIGQFGVGFYSLFL-VADRVQVISKSND  142 (677)
T ss_dssp             EEECSCCCCHHHHHGGGSSSSSCTTHHHHSCCCSSCCCCCCCCTTCTTGGGGG-TEEEEEEEEECTT
T ss_pred             EEECCCCCCHHHHHHHHHhHhccccHHHHHhhhcccchhhcCCCCchhHHHhh-cCcEEEEEEccCC
Confidence            99999999999998865 56776431         123689999999998755 9999999999876

>1yc1_A HSP 86, heat shock protein HSP 90-alpha; cell-cycle, cancer, drug design, cell cycle; HET: 4BC; 1.70A {Homo sapiens} SCOP: d.122.1.1 PDB: 1yc3_A* 1yc4_A*

Probab=99.50  E-value=2.4e-15  Score=157.00  Aligned_cols=135  Identities=19%  Similarity=0.241  Sum_probs=83.5

Q ss_pred             cccchhhhhhhcccCCCCCC---CCCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC---------
Q 003366          103 SVGLQSCKQFWKAGDYEGAP---SGGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN---------  170 (826)
Q Consensus       103 ~~~~~~~~~fwkag~y~~~~---~~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~---------  170 (826)
                      ++....-|++|.++.=....   .-.|+++...+..+-++.-|        ..|..||+|||+||+||.++         
T Consensus        24 ~~~~~~~~~~~~~~~~~~~~~~e~~~F~~ei~~Ll~ll~~~ly--------s~~~~~lrELI~NA~DA~ak~r~~~l~~~   95 (264)
T 1yc1_A           24 DLYDDDDKDRWGSDQPMEEEEVETFAFQAEIAQLMSLIINTFY--------SNKEIFLRELISNSSDALDKIRYETLTDP   95 (264)
T ss_dssp             -------------------CCEEEEECCHHHHHHHHHHHHCCC--------SCTTHHHHHHHHHHHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHHhhcCCCccccccceeEEehHHHHHHHHHHHHhcc--------CCHHHHHHHHHHHHHHHhhhhhhhhccCc
Confidence            34455667899887543211   11255555555555554433        24456799999999999641         


Q ss_pred             ----CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhh-ccccccccc---------cCCcccCcccCccccccccc
Q 003366          171 ----GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHC-MSLGYSAKS---------KAANTIGQYGNGFKTSTMRL  236 (826)
Q Consensus       171 ----gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~-LsfG~SsK~---------~~~~~IGrfG~GfKsAsmrL  236 (826)
                          ..+.+.|.+..+.  +...|.|.|||+||++++|..+ ..+|+|.+.         .....||+||+||+++++ +
T Consensus        96 ~~~~~~~~i~I~i~~d~--~~~~I~I~DnG~GMs~edL~~~l~~ia~S~~~~f~~~l~~~~d~~~iG~fGiGf~S~f~-v  172 (264)
T 1yc1_A           96 SKLDSGKELHINLIPNK--QDRTLTIVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYL-V  172 (264)
T ss_dssp             GGGGGCCCCCEEEEEET--TTTEEEEEECSCCCCHHHHHHHHHSCTTSCHHHHHHHHHTTCCGGGGGGGTCGGGGHHH-H
T ss_pred             cccCCCCeEEEEEEECC--CeeEEEEEECCcCCCHHHHHHHHHhhccccchhhhhhhccccchhhcCCCCCCcccccc-C
Confidence                1256777776543  4568999999999999999764 568877643         134689999999998766 9


Q ss_pred             CCeEEEEeeecC
Q 003366          237 GADVIVFSCCCG  248 (826)
Q Consensus       237 G~~v~V~SK~~g  248 (826)
                      |++|+|+||+.+
T Consensus       173 a~~v~V~Sr~~~  184 (264)
T 1yc1_A          173 AEKVTVITKHND  184 (264)
T ss_dssp             EEEEEEEEECTT
T ss_pred             CCEEEEEEecCC
Confidence            999999999865

>2o1u_A Endoplasmin; GRP94, HSP82, HSP90, HTPG, chaperone, AMP-PNP, GP96; HET: ANP; 2.40A {Canis lupus familiaris} PDB: 2o1v_A* 2o1w_A 2o1t_A

Probab=99.48  E-value=1.9e-14  Score=166.37  Aligned_cols=114  Identities=21%  Similarity=0.365  Sum_probs=71.5

Q ss_pred             CCccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEE
Q 003366          124 GGWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRML  190 (826)
Q Consensus       124 ~~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L  190 (826)
                      ..||+++.++.++-+|.-|      ++.+.|  |+|||.||+||.++             .|..+.|.+..+.  +...|
T Consensus        25 ~~Fqaei~~Ll~li~~sLY------sn~eif--LRELIsNA~DA~dk~r~~~l~~~~~~~~a~~~~I~I~~d~--~~~~I   94 (666)
T 2o1u_A           25 FAFQAEVNRMMKLIINSLY------KNKEIF--LRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDK--EKNLL   94 (666)
T ss_dssp             ---------CCSSSTTTTS------SSCTTH--HHHHHHHHHHHHHHHHHHTTSCTTSSSSCCCCCEEEEEET--TTTEE
T ss_pred             eehHHhHHHHHHHHHHhcc------CCchHH--HHHHHhhHHHHHHHHHHHhccCchhccCCCccEEEEEEeC--CCCEE
Confidence            3599999999999999988      666655  99999999999631             1555666665554  34689


Q ss_pred             EEEECCCCCCHHHHhhhc-cccccccc--------------cCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          191 LIEDNGGGMNPDKMRHCM-SLGYSAKS--------------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       191 ~I~DNG~GMs~eeL~~~L-sfG~SsK~--------------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      +|.|||+||+.++|..+| ++++|.+.              .....||+||+||++++| +|.+|+|.||+.+
T Consensus        95 ~I~DnGiGMt~edl~~~l~tIA~SGtk~f~~kl~~~~~~~~~d~~~IGqFGvGfySaf~-vAdkV~V~Sr~~~  166 (666)
T 2o1u_A           95 HVTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFL-VADKVIVTSKHNN  166 (666)
T ss_dssp             EEEECSCCCCHHHHHHHTTC-------------------------------CTTGGGGG-TEEEEEEEEECTT
T ss_pred             EEEECCCCCCHHHHHHHHhhhcccccHHHHHHhhhcccccccchhhccCCCcHHHhHHH-hcCEEEEEEeeCC
Confidence            999999999999998855 56766332              123579999999998755 9999999999875

>2ior_A Chaperone protein HTPG; heat shock protein, HSP90; HET: ADP; 1.65A {Escherichia coli}

Probab=99.45  E-value=8.7e-15  Score=149.75  Aligned_cols=94  Identities=26%  Similarity=0.360  Sum_probs=72.2

Q ss_pred             cHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh-hcccccccccc
Q 003366          152 WALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH-CMSLGYSAKSK  217 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~-~LsfG~SsK~~  217 (826)
                      .|..||+|||+||+||.++             .|+.+.|.+..+.  +...|.|.|||+||++++|.. ++.+|+|.+..
T Consensus        47 ~~~~~lrELI~NA~DA~~~~r~~~~~~~~~~~~~~~~~I~i~~~~--~~~~i~I~DnG~GMs~edl~~~~~~ia~S~~~~  124 (235)
T 2ior_A           47 NKEIFLRELISNASDAADKLRFRALSNPDLYEGDGELRVRVSFDK--DKRTLTISDNGVGMTRDEVIDHLGTIAKSGTKS  124 (235)
T ss_dssp             GTTHHHHHHHHHHHHHHHHHHHHHTSCGGGGTTCCCCCEEEEEET--TTTEEEEEECSSCCCHHHHHHHHTTCCCTTHHH
T ss_pred             CHHHHHHHHHhCHHHHHHHHHhhhccCccccCCCceEEEEEEEcC--CceEEEEEECCCCCCHHHHHHHHHHHccccccc
Confidence            4557899999999999631             2555666665443  335799999999999999987 45788875421


Q ss_pred             -----------CCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          218 -----------AANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       218 -----------~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                                 ....+|+||+||+++ +.+|++|+|+||+.+
T Consensus       125 f~~~l~~~~~~~~~~iG~fGiG~~S~-~~~~~~v~V~Sr~~~  165 (235)
T 2ior_A          125 FLESLGSDQAKDSQLIGQFGVGFYSA-FIVADKVTVRTRAAG  165 (235)
T ss_dssp             HHHHCCSCHHHHHHHHTTCCCCGGGG-GGTEEEEEEEEECTT
T ss_pred             hhhhhccccccccccCCCCChhHHHH-HhCcCeEEEEEecCC
Confidence                       235799999999976 569999999999865

>1b63_A MUTL; DNA mismatch repair, ATPase; HET: ANP; 1.90A {Escherichia coli K12} SCOP: d.14.1.3 d.122.1.2 PDB: 1nhh_A* 1nhi_A* 1bkn_A 1nhj_A* 1b62_A*

Probab=99.12  E-value=5.6e-11  Score=127.11  Aligned_cols=89  Identities=26%  Similarity=0.411  Sum_probs=70.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-ccccccccC------CcccC
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKA------ANTIG  223 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~------~~~IG  223 (826)
                      ..|..||+|||+||+||   +|+.|.|.+..   ++...|.|.|||.||+++++..++. |+++ |...      ...+|
T Consensus        23 ~~~~~~v~ELi~NaidA---~a~~I~I~i~~---~~~~~i~V~DnG~Gi~~~~l~~~~~~~~ts-K~~~~~d~~~~~~~G   95 (333)
T 1b63_A           23 ERPASVVKELVENSLDA---GATRIDIDIER---GGAKLIRIRDNGCGIKKDELALALARHATS-KIASLDDLEAIISLG   95 (333)
T ss_dssp             SSHHHHHHHHHHHHHHT---TCSEEEEEEEG---GGTSEEEEEECSCCCCGGGHHHHHSTTCCS-SCCSHHHHHTCCSSC
T ss_pred             hCHHHHHHHHHHHHHHC---CCCeEEEEEEe---CCceEEEEEEcCCCcCHHHHHHhhhccccc-CccccchhhhccccC
Confidence            67889999999999999   78988888853   3446899999999999999999764 5544 5322      24789


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .+|+||.+.+ .++ +++|.||+.+
T Consensus        96 ~~G~gl~si~-~vs-~l~v~s~~~~  118 (333)
T 1b63_A           96 FRGEALASIS-SVS-RLTLTSRTAE  118 (333)
T ss_dssp             CSSCHHHHHH-TTS-EEEEEEECTT
T ss_pred             ccccchhhhh-cCC-cEEEEEecCC
Confidence            9999986543 355 8999999875

>3na3_A DNA mismatch repair protein MLH1; MUTL protein homolog 1, DNA damag repair, structural genomics consortium, SGC, protein bindin; HET: DNA ATP; 2.50A {Homo sapiens}

Probab=99.01  E-value=2.6e-10  Score=123.47  Aligned_cols=90  Identities=19%  Similarity=0.308  Sum_probs=71.3

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC------CcccCc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA------ANTIGQ  224 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~------~~~IGr  224 (826)
                      ..|.+||.|||+||+||   +|+.|.|.+..   ++...|.|.|||.||+++++..++..++.+|...      ..+.|.
T Consensus        27 ~~~~~vv~eLv~NAidA---~a~~I~I~i~~---~~~~~I~V~DnG~GI~~~~l~~~~~~~~tsK~~~~~dl~~i~s~Gf  100 (348)
T 3na3_A           27 QRPANAIKEMIENCLDA---KSTSIQVIVKE---GGLKLIQIQDNGTGIRKEDLDIVCERFTTSKLQSFEDLASISTYGF  100 (348)
T ss_dssp             CSHHHHHHHHHHHHHHT---TCSEEEEEEEG---GGTSEEEEEECSCCCCGGGGGTTTSTTCCSSCCCC---------CC
T ss_pred             cCHHHHHHHHHHHHHHc---CCCEEEEEEEe---CCEEEEEEEECCcCcChHHhhhhhccccccccCcchhhhccccCCc
Confidence            67889999999999999   89989988842   3456799999999999999999877666666533      146899


Q ss_pred             ccCcccccccccCCeEEEEeeecC
Q 003366          225 YGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       225 fG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      +|.||.+.+ .++ +++|.||+.+
T Consensus       101 rGeaL~Si~-avs-~l~v~sr~~~  122 (348)
T 3na3_A          101 RGEALASIS-HVA-HVTITTKTAD  122 (348)
T ss_dssp             TTCHHHHHH-HSS-EEEEEEECTT
T ss_pred             CChHHHHhh-ccc-EEEEEEEECC
Confidence            999986444 466 8999999876

>3h4l_A DNA mismatch repair protein PMS1; ATP binding, DNA repair, DNA damage, nucleus, phosphop DNA binding protein, protein binding; HET: DNA ANP; 2.50A {Saccharomyces cerevisiae}

Probab=99.00  E-value=1.9e-10  Score=125.27  Aligned_cols=90  Identities=23%  Similarity=0.296  Sum_probs=69.7

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC------CcccCc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA------ANTIGQ  224 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~------~~~IGr  224 (826)
                      ..|.+||.|||+||+||   +|+.|.|.+..   ++...|.|.|||.||+++++..++..++++|...      -.+.|.
T Consensus        24 ~~~~~vv~eLv~NaiDA---~a~~I~I~i~~---~~~~~i~V~DnG~Gi~~~~l~~~~~~~~tsK~~~~~Dl~~i~t~Gf   97 (367)
T 3h4l_A           24 TDLTTAVKELVDNSIDA---NANQIEIIFKD---YGLESIECSDNGDGIDPSNYEFLALKHYTSKIAKFQDVAKVQTLGF   97 (367)
T ss_dssp             CSHHHHHHHHHHHHHHT---TCSEEEEEEET---TTTSEEEEEECSCCCCGGGTTTTTCCEEC---------CCCCEEEE
T ss_pred             cCHHHHHHHHHHHHHHC---CCCEEEEEEEe---CCEEEEEEEECCCCcChhHhccceeccccCcCCchhhhhhhhccCc
Confidence            67889999999999999   89988888742   4567899999999999999998876566556432      135688


Q ss_pred             ccCcccccccccCCeEEEEeeecC
Q 003366          225 YGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       225 fG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .|.||.+.+ .++ +|+|.||+.+
T Consensus        98 rGeaL~Si~-avS-~l~V~sr~~~  119 (367)
T 3h4l_A           98 RGEALSSLC-GIA-KLSVITTTSP  119 (367)
T ss_dssp             TTHHHHHHH-HSS-EEEEEEESST
T ss_pred             cchHHHHhh-ccC-EEEEEEEECC
Confidence            899986544 466 7999999865

>1h7s_A PMS1 protein homolog 2; DNA repair, GHL ATPase, mismatch repair, HNPCC; 1.95A {Homo sapiens} SCOP: d.14.1.3 d.122.1.2 PDB: 1h7u_A* 1ea6_A*

Probab=98.96  E-value=3.7e-10  Score=122.55  Aligned_cols=89  Identities=27%  Similarity=0.375  Sum_probs=66.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-ccccccccC------CcccC
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKA------ANTIG  223 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~------~~~IG  223 (826)
                      ..|..||.|||+||+||   +|+.|.|.+..   ++...|.|.|||.||+++++..++. |.++ |...      ...+|
T Consensus        33 ~~~~~vl~eLv~NAiDA---~a~~I~I~i~~---~~~~~I~V~DnG~Gi~~~~l~~~f~~~~ts-K~~~~~dl~~i~s~G  105 (365)
T 1h7s_A           33 LSLSTAVKELVENSLDA---GATNIDLKLKD---YGVDLIEVSDNGCGVEEENFEGLTLKHHTS-KIQEFADLTQVETFG  105 (365)
T ss_dssp             CCHHHHHHHHHHHHHHT---TCSEEEEEEEG---GGTSEEEEEECSCCCCGGGSGGGGC-----------CCTTCSEEES
T ss_pred             hhHHHHHHHHHHHHHHC---CCCEEEEEEEe---CCcEEEEEEECCCCcCHHHHHHHhhhcccc-ccccccchhcccccC
Confidence            67889999999999999   88988888853   2456899999999999999998665 4443 4322      13479


Q ss_pred             cccCcccccccccCCeEEEEeeecC
Q 003366          224 QYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       224 rfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .+|+||.+.+ .++ +++|.||+.+
T Consensus       106 ~rG~gl~si~-~vs-~v~v~t~~~~  128 (365)
T 1h7s_A          106 FRGEALSSLC-ALS-DVTISTCHAS  128 (365)
T ss_dssp             SSSSHHHHHH-HHS-EEEEEEECTT
T ss_pred             CCCchhhhhh-hhc-cEEEEEccCC
Confidence            9999986544 366 9999999875

>3fv5_A DNA topoisomerase 4 subunit B; topoisomerase IV B subunit complex, antibiotic resistance, ATP-binding, nucleotide-binding; HET: DNA 1EU; 1.80A {Escherichia coli} PDB: 1s14_A*

Probab=98.78  E-value=3.5e-09  Score=106.36  Aligned_cols=107  Identities=26%  Similarity=0.261  Sum_probs=63.8

Q ss_pred             CccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHH------
Q 003366          132 GMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKM------  204 (826)
Q Consensus       132 ~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL------  204 (826)
                      ++.++|.-|-..--.    +.|..+|.|||+||+||...+ |+.|.|.+.  . ++  .|.|.|||.||+.+++      
T Consensus         1 gle~vr~rpgmyig~----~~~~~~v~Elv~NsiDa~~~g~a~~I~V~i~--~-~g--~i~V~DnG~GIp~~~~~~~~~~   71 (201)
T 3fv5_A            1 GLEPVRRRPGMYTDT----TRPNHLGQEVIDNSVDEALAGHAKRVDVILH--A-DQ--SLEVIDDGRGMPVDIHPEEGVP   71 (201)
T ss_dssp             CCHHHHHCGGGTSCT----TSTHHHHHHHHHHHHHHHHTTCCSEEEEEEC--T-TS--CEEEEECSSCCCCSBCTTCSSB
T ss_pred             CchhhccCCccEECC----CChhhhhHHHHHHHHHHHhcCCCcEEEEEEe--C-CC--EEEEEECCCCcCcccccccCcc
Confidence            355666666543321    123678999999999998776 898888873  2 23  7999999999999984      


Q ss_pred             --hh-hccccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          205 --RH-CMSLGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       205 --~~-~LsfG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                        .- +..+-..+|...   ..+.|..|.|+++.. .++..++|.|++.+
T Consensus        72 ~~e~i~~~~hatsK~~~~~~~~s~GfrGeglssin-alS~~l~v~t~~~g  120 (201)
T 3fv5_A           72 AVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVN-ALSKRVEVNVRRDG  120 (201)
T ss_dssp             HHHHHHHCC---------------------CHHHH-HTEEEEEEEEEETT
T ss_pred             hhheeeeeeccccCcCCCcccccCcccceecchhh-cccceEEEEEEecC
Confidence              22 223444455432   246899999997544 48889999999765

>1ei1_A DNA gyrase B, GYRB; ATPase domain, dimer, isomerase; HET: DNA ANP; 2.30A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2

Probab=98.47  E-value=1.1e-07  Score=104.23  Aligned_cols=112  Identities=21%  Similarity=0.255  Sum_probs=81.9

Q ss_pred             CCCccccccCchhhcccccccc-cHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHH---
Q 003366          130 TGGMDHVRVHPKFLHSNATSHK-WALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKM---  204 (826)
Q Consensus       130 ~~~l~~~~v~p~fLhSNSTSH~-wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL---  204 (826)
                      -.++.|++.-|... --||... -|...|.||||||+||...+ |+.|.|.+..   ++  .|.|.|||.||+.++.   
T Consensus        12 L~gle~vrkRPgmY-iGst~~~~gl~~lv~ElvdNsiDea~~g~a~~I~V~i~~---~g--~I~V~DnG~GIp~~~~~~~   85 (391)
T 1ei1_A           12 LKGLDAVRKRPGMY-IGDTDDGTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHA---DN--SVSVQDDGRGIPTGIHPEE   85 (391)
T ss_dssp             CCTTHHHHHCTHHH-HCCSSSSHHHHHHHHHHHHHHHHHHHTTCCCEEEEEECT---TS--CEEEEECSSCCCCSBCTTT
T ss_pred             CchhHHHHcCCCeE-ECCCCCCcCHHHHHHHHHHhHHHHHhcCCCCEEEEEEeC---CC--EEEEEECCCCcccCccccc
Confidence            36889999988753 2233333 77889999999999997766 8888888742   23  8999999999999873   


Q ss_pred             -----hhhcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          205 -----RHCMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       205 -----~~~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                           .-+|. +...+|...   ..+.|..|+|+++.. .++..++|.|++.|
T Consensus        86 ~~~~~elv~~~lhagsKf~~~~~~vSgGl~GvGls~vn-alS~~l~v~~~r~g  137 (391)
T 1ei1_A           86 GVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVN-ALSQKLELVIQREG  137 (391)
T ss_dssp             SSBHHHHHHHSTTEESCSSSSSCSSCSCCSSCHHHHHH-HTEEEEEEEEEETT
T ss_pred             CcchHHHhheeccccCCcCCCcccccCCccccchHHHH-HhcCeEEEEEEeCC
Confidence                 22443 445555432   347899999987544 48888999998754

>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3 d.122.1.2

Probab=98.37  E-value=2.9e-07  Score=100.96  Aligned_cols=107  Identities=26%  Similarity=0.287  Sum_probs=78.3

Q ss_pred             CCccccccCchhh-cccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHH-----
Q 003366          131 GGMDHVRVHPKFL-HSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK-----  203 (826)
Q Consensus       131 ~~l~~~~v~p~fL-hSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~ee-----  203 (826)
                      .++.|++.-|... -+...     ..+|.||||||+||...+ |+.|.|.+..   ++  .|.|.|||.||+.++     
T Consensus        14 ~gle~vr~RPgmYiGs~~~-----~~lv~ElvdNsiD~a~~g~a~~I~V~i~~---~g--~I~V~DnG~GIp~~~~~~~~   83 (390)
T 1s16_A           14 TGLEPVRRRPGMYTDTTRP-----NHLGQEVIDNSVDEALAGHAKRVDVILHA---DQ--SLEVIDDGRGMPVDIHPEEG   83 (390)
T ss_dssp             CTTHHHHHCGGGTSCTTST-----HHHHHHHHHHHHHHHHTTCCSEEEEEECT---TS--CEEEEECSSCCCCSBCTTTC
T ss_pred             chhHHHhhCCceeecCCcH-----HHHHHHHHHHHHHHHhcCCCCEEEEEEec---CC--EEEEEECCCCcCcccccccC
Confidence            5788999988754 44433     367999999999987655 8888888732   23  799999999999888     


Q ss_pred             ---Hhhhcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          204 ---MRHCMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       204 ---L~~~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                         +..+|. |-..+|...   ..+.|..|+|+++.. .++..++|.|++.|
T Consensus        84 ~~~~e~v~~~lhagsKf~~~~~~~sgGl~GvGls~vn-alS~~l~v~~~r~g  134 (390)
T 1s16_A           84 VPAVELILCRLHAGGKFSNKNYQFSGGLHGVGISVVN-ALSKRVEVNVRRDG  134 (390)
T ss_dssp             SBHHHHHHHCTTEESCSSSSSCSSCSCCSSCHHHHHH-HTEEEEEEEEEETT
T ss_pred             cchhhheeeeecccCCcCCCcccccCCccccchHHHH-HhhcccEEEEEECC
Confidence               444443 444555322   347899999987544 48889999999754

>4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial, DNA gyrase B, GY isomerase-isomerase inhibitor complex; HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A* 1kzn_A* 3g7e_A*

Probab=98.35  E-value=2.6e-07  Score=94.41  Aligned_cols=112  Identities=21%  Similarity=0.236  Sum_probs=73.5

Q ss_pred             CCCccccccCchhh-cccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHh--
Q 003366          130 TGGMDHVRVHPKFL-HSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMR--  205 (826)
Q Consensus       130 ~~~l~~~~v~p~fL-hSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~--  205 (826)
                      -.++.+++..|... -+... ..-|..+|.||||||+|+...+ |+.|.|.+..   +  ..|.|.|||.||+.+...  
T Consensus        13 l~~le~vr~rPgmYiG~~~~-~~gl~~lv~ElvdNsiDea~~g~~~~I~V~i~~---~--g~i~V~DnGrGIp~~~~~~~   86 (220)
T 4duh_A           13 LKGLDAVRKRPGMYIGDTDD-GTGLHHMVFEVVDNAIDEALAGHCKEIIVTIHA---D--NSVSVQDDGRGIPTGIHPEE   86 (220)
T ss_dssp             --CHHHHHHSTHHHHCCSSS-SHHHHHHHHHHHHHHHHHHHHSCCCEEEEEECT---T--SCEEEEECSSCCCCSEETTT
T ss_pred             echhHHHHhCCceEECCCCC-cccHHHHHHHHHHHHHHHHhcCCCCEEEEEEeC---C--CcEEEEECCcCccccccccc
Confidence            36888999999764 23221 2578889999999999996554 7888887732   2  379999999999998642  


Q ss_pred             ------hhc-cccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          206 ------HCM-SLGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       206 ------~~L-sfG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                            -+| .+-..+|...   ..+.|..|+|++... .|+..++|.+++.|
T Consensus        87 ~~~~~e~i~t~lhag~Kfd~~~yk~SgGlhGvG~svvN-AlS~~l~v~v~r~g  138 (220)
T 4duh_A           87 GVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVN-ALSQKLELVIQREG  138 (220)
T ss_dssp             TEEHHHHHHHSTTCSSCCCTTC--------CCCHHHHH-HTEEEEEEEEEETT
T ss_pred             CcchhhheeeecccCCCcCCCccccccCccceecchhc-ccccceEEEEEECC
Confidence                  223 2333444332   357899999987544 58889999998865

>4emv_A DNA topoisomerase IV, B subunit; protein-inhibitor complex, ATP binding, structure-based drug antimicrobial, virtual screen; HET: DNA 0R9; 1.70A {Streptococcus pneumoniae GA47373} PDB: 4em7_A*

Probab=98.20  E-value=8.8e-07  Score=90.91  Aligned_cols=122  Identities=24%  Similarity=0.287  Sum_probs=75.1

Q ss_pred             ccCCCCCCCCCccccCCCccccccCchhh-cccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEE
Q 003366          115 AGDYEGAPSGGWEFSTGGMDHVRVHPKFL-HSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLI  192 (826)
Q Consensus       115 ag~y~~~~~~~~~~~~~~l~~~~v~p~fL-hSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I  192 (826)
                      +.+|+.....    .-.++.|++..|... -+  |...-+...|.||||||+|+...+ |+.|.|.+  .. +  ..|+|
T Consensus         8 ~~~y~~~~i~----~l~~le~vr~RPgmYiGs--~~~~gl~~~v~Eiv~NaiD~~~~g~~~~I~V~i--~~-~--g~i~V   76 (226)
T 4emv_A            8 INNYNDDAIQ----VLEGLDAVRKRPGMYIGS--TDGAGLHHLVWEIVDNAVDEALSGFGDRIDVTI--NK-D--GSLTV   76 (226)
T ss_dssp             ---------C----CCBCTHHHHHCHHHHHSC--SSHHHHHHHHHHHHHHHHHHHHTTCCSEEEEEE--CT-T--SCEEE
T ss_pred             hhcCChhhcE----EcchhHHHhhCCceEEcC--CCcccHHHHHHHHHHHHHHHHhcCCCcEEEEEE--eC-C--CeEEE
Confidence            4567765432    346889999999764 33  334556678999999999996543 67777776  32 2  37999


Q ss_pred             EECCCCCCHHH-------Hhhhcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          193 EDNGGGMNPDK-------MRHCMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       193 ~DNG~GMs~ee-------L~~~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      .|||.||+.+.       +.-+|. +-..+|..+   ..+.|..|+|++... .|+..++|.+++.|
T Consensus        77 ~DnG~GIp~~~h~~~~~~~e~v~t~lhag~Kfd~~~yk~SgGlhGvG~svvN-ALS~~l~v~v~r~g  142 (226)
T 4emv_A           77 QDHGRGMPTGMHAMGIPTVEVIFTILHAGGKFGQGGYKTSGGLHGVGSSVVN-ALSSWLEVEITRDG  142 (226)
T ss_dssp             EECSSCCCCSBCGGGCBHHHHHHHCBC--------------CGGGCCHHHHH-HTEEEEEEEEEETT
T ss_pred             EEcCCCccccccccCceehheeEEeecccCccCccceEeccccccccchhhh-hcccceEEEEEeCC
Confidence            99999999987       443342 444444322   357899999987544 58889999999865

>1kij_A DNA gyrase subunit B; topoisomerase, gyrase B-coumarin complex, isomerase; HET: DNA NOV; 2.30A {Thermus thermophilus} SCOP: d.14.1.3 d.122.1.2

Probab=98.11  E-value=1.6e-06  Score=95.06  Aligned_cols=112  Identities=29%  Similarity=0.309  Sum_probs=78.5

Q ss_pred             CCCccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh--
Q 003366          130 TGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH--  206 (826)
Q Consensus       130 ~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~--  206 (826)
                      -.++.+++..|...- -||...-....|.|||+||+|+...+ ++.|.|.+.  . +  ..|.|.|||.||+.+++..  
T Consensus        11 l~~le~vr~rpgmyi-Gs~~~~g~~~~v~Elv~N~iD~a~~~~~~~I~V~i~--~-~--~~i~V~DnG~GIp~~~~~~~~   84 (390)
T 1kij_A           11 LKGLEGVRHRPAMYI-GGTGVEGYHHLFKEILDNAVDEALAGYATEILVRLN--E-D--GSLTVEDNGRGIPVDLMPEEG   84 (390)
T ss_dssp             CCTTHHHHHCTHHHH-SCSSHHHHHHHHHHHHHHHHHHHHTTSCCEEEEEEC--T-T--SCEEEEECSSCCCCSEETTTT
T ss_pred             cchhHHHhcCCCcEE-ccCCcchHHHHHHHHHHHHHHHhhhCCCCEEEEEEE--c-C--CEEEEEEcCCCCCHHHhhhcc
Confidence            367889999887432 23344556678999999999996443 677777763  2 2  3899999999999999765  


Q ss_pred             ------hcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          207 ------CMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       207 ------~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                            ++. |-..+|...   ....|..|+|+..+. .++..+.|.|++.|
T Consensus        85 ~~~~e~if~~~~~~~kf~~~~~~~s~G~~G~Gls~v~-als~~~~v~t~~~g  135 (390)
T 1kij_A           85 KPAVEVIYNTLHSGGKFEQGAYKVSGGLHGVGASVVN-ALSEWTVVEVFREG  135 (390)
T ss_dssp             EEHHHHHHHSSCEESGGGGSSCCCCSCSSTTSHHHHH-HTEEEEEEEEEETT
T ss_pred             ccchhhheeeeeecccccCccccccCCCCCcceeeec-ccccceEEEEecCC
Confidence                  332 333333211   236799999997554 48888999999754

>3cwv_A DNA gyrase, B subunit, truncated; structural genomics, unknown function, B-subunit binding, isomerase, nucleotide-binding, topoisomerase; HET: DNA; 1.95A {Myxococcus xanthus}

Probab=98.09  E-value=2.3e-06  Score=93.24  Aligned_cols=106  Identities=14%  Similarity=0.059  Sum_probs=70.1

Q ss_pred             CccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccc
Q 003366          132 GMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSL  210 (826)
Q Consensus       132 ~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Lsf  210 (826)
                      .+.+++.-|-.. --||...-|..+|.||||||+||...+ |+.|.|.+..   +|  .|.|.|||.||+. |+.-  .+
T Consensus        11 ~lE~vrkRPgmY-iGs~~~~gl~~~v~ElvdNsiDe~~~g~a~~I~V~i~~---~g--~I~V~DnGrGIp~-e~v~--~l   81 (369)
T 3cwv_A           11 IVENVRKRPGMY-CGDVGEYGLHHLVYFLLDVAYEEARRGECRDVVLEVGG---DG--SIALFCTSRTVTA-ENLV--RV   81 (369)
T ss_dssp             HHHHHHHSTHHH-HSCSSHHHHHHHHHHHHHHHHHHHHTTCCSEEEEEECT---TS--CEEEEEEESSCCH-HHHH--HH
T ss_pred             HhHHHHhCCceE-EcCCCCchHHHHHHHHHhhhHhHHhhCCCCEEEEEEeC---CC--EEEEEECCCCcCH-hHee--ee
Confidence            355666666532 223444688899999999999986553 8888888742   23  7999999999999 4332  33


Q ss_pred             cccccccCC---cccCcccCcccccccccCCeEEEEeeecC
Q 003366          211 GYSAKSKAA---NTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       211 G~SsK~~~~---~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      ...+|....   +..+.-| |+++ .-.++..++|.|++.|
T Consensus        82 hagsKf~~~~~~~~y~vsG-Gls~-vnalSs~l~v~t~r~g  120 (369)
T 3cwv_A           82 ATGAGFLGRPPGDGWGWDS-MLVV-SLALSSRYQVDIWADG  120 (369)
T ss_dssp             HTTTTGGGSSCCCSTTTTS-SHHH-HHHTEEEEEEEEEETT
T ss_pred             ecCCCcCCCcccccccccC-HHHH-HHHhhceEEEEEEECC
Confidence            344444321   2333345 7643 3358889999999765

>1mu5_A Type II DNA topoisomerase VI subunit B; GHKL ATPase, helix two-turns helix; 2.00A {Sulfolobus shibatae} SCOP: a.156.1.3 d.14.1.3 d.122.1.2 PDB: 1mx0_A* 1z5b_A* 1z5a_A* 1z59_A* 1z5c_A* 2hkj_A*

Probab=98.07  E-value=3.6e-06  Score=94.34  Aligned_cols=98  Identities=21%  Similarity=0.265  Sum_probs=68.4

Q ss_pred             ccHHHHHHHHhccchhhhhCCCc--eEEEEEEEcc-CCCceEEEEEECCCCCCHHHHhhhcc-ccccccccCCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGAT--YSNIDMLINR-KDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKAANTIGQYG  226 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt--~V~Idi~~~~-~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~~~~IGrfG  226 (826)
                      ..+..+|.|||+||+||...+..  .|.|.+.... ..+...|.|.|||.||+++++..++. |...+|.......|..|
T Consensus        31 ~~L~qvl~nLv~NAida~~~gg~~p~I~I~i~~~~~~~~~~~I~V~DnG~GI~~e~l~~iF~~f~~tsk~~~~~~~gg~G  110 (471)
T 1mu5_A           31 RALYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGMYG  110 (471)
T ss_dssp             HHHHHHHHHHHHHHHHTTGGGTCCCEEEEEEEEEETTTTEEEEEEECCSCCCCGGGHHHHHHCCCCC-CCCCSCCSCSCT
T ss_pred             HHHHHHHHHHHHHHHHHhhcCCCceEEEEEEEECCCcCcEEEEEEEECCCCCCHHHHHHHhcccccccccccccCCCCce
Confidence            56778999999999999432211  6777775421 12456899999999999999998765 44555543345678899


Q ss_pred             Cccccccc---ccCCe-EEEEeeecC
Q 003366          227 NGFKTSTM---RLGAD-VIVFSCCCG  248 (826)
Q Consensus       227 ~GfKsAsm---rLG~~-v~V~SK~~g  248 (826)
                      +||..+..   ..|-. +.|.|+..+
T Consensus       111 LGL~iv~~l~~~~gG~~i~v~S~~~~  136 (471)
T 1mu5_A          111 LGVKAAVLYSQMHQDKPIEIETSPVN  136 (471)
T ss_dssp             TTHHHHHHHHHHHCCCCEEEEEECTT
T ss_pred             eeHHHHHHHHHHhCCCceeEEEecCC
Confidence            99975433   23344 999998653

>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo sapiens} PDB: 1zxn_A*

Probab=97.98  E-value=3.2e-06  Score=93.14  Aligned_cols=92  Identities=18%  Similarity=0.142  Sum_probs=65.9

Q ss_pred             ccHHHHHHHHhccchhhhh--CCCceEEEEEEEccCCCceEEEEEECCCCCCHHH--------Hhhhcc-ccccccccC-
Q 003366          151 KWALGAFAELLDNSLDEVC--NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK--------MRHCMS-LGYSAKSKA-  218 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~--~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~ee--------L~~~Ls-fG~SsK~~~-  218 (826)
                      .-+...|.||||||+||..  ..|+.|.|.+..+   + ..|.|.|||.||+.++        +.-+|. +-..+|... 
T Consensus        51 ~GL~~lv~EivdNsiDe~~~~g~~~~I~V~i~~~---~-~~I~V~DnGrGIPv~~h~~~~~~~~e~v~t~lhagsKf~~~  126 (400)
T 1zxm_A           51 PGLYKIFDEILVNAADNKQRDPKMSCIRVTIDPE---N-NLISIWNNGKGIPVVEHKVEKMYVPALIFGQLLTSSNYDDD  126 (400)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCCEEEEEEETT---T-TEEEEEEESSCCCCSEETTTTEEHHHHHHHSSSEESCCCGG
T ss_pred             chHHHHHHHHHhhHHhHHhhcCCCceEEEEEECC---C-CEEEEEECCCcccCccccccCccchhheeeeecccCCCCCC
Confidence            4566789999999999962  2378888887531   2 4899999999999886        232333 334444322 


Q ss_pred             --CcccCcccCcccccccccCCeEEEEeeec
Q 003366          219 --ANTIGQYGNGFKTSTMRLGADVIVFSCCC  247 (826)
Q Consensus       219 --~~~IGrfG~GfKsAsmrLG~~v~V~SK~~  247 (826)
                        ..+.|..|+|++... .|+..++|.+++.
T Consensus       127 ~ykvSgGlhGvGlsvVn-AlS~~l~v~v~~~  156 (400)
T 1zxm_A          127 EKKVTGGRNGYGAKLCN-IFSTKFTVETASR  156 (400)
T ss_dssp             GCCCCSCCSSCHHHHHH-HTEEEEEEEEEET
T ss_pred             cccccCCccccceeeeE-EeccceEEEEecC
Confidence              347899999987544 5888999999864

>2zbk_B Type 2 DNA topoisomerase 6 subunit B; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae}

Probab=97.98  E-value=5.9e-06  Score=93.94  Aligned_cols=98  Identities=21%  Similarity=0.265  Sum_probs=69.1

Q ss_pred             ccHHHHHHHHhccchhhhhCCCc--eEEEEEEEcc-CCCceEEEEEECCCCCCHHHHhhhcc-ccccccccCCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGAT--YSNIDMLINR-KDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSKAANTIGQYG  226 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt--~V~Idi~~~~-~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~~~~~IGrfG  226 (826)
                      ..+..+|.|||+||+||...+..  .|.|.+.... ..+...|.|.|||.||+++++..++. |.+.+|.......|..|
T Consensus        30 ~~L~qvl~NLV~NAida~~~gg~~p~I~I~i~~~~~~~~~~~I~V~DnG~GI~~e~l~~iF~~f~~tsk~~~~~~~gg~G  109 (530)
T 2zbk_B           30 RALYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGMYG  109 (530)
T ss_dssp             HHHHHHHHHHHHHHHTTTTTTTCCCCCEEEEEEEETTTTEEEEEEECCSCCCCGGGSHHHHTSCCCSCCCCCSCCSCSSS
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCCeEEEEEEEECCCcCceEEEEEEECCCCCCHHHHHHHhccccccCCcccccCCCCcc
Confidence            56778999999999999542210  6777775421 12456899999999999999998765 44555543345679999


Q ss_pred             Cccccccc---ccCCe-EEEEeeecC
Q 003366          227 NGFKTSTM---RLGAD-VIVFSCCCG  248 (826)
Q Consensus       227 ~GfKsAsm---rLG~~-v~V~SK~~g  248 (826)
                      +||..+..   ..|-. +.|.|+..+
T Consensus       110 LGLsiv~~l~~~~gG~~I~V~S~~~~  135 (530)
T 2zbk_B          110 LGVKAAVLYSQMHQDKPIEIETSPVN  135 (530)
T ss_dssp             SHHHHHHHHHHHHCCCCEEEEEECTT
T ss_pred             chHHHHHHHHHHhCCCceEEEEecCC
Confidence            99975432   23444 999998653

>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB: 3lps_A*

Probab=97.84  E-value=1.1e-05  Score=89.25  Aligned_cols=118  Identities=25%  Similarity=0.312  Sum_probs=64.8

Q ss_pred             cCCCCCCCCCccccCCCccccccCchhh-cccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEE
Q 003366          116 GDYEGAPSGGWEFSTGGMDHVRVHPKFL-HSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIE  193 (826)
Q Consensus       116 g~y~~~~~~~~~~~~~~l~~~~v~p~fL-hSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~  193 (826)
                      .+|+.....    .-.++.+++.-|-.. -+..     +...|.||||||+|+...+ |+.|.|.+.  . +  ..|+|.
T Consensus        22 ~~Y~a~~I~----vL~glE~VRkRPgMYiGst~-----~~hlv~EivdNsiDea~ag~~~~I~V~i~--~-d--gsI~V~   87 (408)
T 3lnu_A           22 TRYNAADIE----VLSGLDPVKRRPGMYTDTAR-----PNHLAQEVIDNSVDEALAGHAKQIEVTLY--K-D--GSCEVS   87 (408)
T ss_dssp             ----------------CCHHHHHCGGGTSCTTS-----THHHHHHHHHHHHHHHHTTSCCEEEEEEC--T-T--SCEEEE
T ss_pred             CCcCHhHce----eccccHHHhcCCccEECCCC-----cchhhHHHHHHHHHHhhcCCCceEEEEEe--C-C--CeEEEE
Confidence            467765432    236889999988653 2322     2567999999999996553 687877773  2 2  379999


Q ss_pred             ECCCCCCHHHHh--------hhc-cccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          194 DNGGGMNPDKMR--------HCM-SLGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       194 DNG~GMs~eeL~--------~~L-sfG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |||.||+.+...        -+| .+-...|..+   ..+.|..|+|++..- .|+..+.|.+++.|
T Consensus        88 DnGrGIPv~~h~~~~~~~~e~i~t~lhaggKfd~~~ykvSgGlhGvG~svVN-ALS~~l~v~v~rdG  153 (408)
T 3lnu_A           88 DDGRGMPVDIHPEEKIPGVELILTRLHAGGKFNNRNYTFSGGLHGVGVSVVN-ALSTKVELFIKREG  153 (408)
T ss_dssp             ECSSCCCCSBCTTTCSBHHHHHHHCC--------------------CHHHHH-HTEEEEEEEEEETT
T ss_pred             EcCCCCCcccccccCCcchheEEEecccCCCcCCCceeecCCccccccceeh-hccCeEEEEEEECC
Confidence            999999988632        223 2333334322   357899999987444 58899999999865

>1id0_A PHOQ histidine kinase; PHOQ/PHOP, signal transduction, transferase; HET: ANP; 1.60A {Escherichia coli} SCOP: d.122.1.3 PDB: 3cgz_A 3cgy_A

Probab=97.64  E-value=0.00013  Score=66.19  Aligned_cols=87  Identities=15%  Similarity=0.210  Sum_probs=62.3

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....+|.+||+||+.+.   ...|.|.+...  ++...|.|.|||.||+.+++.+++..+++.+..    -+..|+|+.
T Consensus        43 ~~l~~il~nLl~NAi~~~---~~~i~i~~~~~--~~~~~i~i~D~G~gi~~~~~~~~f~~~~~~~~~----~~g~GlGL~  113 (152)
T 1id0_A           43 NDFVEVMGNVLDNACKYC---LEFVEISARQT--DEHLYIVVEDDGPGIPLSKREVIFDRGQRVDTL----RPGQGVGLA  113 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHC---SSEEEEEEEEC--SSCEEEEEEESSSCCCGGGTTGGGSCCCCTTCC----CTTCCSCHH
T ss_pred             HHHHHHHHHHHHHHHHhC---cCeEEEEEEec--CCEEEEEEEeCCCCcCHHHHHHHhccceeccCC----CCCcccCHH
Confidence            345678999999999993   34677766543  456789999999999999999887655544321    245788876


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.+.+..
T Consensus       114 i~~~~~~~~gG~i~~~~~~  132 (152)
T 1id0_A          114 VAREITEQYEGKIVAGESM  132 (152)
T ss_dssp             HHHHHHHHTTCEEEEEECT
T ss_pred             HHHHHHHHcCCEEEEEeCC
Confidence            432   2467888887764

>2q2e_B Type 2 DNA topoisomerase 6 subunit B; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei}

Probab=97.63  E-value=2.8e-05  Score=90.00  Aligned_cols=98  Identities=19%  Similarity=0.286  Sum_probs=64.8

Q ss_pred             cccHHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcc-cccccccc-CCcccCcc
Q 003366          150 HKWALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMS-LGYSAKSK-AANTIGQY  225 (826)
Q Consensus       150 H~wpFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Ls-fG~SsK~~-~~~~IGrf  225 (826)
                      ...+..+|.|||+||+||...+.  ..|.|.+.... .+...|.|.|||.||+.+++..++. |.++++.. .....|..
T Consensus        35 ~~~L~~Vl~ELV~NAIDa~~~~g~~~~I~V~i~~~~-~~~~~I~V~DnG~GIp~e~l~~iF~~~~atskf~~~~~s~Gg~  113 (621)
T 2q2e_B           35 PRSLITTVKEAVDNALDACEEAGILPDILVQVERTG-PDYVTVIIEDNGPGIVREQIPKVFAKLLYGSRFHALKQSRGQQ  113 (621)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTSCSCEEEECCEEET-TTEEEEEEECCSCCCCGGGHHHHHSCCCCC--CCCCC-CCSSS
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEECC-CcEEEEEEEECCCCCCHHHHHHHhhhhccCCccccccccCCCc
Confidence            35677899999999999954211  16777765431 1346899999999999999999774 33333322 23456999


Q ss_pred             cCccccccc---cc-CCeEEEEeeecC
Q 003366          226 GNGFKTSTM---RL-GADVIVFSCCCG  248 (826)
Q Consensus       226 G~GfKsAsm---rL-G~~v~V~SK~~g  248 (826)
                      |+|+..+..   .+ |..+.|.|+..+
T Consensus       114 GlGLsiv~~ls~~~gG~~I~V~S~~~g  140 (621)
T 2q2e_B          114 GIGISAAVLYAQMTAGRHTKILSKTSP  140 (621)
T ss_dssp             SHHHHHHHHHHHHHTCCCCEEEEECSS
T ss_pred             eechhhhhHHHHHhCCCceeEEeeccC
Confidence            999975432   22 333688888654

>2c2a_A Sensor histidine kinase; phosphotransfer, PHOQ, selenomethionyl MAD, two-component systems, transferase; HET: ADP; 1.9A {Thermotoga maritima} SCOP: a.30.2.1 d.122.1.3 PDB: 3dge_A*

Probab=97.63  E-value=5.8e-05  Score=74.72  Aligned_cols=94  Identities=20%  Similarity=0.250  Sum_probs=60.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCC--ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCc
Q 003366          151 KWALGAFAELLDNSLDEVCNGA--TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG  228 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA--t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~G  228 (826)
                      .+...+|..||+||+.+...+.  ..|.|.+...  ++...|.|.|||.||+++++.+++...+..+.......+-.|+|
T Consensus       137 ~~l~~il~NLl~NAik~~~~~~~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~G~GLG  214 (258)
T 2c2a_A          137 TRIRQVLLNLLNNGVKYSKKDAPDKYVKVILDEK--DGGVLIIVEDNGIGIPDHAKDRIFEQFYRVDSSLTYEVPGTGLG  214 (258)
T ss_dssp             HHHHHHHHHHHHHHHHTCCTTCTTCEEEEEEEEE--TTEEEEEEEECSSCCCGGGTTGGGSTTCCCC---------CCCT
T ss_pred             HHHHHHHHHHHHHHHhcCcCCCCceeEEEEEecC--CCeEEEEEEecCCCCCHHHHHhhccccccCCCCCCCCCCCcchH
Confidence            4456789999999999843222  3356655432  45678999999999999999998765554332212223457888


Q ss_pred             ccccc---cccCCeEEEEeee
Q 003366          229 FKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       229 fKsAs---mrLG~~v~V~SK~  246 (826)
                      |..+-   -.+|-.+.|.|..
T Consensus       215 L~i~~~iv~~~gG~i~v~s~~  235 (258)
T 2c2a_A          215 LAITKEIVELHGGRIWVESEV  235 (258)
T ss_dssp             HHHHHHHHHHTTCEEEEEEET
T ss_pred             HHHHHHHHHHcCCEEEEEecC
Confidence            86422   2568888888874

>3sl2_A Sensor histidine kinase YYCG; ATP binding, intact ATP, bergerat fold, TR; HET: ATP; 1.61A {Bacillus subtilis}

Probab=97.61  E-value=6.5e-05  Score=70.56  Aligned_cols=94  Identities=14%  Similarity=0.202  Sum_probs=62.4

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      ....+|.+||+||+.+... ...+.|.+.....++...|.|.|||.||+.+++..++...++.........+..|+||..
T Consensus        43 ~l~~il~nLl~NAi~~~~~-~~~i~I~i~~~~~~~~~~i~V~D~G~gi~~~~~~~lf~~~~~~~~~~~~~~~g~GlGL~i  121 (177)
T 3sl2_A           43 KITQVLDNIISNALKYSPE-GGHVTFSIDVNEEEELLYISVKDEGIGIPKKDVEKVFDRFYRVDKARTRKLGGTGLGLAI  121 (177)
T ss_dssp             HHHHHHHHHHHHHHHTCCT-TCCEEEEEEEETTTTEEEEEEECCSSCCCTTTTTTTTSTTCCCC------CCCCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCC-CCeEEEEEEEccCCCEEEEEEEECCCCCCHHHHHHHHhhhccCCCCCCCCCCCCCcCHHH
Confidence            3567899999999998532 245666654333456678999999999999999988765554332222334567888874


Q ss_pred             ccc---ccCCeEEEEeee
Q 003366          232 STM---RLGADVIVFSCC  246 (826)
Q Consensus       232 Asm---rLG~~v~V~SK~  246 (826)
                      +-.   .+|-.+.+.+..
T Consensus       122 v~~~~~~~~G~i~i~~~~  139 (177)
T 3sl2_A          122 AKEMVQAHGGDIWADSIE  139 (177)
T ss_dssp             HHHHHHHTTCCEEEEEET
T ss_pred             HHHHHHHcCCEEEEEecC
Confidence            332   466777777764

>1bxd_A ENVZ(290-450), protein (osmolarity sensor protein (ENVZ)); histidine kinase, osmosensor, His-Asp phosphorelay system, signal transduction; HET: ANP; NMR {Escherichia coli BL21} SCOP: d.122.1.3

Probab=97.56  E-value=0.00015  Score=66.81  Aligned_cols=89  Identities=17%  Similarity=0.180  Sum_probs=63.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....+|.+||+||+.+   ....|.|.+...  ++...|.|.|||.||+.+++.+++...++.+..  ..-+..|+||.
T Consensus        46 ~~l~~il~nll~NAik~---~~~~I~i~~~~~--~~~~~i~i~D~G~gi~~~~~~~~f~~f~~~~~~--~~~~g~GlGL~  118 (161)
T 1bxd_A           46 LSIKRAVANMVVNAARY---GNGWIKVSSGTE--PNRAWFQVEDDGPGIAPEQRKHLFQPFVRGDSA--RTISGTGLGLA  118 (161)
T ss_dssp             HHHHHHHHHHHHHHHTT---CCSCEEEEEEEE--TTEEEEEEEEESSCSCTTGGGCSSCCCCCCSCC--CCCCCCSCCCC
T ss_pred             HHHHHHHHHHHHHHHhh---cCCeEEEEEEEc--CCEEEEEEEeCCCCCCHHHHHHhCCCceeCCCC--CCCCCcccCHH
Confidence            44668899999999998   356677777543  356789999999999999999887655544321  12256788886


Q ss_pred             cccc---ccCCeEEEEeee
Q 003366          231 TSTM---RLGADVIVFSCC  246 (826)
Q Consensus       231 sAsm---rLG~~v~V~SK~  246 (826)
                      .+--   .+|-.+.+.+..
T Consensus       119 i~~~~~~~~gG~i~~~~~~  137 (161)
T 1bxd_A          119 IVQRIVDNHNGMLELGTSE  137 (161)
T ss_dssp             TTHHHHHHHTSEEEEEEET
T ss_pred             HHHHHHHHcCCEEEEEECC
Confidence            4322   467788887763

>3a0y_A Sensor protein; ATP-LID, kinase, phosphoprotein, transferase, two-component regulatory system; 1.57A {Thermotoga maritima} PDB: 3a0t_A* 3a0x_A 3a0w_A 3a0z_A

Probab=97.49  E-value=0.00019  Score=64.71  Aligned_cols=86  Identities=10%  Similarity=0.075  Sum_probs=62.1

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....+|.+||+||+.+.. ....|.|.+...  ++...|.|.|||.||+++++.+++...++.+.      +..|+|+.
T Consensus        46 ~~l~~il~nll~NAi~~~~-~~~~I~i~~~~~--~~~~~i~i~D~G~g~~~~~~~~~f~~~~~~~~------~g~GlGL~  116 (152)
T 3a0y_A           46 TRIKQVLINLVQNAIEATG-ENGKIKITSEDM--YTKVRVSVWNSGPPIPEELKEKIFSPFFTTKT------QGTGLGLS  116 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCEEEEEEEEC--SSEEEEEEEEESCCCCGGGTTGGGSTTCCCC--------CCCCSHH
T ss_pred             HHHHHHHHHHHHHHHHhcC-CCCEEEEEEEec--CCEEEEEEEeCCCCcCHHHHHhHhhhhccCCC------CCCCcCHH
Confidence            4466789999999999853 245677776543  45678999999999999999988765554431      35788987


Q ss_pred             ccc--c--ccCCeEEEEee
Q 003366          231 TST--M--RLGADVIVFSC  245 (826)
Q Consensus       231 sAs--m--rLG~~v~V~SK  245 (826)
                      .+-  +  .+|-.+.+.+.
T Consensus       117 i~~~~~~~~~gg~~~~~~~  135 (152)
T 3a0y_A          117 ICRKIIEDEHGGKIWTENR  135 (152)
T ss_dssp             HHHHHHHTTTSCEEEEEEE
T ss_pred             HHHHHHHHhCCcEEEEecC
Confidence            542  2  46777777665

>2btz_A Pyruvate dehydrogenase kinase isoenzyme 2; GHKL motif regulation, transferase; 2.2A {Homo sapiens} PDB: 2bu2_A* 2bu5_A* 2bu6_A* 2bu7_A* 2bu8_A* 3crk_A* 1jm6_A* 3crl_A*

Probab=97.48  E-value=0.00015  Score=77.71  Aligned_cols=94  Identities=18%  Similarity=0.315  Sum_probs=64.6

Q ss_pred             ccHHHHHHHHhccchhhhhCCC------ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc-----CC
Q 003366          151 KWALGAFAELLDNSLDEVCNGA------TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK-----AA  219 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA------t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~-----~~  219 (826)
                      .+..-+|.+||+||+.|...+.      ..|.|.+...  ++...|.|.|+|.||+++++.+++...++.+..     ..
T Consensus       230 ~~L~~il~NLl~NAik~~~~~~~~~~~~~~I~I~~~~~--~~~v~i~V~D~G~GI~~~~~~~iF~~f~~~~~~~~~~~~~  307 (394)
T 2btz_A          230 SHLYHMLFELFKNAMRATVESHESSLILPPIKVMVALG--EEDLSIKMSDRGGGVPLRKIERLFSYMYSTAPTPQPGTGG  307 (394)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTTTCSCCCCEEEEEEEC--SSEEEEEEEECSCCCCHHHHHHHTCTTTTCCC--------
T ss_pred             HHHHHHHHHHHHHHHHHhhhccccCCCCCCEEEEEEeC--CCEEEEEEEeCCCCCCHHHHHHHhcccccCCCCCCcccCC
Confidence            3456789999999999975443      2477777543  356789999999999999999998766665432     22


Q ss_pred             cccCcccCcccccc---cccCCeEEEEeee
Q 003366          220 NTIGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       220 ~~IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                      ...+-+|+||..+-   -.+|-++.|.|..
T Consensus       308 ~~~~G~GLGL~i~~~i~~~~gG~i~v~s~~  337 (394)
T 2btz_A          308 TPLAGFGYGLPISRLYAKYFQGDLQLFSME  337 (394)
T ss_dssp             ------CCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             CCCCCccCCHHHHHHHHHHhCCEEEEEecC
Confidence            34567899986432   2578899998874

>2q8g_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; GHKL ATPase/kinase family, pyruvate dehydrogenase complex, mitochondrial kinase; HET: AZX; 1.90A {Homo sapiens} PDB: 2q8f_A* 2q8h_A

Probab=97.46  E-value=0.00019  Score=77.49  Aligned_cols=94  Identities=17%  Similarity=0.294  Sum_probs=68.6

Q ss_pred             ccHHHHHHHHhccchhhhhCCC------ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc------C
Q 003366          151 KWALGAFAELLDNSLDEVCNGA------TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK------A  218 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA------t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~------~  218 (826)
                      .+..-+|.+||+||+.|...+.      ..|.|.+...  ++...|.|.|+|.||+++++.+++...++.+..      .
T Consensus       242 ~~L~~il~NLl~NAik~t~~~~~~~~~~~~I~I~~~~~--~~~v~i~V~D~G~GI~~e~~~~if~~f~~~~~~~~~~~~~  319 (407)
T 2q8g_A          242 SHLYHMVFELFKNAMRATMEHHANRGVYPPIQVHVTLG--NEDLTVKMSDRGGGVPLRKIDRLFNYMYSTAPRPRVETSR  319 (407)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSTTTCCCCCEEEEEEEC--SSEEEEEEEECSCCCCHHHHGGGGCTTTTCCCCCCSSCCS
T ss_pred             HHHHHHHHHHHHHHHHHHhhccccCCCCCCEEEEEEeC--CCEEEEEEEecCCCCCHHHHHHHhCccccCCCCCCccccC
Confidence            3456789999999999965322      1577777543  456789999999999999999998866655432      1


Q ss_pred             CcccCcccCcccccc---cccCCeEEEEeee
Q 003366          219 ANTIGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       219 ~~~IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                      ....+-+|+||..+-   -..|-++.|.|..
T Consensus       320 ~~~~~G~GLGL~Ivr~i~~~~gG~i~v~s~~  350 (407)
T 2q8g_A          320 AVPLAGFGYGLPISRLYAQYFQGDLKLYSLE  350 (407)
T ss_dssp             CCCSSCTTCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             CCCCCCcCCCHHHHHHHHHHhCCEEEEEEcC
Confidence            235577899986432   2568889998874

>1i58_A Chemotaxis protein CHEA; beta-alpha sandwich, signaling protein, transferase; HET: ACP ADP; 1.60A {Thermotoga maritima} SCOP: d.122.1.3 PDB: 1i59_A* 1i5a_A* 1i5b_A* 1i5c_A* 1i5d_A*

Probab=97.46  E-value=0.00012  Score=69.40  Aligned_cols=92  Identities=18%  Similarity=0.243  Sum_probs=61.8

Q ss_pred             cHHHHHHHHhccchhhhh-----------CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHH----------------
Q 003366          152 WALGAFAELLDNSLDEVC-----------NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKM----------------  204 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~-----------~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL----------------  204 (826)
                      ....+|.+||+||+.+..           .....|.|.+...  ++...|.|.|||.||+++++                
T Consensus        47 ~l~~il~nLl~NAik~~~~~~~~~~~~~~~~~~~I~I~~~~~--~~~~~i~V~D~G~Gi~~~~~~~~~~~~~~~~~~~~~  124 (189)
T 1i58_A           47 EIGEPLLHLLRNAIDHGIEPKEERIAKGKPPIGTLILSARHE--GNNVVIEVEDDGRGIDKEKIIRKAIEKGLIDESKAA  124 (189)
T ss_dssp             HHHHHHHHHHHHHHHHTSCCHHHHHHHTSCSSEEEEEEEEEE--TTEEEEEEEECSSCCCHHHHHHHHHHTTSSCHHHHT
T ss_pred             HHHHHHHHHHHHHHHhhhccccccccccCCCCCeEEEEEEec--CCEEEEEEEeCCCCcCHHHHhhhhhhccchhhhhhc
Confidence            345569999999999841           1245677777543  46678999999999999987                


Q ss_pred             --------hhhccccccccccCCcccCcccCcccccc---cccCCeEEEEeee
Q 003366          205 --------RHCMSLGYSAKSKAANTIGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       205 --------~~~LsfG~SsK~~~~~~IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                              .+++..+++.+.. ....+..|+|+..+-   -.+|-.+.|.+..
T Consensus       125 ~~~~~~~~~~if~~~~~~~~~-~~~~~g~GlGL~iv~~~~~~~~G~i~i~s~~  176 (189)
T 1i58_A          125 TLSDQEILNFLFVPGFSTKEK-VSEVSGRGVGMDVVKNVVESLNGSISIESEK  176 (189)
T ss_dssp             TCCHHHHHGGGGSTTCSHHHH-HHGGGTCCCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             ccchhhhHHHhcCCccccccc-CCCCCCCccCHHHHHHHHHHcCCEEEEEeCC
Confidence                    4455545554321 112345788986432   2567888888764

>2e0a_A Pyruvate dehydrogenase kinase isozyme 4; PDK4, ATP-binding, structural genomics, NPPSFA, NATI project on protein structural and functional analyses; HET: ANP; 1.86A {Homo sapiens} PDB: 2zdx_A* 2zdy_A* 2zkj_A* 3d2r_A*

Probab=97.41  E-value=0.0002  Score=76.93  Aligned_cols=94  Identities=18%  Similarity=0.297  Sum_probs=68.4

Q ss_pred             ccHHHHHHHHhccchhhhhCCC------ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc------C
Q 003366          151 KWALGAFAELLDNSLDEVCNGA------TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK------A  218 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA------t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~------~  218 (826)
                      .+...+|.+||+||+.|...+.      ..|.|.+...  ++...|.|.|+|.||+++++.+++...++.+..      .
T Consensus       229 ~~L~~il~NLl~NAik~~~~~~~~~~~~~~I~I~~~~~--~~~v~i~V~D~G~GI~~~~~~~if~~f~~~~~~~~~~~~~  306 (394)
T 2e0a_A          229 SHLHHMLFELFKNAMRATVEHQENQPSLTPIEVIVVLG--KEDLTIKISDRGGGVPLRIIDRLFSYTYSTAPTPVMDNSR  306 (394)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTTSSSCCCEEEEEEEC--SSEEEEEEEECSCCCCGGGHHHHTSTTCCSSCCC------
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccccCCCCCEEEEEEeC--CCEEEEEEEeCCCCcCHHHHHHHhCcCccCCCCCCcCcCC
Confidence            3456789999999999965322      1477777543  456789999999999999999998766665432      2


Q ss_pred             CcccCcccCcccccc---cccCCeEEEEeee
Q 003366          219 ANTIGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       219 ~~~IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                      ....+-+|+||..+-   -..|-++.|.|..
T Consensus       307 ~~~~~G~GLGL~i~~~i~~~~gG~i~v~s~~  337 (394)
T 2e0a_A          307 NAPLAGFGYGLPISRLYAKYFQGDLNLYSLS  337 (394)
T ss_dssp             CCCSSCSSCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             CCCCCCcccCHHHHHHHHHHhCCEEEEEecC
Confidence            234577899986432   2578889998874

>4ew8_A Sensor protein DIVL; signal transduction, two-component regulatory system, hiska GHKL domain, structural genomics; 2.50A {Caulobacter crescentus}

Probab=97.33  E-value=0.00031  Score=69.36  Aligned_cols=87  Identities=18%  Similarity=0.107  Sum_probs=63.3

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...+|.+||+||+.+... ...|.|.+...  ++...|.|.|||.||+++.+.+.+...++.+.      +..|+|+.
T Consensus       154 ~~l~~il~nLl~NA~~~~~~-~~~I~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~------~g~GlGL~  224 (268)
T 4ew8_A          154 KRLAQTLDHLVENALRQTPP-GGRVTLSARRA--LGEVRLDVSDTGRGVPFHVQAHIFDRFVGRDR------GGPGLGLA  224 (268)
T ss_dssp             HHHHHHHHHHHHHHHHHSCT-TCEEEEEEEEC--SSEEEEEEEESSCCCCHHHHTTTTSTTCCCSS------CCCTTHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCC-CCEEEEEEEec--CCEEEEEEEcCCCCCCHHHHHHHHHHHhcCCC------CCCcccHH
Confidence            34667899999999999432 25677777543  46678999999999999999988765554432      35688876


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.|.+..
T Consensus       225 i~~~~~~~~gG~i~i~s~~  243 (268)
T 4ew8_A          225 LVKALVELHGGWVALESEP  243 (268)
T ss_dssp             HHHHHHHHTTCEEEEEECT
T ss_pred             HHHHHHHHcCCEEEEEecC
Confidence            422   2577888887764

>1y8o_A [pyruvate dehydrogenase [lipoamide]] kinase isozy; pyruvate dehydrogenase kinase 3, lipoyl-bearing domain; HET: RED ADP; 2.48A {Homo sapiens} SCOP: a.29.5.1 d.122.1.4 PDB: 1y8n_A* 1y8p_A* 2pnr_A* 2q8i_A*

Probab=97.32  E-value=0.00026  Score=76.89  Aligned_cols=94  Identities=19%  Similarity=0.272  Sum_probs=64.2

Q ss_pred             ccHHHHHHHHhccchhhhhCC-------CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhcccccccccc------
Q 003366          151 KWALGAFAELLDNSLDEVCNG-------ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSK------  217 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~g-------At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~------  217 (826)
                      .+..-+|.+||+||+.|...+       ...|.|.+...  ++...|.|.|+|.||+++++.+++...++.+..      
T Consensus       252 ~~L~~vl~NLl~NAik~~~~~~~~~~~~~~~I~I~~~~~--~~~v~I~V~D~G~GI~~e~l~~iF~~f~~~~~~~~~~~~  329 (419)
T 1y8o_A          252 SHLFHMLFELFKNSMRATVELYEDRKEGYPAVKTLVTLG--KEDLSIKISDLGGGVPLRKIDRLFNYMYSTAPRPSLEPT  329 (419)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCSSCCCCEEEEEEEC--SSEEEEEEEECSCCCCHHHHGGGGCTTTC----------
T ss_pred             HHHHHHHHHHHHHHHHHHHhhccccCCCCCCEEEEEEeC--CCEEEEEEEECCCCCCHHHHHHHhCcccccCCCCCcccc
Confidence            345578999999999996432       12577777543  356789999999999999999998766655432      


Q ss_pred             CCcccCcccCcccccc---cccCCeEEEEeee
Q 003366          218 AANTIGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       218 ~~~~IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                      .....+-+|+||..+-   -..|-++.|.|..
T Consensus       330 ~~~~~~G~GLGL~I~k~iv~~~gG~I~v~s~~  361 (419)
T 1y8o_A          330 RAAPLAGFGYGLPISRLYARYFQGDLKLYSME  361 (419)
T ss_dssp             ---CC--CTTHHHHHHHHHHHTTCEEEEEEET
T ss_pred             CCCCcCCeecCHHHHHHHHHHhCCEEEEEecC
Confidence            1234567899986432   2568889998875

>1ysr_A Sensor-type histidine kinase PRRB; ATP-binding domain, structural genomics, mycobacterium tuberculosis structural proteomics project; 1.78A {Mycobacterium tuberculosis} SCOP: d.122.1.3 PDB: 1ys3_A

Probab=97.31  E-value=0.00033  Score=63.68  Aligned_cols=89  Identities=13%  Similarity=0.100  Sum_probs=57.4

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....+|.+||+||+.+..  +..|.|.+...  ++...|.|.|||.||+++++.+++...+....   ..-+..|+|+.
T Consensus        45 ~~l~~il~nLl~NA~~~~~--~~~I~i~~~~~--~~~~~i~v~D~G~gi~~~~~~~if~~f~~~~~---~~~~g~GlGL~  117 (150)
T 1ysr_A           45 AGLRLAVDNAIANAVKHGG--ATLVQLSAVSS--RAGVEIAIDDNGSGVPEGERQVVFERFSRGST---ASHSGSGLGLA  117 (150)
T ss_dssp             HHHHHHHHHHHHHHHHTTC--CSEEEEEEEEE--TTEEEEEEEESSSCCCGGGHHHHHTSCC--------------CCCH
T ss_pred             HHHHHHHHHHHHHHHhcCC--CcEEEEEEEec--CCEEEEEEEECCCCCCHHHHHHHhcccccCCC---CCCCCCCcCHH
Confidence            3456789999999999842  33677766543  35678999999999999999988764432211   11245688886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.+.+..
T Consensus       118 i~~~~~~~~gG~i~~~~~~  136 (150)
T 1ysr_A          118 LVAQQAQLHGGTASLENSP  136 (150)
T ss_dssp             HHHHHHHHTTCEEEEEECT
T ss_pred             HHHHHHHHcCCEEEEeecC
Confidence            422   2467788887764

>1r62_A Nitrogen regulation protein NR(II); PII, histidine kinase, two component system, transfera; 1.60A {Escherichia coli} SCOP: d.122.1.3

Probab=97.29  E-value=0.00016  Score=65.63  Aligned_cols=87  Identities=15%  Similarity=0.122  Sum_probs=47.5

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCC----------ceEEEEEECCCCCCHHHHhhhccccccccccCCcc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDG----------SRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANT  221 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g----------~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~  221 (826)
                      ....+|.+||+||+.+.......|.|.+....  +          ...|.|.|||.||+++++.+.+...++.+.     
T Consensus        48 ~l~~il~nLl~NAik~~~~~~~~I~i~~~~~~--~~~~~~~~~~~~~~i~v~D~G~gi~~~~~~~lf~~~~~~~~-----  120 (160)
T 1r62_A           48 QIEQVLLNIVRNALQALGPEGGEIILRTRTAF--QLTLHGERYRLAARIDVEDNGPGIPPHLQDTLFYPMVSGRE-----  120 (160)
T ss_dssp             HHHHHHHHHHHHHHHHHGGGCEEEEEEEEEEE--EEEETTEEEEEEEEEEEEEECTTC----------------------
T ss_pred             HHHHHHHHHHHHHHHHhhccCCeEEEEEeccc--cccccccccccEEEEEEEeCCCCCCHHHHHHhhCccccCCC-----
Confidence            45678999999999985421456777664332  2          457999999999999999988765554432     


Q ss_pred             cCcccCcccccc---cccCCeEEEEeee
Q 003366          222 IGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       222 IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                       +..|+|+..+-   -.+|-.+.+.+..
T Consensus       121 -~g~GlGL~i~~~~~~~~gG~l~i~s~~  147 (160)
T 1r62_A          121 -GGTGLGLSIARNLIDQHSGKIEFTSWP  147 (160)
T ss_dssp             ----CHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             -CCCccCHHHHHHHHHHCCCeEEEEeCC
Confidence             34788876432   2467788887763

>3d36_A Sporulation kinase B; GHKL ATPase, four helix bundle, class I two-component histidine kinase, phosphoprotein; HET: ADP; 2.03A {Geobacillus stearothermophilus}

Probab=97.29  E-value=0.00043  Score=66.89  Aligned_cols=88  Identities=14%  Similarity=0.222  Sum_probs=64.1

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....+|.+||+||+.+.. .+..|.|.+...  ++...|.|.|||.||+++++.+++...++.+.     .+..|+|+.
T Consensus       122 ~~l~~il~nLl~NA~~~~~-~~~~i~i~~~~~--~~~~~i~i~D~G~gi~~~~~~~if~~~~~~~~-----~~g~GlGL~  193 (244)
T 3d36_A          122 EKFRQCLLNVMKNAIEAMP-NGGTLQVYVSID--NGRVLIRIADTGVGMTKEQLERLGEPYFTTKG-----VKGTGLGMM  193 (244)
T ss_dssp             HHHHHHHHHHHHHHHHTCT-TCEEEEEEEEEE--TTEEEEEEEECSSCCCHHHHHHTTSTTCCSSG-----GGCCSCHHH
T ss_pred             HHHHHHHHHHHHHHHHhcc-CCCeEEEEEEEe--CCEEEEEEEecCCCCCHHHHHHHhcccccCCC-----CCCcchhHH
Confidence            4466889999999999843 245677776543  46678999999999999999998776655441     234688886


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.+.+..
T Consensus       194 i~~~i~~~~gG~i~~~~~~  212 (244)
T 3d36_A          194 VVYRIIESMNGTIRIESEI  212 (244)
T ss_dssp             HHHHHHHHTTCEEEEEEET
T ss_pred             HHHHHHHHcCCEEEEEecC
Confidence            432   2467888887764

>3ttz_A DNA gyrase subunit B; protein-inhibitor complex, ATP-binding, structure-based drug antimicrobial, isomerase-isomerase inhibitor complex; HET: DNA 07N; 1.63A {Staphylococcus aureus} PDB: 3u2d_A* 3u2k_A* 3g75_A* 3g7b_A*

Probab=97.27  E-value=0.00013  Score=73.28  Aligned_cols=99  Identities=25%  Similarity=0.320  Sum_probs=62.4

Q ss_pred             CccccccCchhhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccc
Q 003366          132 GMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSL  210 (826)
Q Consensus       132 ~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~Lsf  210 (826)
                      ++.|++.-|-..- -||...-+...|.||||||+|+...+ |+.|.|.+..   +  ..|.|.|||.||+.+.-.     
T Consensus        12 ~le~vr~RPgmYi-Gs~~~~gl~~~v~Elv~NsiD~~~ag~~~~I~V~i~~---~--g~i~V~DnG~Gip~~~h~-----   80 (198)
T 3ttz_A           12 GLEAVRKRPGMYI-GSTSERGLHHLVWEIVDNSIDEALAGYANQIEVVIEK---D--NWIKVTDNGRGIPVDIQE-----   80 (198)
T ss_dssp             HHHHHHHSHHHHH-SCSSHHHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEG---G--GEEEEEECSSCCCCSBCT-----
T ss_pred             chHHHhcCCCcEE-CCCCCcchHHHHHHHHHHHHhHHhcCCCcEEEEEEeC---C--CeEEEEECCCCccccccC-----
Confidence            4555666554321 13334667788999999999976556 8888888743   2  289999999999987211     


Q ss_pred             cccccccCCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          211 GYSAKSKAANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       211 G~SsK~~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                        .+|......+  |+   -++.-.|+..+.|.+++.|
T Consensus        81 --~~~~~~~e~i--~t---~SvVNALS~~l~v~v~r~g  111 (198)
T 3ttz_A           81 --KMGRPAVEVI--LT---SSVVNALSQDLEVYVHRNE  111 (198)
T ss_dssp             --TTSSBHHHHH--HH---TCHHHHTEEEEEEEEEETT
T ss_pred             --cCCCcccccc--ce---eEehhhhcCeEEEEEEECC
Confidence              1111111111  22   2222367789999998865

>1gkz_A [3-methyl-2-oxobutanoate dehydrogenase [lipoamide]] kinase; transferase, mitochondrial protein kinase, potassium; HET: ADP; 2.2A {Rattus norvegicus} SCOP: a.29.5.1 d.122.1.4 PDB: 1gjv_A 1gkx_A*

Probab=97.23  E-value=0.00026  Score=75.64  Aligned_cols=94  Identities=21%  Similarity=0.291  Sum_probs=66.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCC-------ceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC-----
Q 003366          151 KWALGAFAELLDNSLDEVCNGA-------TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA-----  218 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gA-------t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~-----  218 (826)
                      ....-+|.+||+||+.|...+.       ..|.|.+...  ++...|.|.|+|.||+++++.+++...++.+...     
T Consensus       237 ~~L~~il~NLl~NAik~~~~~~~~~~~~~~~I~I~~~~~--~~~v~i~V~D~G~GI~~~~~~~iF~~f~~~~~~~~~~~~  314 (388)
T 1gkz_A          237 MPLDYILPELLKNAMRATMESHLDTPYNVPDVVITIANN--DVDLIIRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPR  314 (388)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCTTCTTSCCCEEEEEEEC--SSEEEEEEECCSCCCCTTTTTTTTSTTCCCC--------
T ss_pred             HHHHHHHHHHHHHHHHHhhccccCCCCCCCCEEEEEEeC--CCEEEEEEEEeCCCcCHHHHHHhcCcccccCCCcccccc
Confidence            4456789999999999975432       1577777543  4567899999999999999999887666554321     


Q ss_pred             ---------------CcccCcccCcccccc---cccCCeEEEEeee
Q 003366          219 ---------------ANTIGQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       219 ---------------~~~IGrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                                     ....+-+|+||..+-   -.+|-++.|.|..
T Consensus       315 ~~~~~~~~~~~~~~~~~~~~G~GLGL~i~r~i~~~~gG~i~v~s~~  360 (388)
T 1gkz_A          315 ISPLFGHLDMHSGGQSGPMHGFGFGLPTSRAYAEYLGGSLQLQSLQ  360 (388)
T ss_dssp             -----------------CCSCSSCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             cccchhhcccccccCCCCcCCccCCHHHHHHHHHHhCCEEEEEecC
Confidence                           123467899986432   2578889998874

>1th8_A Anti-sigma F factor; SPOIIAB, SPOIIAA, anti-ANTI-sigma, sporulation, serine kinase, transcription; HET: ADP; 2.40A {Geobacillus stearothermophilus} SCOP: d.122.1.3 PDB: 1thn_A* 1til_A* 1l0o_A* 1tid_A*

Probab=97.21  E-value=0.00061  Score=62.18  Aligned_cols=86  Identities=22%  Similarity=0.294  Sum_probs=55.4

Q ss_pred             cHHHHHHHHhccchhhhhCC--CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          152 WALGAFAELLDNSLDEVCNG--ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~g--At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      .+.-+|.|||+||+.+....  ...|.|.+...  ++...|.|.|||.||+  ++.+.+...++.+.    ..+..|+|+
T Consensus        39 ~l~~il~~l~~Nai~h~~~~~~~~~I~i~~~~~--~~~~~i~V~D~G~g~~--~~~~~~~~~~~~~~----~~~~~GlGL  110 (145)
T 1th8_A           39 EIKTVVSEAVTNAIIHGYNNDPNGIVSISVIIE--DGVVHLTVRDEGVGIP--DIEEARQPLFTTKP----ELERSGMGF  110 (145)
T ss_dssp             HHHHHHHHHHHHHHHTTSTTCTTSEEEEEEEEE--TTEEEEEEEECSSCCS--CHHHHTCCC-----------CCCSCHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEEe--CCEEEEEEEECCCCcC--hHHHhhcccccCCC----CCCCCcchH
Confidence            45578999999999873221  25677776543  4567899999999999  66666654444332    224568888


Q ss_pred             cccccccCCeEEEEeee
Q 003366          230 KTSTMRLGADVIVFSCC  246 (826)
Q Consensus       230 KsAsmrLG~~v~V~SK~  246 (826)
                      ..+- ++...+.+.+..
T Consensus       111 ~iv~-~~~~~i~~~~~~  126 (145)
T 1th8_A          111 TIME-NFMDEVIVESEV  126 (145)
T ss_dssp             HHHH-HHSSEEEEEEET
T ss_pred             HHHH-HHHheEEEEeCC
Confidence            7544 345577776654

>3ehg_A Sensor kinase (YOCF protein); GHL ATPase domain, transferase; HET: ATP; 1.74A {Bacillus subtilis}

Probab=97.15  E-value=0.00044  Score=62.10  Aligned_cols=74  Identities=11%  Similarity=0.035  Sum_probs=53.7

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      ...+-++.|||+||+.+.  .+..|.|.+...  ++...|.|.|||.||+++++                  +..|+|+.
T Consensus        39 ~~l~~il~nll~Na~k~~--~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~------------------~g~GlGL~   96 (128)
T 3ehg_A           39 NILSMCLKEAVTNVVKHS--QAKTCRVDIQQL--WKEVVITVSDDGTFKGEENS------------------FSKGHGLL   96 (128)
T ss_dssp             HHHHHHHHHHHHHHHHHT--CCSEEEEEEEEE--TTEEEEEEEESSCCCSCSSC------------------CCTTSHHH
T ss_pred             HHHHHHHHHHHHHHHhcC--CCcEEEEEEEEe--CCEEEEEEEECCcCcCcccC------------------CCCCccHH
Confidence            344568999999999983  356788877553  45678999999999998865                  22478875


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.+.+..
T Consensus        97 ~~~~~~~~~gG~i~~~s~~  115 (128)
T 3ehg_A           97 GMRERLEFANGSLHIDTEN  115 (128)
T ss_dssp             HHHHHHHHTTCEEEEECSS
T ss_pred             HHHHHHHHcCCEEEEEeCC
Confidence            422   2467788887765

>1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A {Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB: 1qzr_A*

Probab=97.13  E-value=0.00027  Score=78.45  Aligned_cols=89  Identities=17%  Similarity=0.221  Sum_probs=62.0

Q ss_pred             HHHHHHHHhccchhhhh--CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh--------hcc-ccccccccC---
Q 003366          153 ALGAFAELLDNSLDEVC--NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH--------CMS-LGYSAKSKA---  218 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~--~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~--------~Ls-fG~SsK~~~---  218 (826)
                      +.-.|-|+||||+|+..  ..|+.|.|.+..+   + ..|+|.|||.||+.+....        +|. +-...|...   
T Consensus        65 L~~lv~EivdNaiDe~~~~g~~~~I~V~i~~d---~-~sI~V~DnGrGIPv~~h~~~g~~~~E~v~t~LhaGgKfd~~~y  140 (418)
T 1pvg_A           65 LFKIFDEILVNAADNKVRDPSMKRIDVNIHAE---E-HTIEVKNDGKGIPIEIHNKENIYIPEMIFGHLLTSSNYDDDEK  140 (418)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCCEEEEEEETT---T-TEEEEEEESSCCCCSBCTTTCSBHHHHHHHSSSEESCCCTTSC
T ss_pred             HHHHHHHHHhCHHHHHHhcCCCCEEEEEEECC---C-CEEEEEECCCcccCcccccCCcccceEEEEEEecccccCCCce
Confidence            34589999999999962  2368888887531   2 4799999999998775332        222 333344322   


Q ss_pred             CcccCcccCcccccccccCCeEEEEeee
Q 003366          219 ANTIGQYGNGFKTSTMRLGADVIVFSCC  246 (826)
Q Consensus       219 ~~~IGrfG~GfKsAsmrLG~~v~V~SK~  246 (826)
                      ..+-|..|+|.+ +.=.|+..+.|.+++
T Consensus       141 kvSGGLhGVG~S-vVNALS~~l~V~v~r  167 (418)
T 1pvg_A          141 KVTGGRNGYGAK-LCNIFSTEFILETAD  167 (418)
T ss_dssp             CCCSCCSSCHHH-HHHHTEEEEEEEEEE
T ss_pred             eccCCccceeee-eeeeccceEEEEEEE
Confidence            346799999976 444688999999985

>3ehh_A Sensor kinase (YOCF protein); four-helix bundle, GHL ATPase domain, transferase; HET: MSE ADP; 2.10A {Bacillus subtilis} PDB: 3ehj_A* 3gie_A* 3gif_A* 3gig_A* 3ehf_A*

Probab=96.99  E-value=0.0011  Score=63.64  Aligned_cols=72  Identities=11%  Similarity=0.041  Sum_probs=48.3

Q ss_pred             HHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccccc
Q 003366          153 ALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKTS  232 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKsA  232 (826)
                      .+.++.|||+||+.+.  .+..|.|.+...  ++...|.|.|||.||+++.+                  +..|+|+..+
T Consensus       131 l~~il~nll~Na~k~~--~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~------------------~g~GlGL~~~  188 (218)
T 3ehh_A          131 LSMCLKEAVTNVVKHS--QAKTCRVDIQQL--WKEVVITVSDDGTFKGEENS------------------FSKGHGLLGM  188 (218)
T ss_dssp             HHHHHHHHHHHHHHHT--CCSEEEEEEEEE--TTEEEEEEEESSCCCC--------------------------CHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCCEEEEEEEEe--CCEEEEEEEECCcCCCCCCC------------------CCCCCCHHHH
Confidence            4568999999999984  456788877553  46678999999999999876                  2247777532


Q ss_pred             c---cccCCeEEEEeee
Q 003366          233 T---MRLGADVIVFSCC  246 (826)
Q Consensus       233 s---mrLG~~v~V~SK~  246 (826)
                      -   -.+|-.+.|.|..
T Consensus       189 ~~~v~~~gG~i~~~s~~  205 (218)
T 3ehh_A          189 RERLEFANGSLHIDTEN  205 (218)
T ss_dssp             HHHHHHTTCEEEEECSS
T ss_pred             HHHHHHcCCEEEEeCCC
Confidence            2   2567788887765

>1b3q_A Protein (chemotaxis protein CHEA); histine kinase, signal transduction, multi-domai protein, transferase; 2.60A {Thermotoga maritima} SCOP: a.30.2.1 b.40.7.1 d.122.1.3 PDB: 2ch4_A* 3ur1_A

Probab=96.97  E-value=0.0012  Score=71.18  Aligned_cols=91  Identities=19%  Similarity=0.245  Sum_probs=58.3

Q ss_pred             HHHHHHHHhccchhhhh-----------CCCceEEEEEEEccCCCceEEEEEECCCCCCHHHH-----------------
Q 003366          153 ALGAFAELLDNSLDEVC-----------NGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKM-----------------  204 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~-----------~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL-----------------  204 (826)
                      ...++.+||.||+++..           .....|.|.+...  ++.-.|.|.|||.||+++.+                 
T Consensus       107 l~~~l~nLl~NAi~h~~e~~~~r~~~gk~~~g~I~i~~~~~--~~~v~i~V~D~G~Gi~~~~~~~~a~~~gl~~~~~~~~  184 (379)
T 1b3q_A          107 IGEPLLHLLRNAIDHGIEPKEERIAKGKPPIGTLILSARHE--GNNVVIEVEDDGRGIDKEKIIRKAIEKGLIDESKAAT  184 (379)
T ss_dssp             HHHHHHHHHHHHHHHTSCCHHHHHHTTCCSSEEEEEEEEEE--TTEEEEEEEECSCCCCHHHHHHHHHHSSSCCSTTTTT
T ss_pred             HHHHHHHHHHHHHHhcCCCHHHHHhcCCCCCcEEEEEEEEe--CCEEEEEEEECCCCCCHHHHHHHHHHcCCCChhhhhc
Confidence            44569999999999931           1234567766543  46778999999999999998                 


Q ss_pred             -------hhhccccccccccCCcccCcccCccccc---ccccCCeEEEEeee
Q 003366          205 -------RHCMSLGYSAKSKAANTIGQYGNGFKTS---TMRLGADVIVFSCC  246 (826)
Q Consensus       205 -------~~~LsfG~SsK~~~~~~IGrfG~GfKsA---smrLG~~v~V~SK~  246 (826)
                             ...+..|++.+.. ....+-.|+|+..+   .-.+|-.+.|.|..
T Consensus       185 ~~~~~~~~~iF~p~fst~~~-~~~~~G~GlGL~iv~~~v~~~gG~i~v~s~~  235 (379)
T 1b3q_A          185 LSDQEILNFLFVPGFSTKEK-VSEVSGRGVGMDVVKNVVESLNGSMGIESEK  235 (379)
T ss_dssp             SCTHHHHSGGGSTTCC------------CCCSHHHHHHHHHTTCEEEEEEET
T ss_pred             CCHHHHHHHhcCCCCccCCc-cCCCCCccccHHHHHHHHHHCCCEEEEEEcC
Confidence                   4455667776532 23456679998632   22578889998874

>3jz3_A Sensor protein QSEC; helix-turn-helix, kinase domain, ATP-binding, cell inner MEM cell membrane, kinase, membrane, nucleotide-binding; 2.50A {Escherichia coli}

Probab=96.96  E-value=0.00035  Score=66.57  Aligned_cols=86  Identities=19%  Similarity=0.210  Sum_probs=40.9

Q ss_pred             cHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcccc
Q 003366          152 WALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFKT  231 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfKs  231 (826)
                      ....+|.+||+||+.+.. ....|.|.+  ..  .  .|.|.|||.||+++++.+.+...++.+.   ..-+..|+|+..
T Consensus       117 ~l~~il~nLl~NAi~~~~-~~~~i~i~~--~~--~--~i~V~D~G~Gi~~~~~~~if~~f~~~~~---~~~~g~GlGL~i  186 (222)
T 3jz3_A          117 LLSLLVRNLLDNAVRYSP-QGSVVDVTL--NA--D--NFIVRDNGPGVTPEALARIGERFYRPPG---QTATGSGLGLSI  186 (222)
T ss_dssp             HHHHHHHHHHHHHHHTCC-TTCEEEEEE--CS--S--EEEEECSCC-----------------------------CTHHH
T ss_pred             HHHHHHHHHHHHHHHcCC-CCCeEEEEE--cc--C--eEEEEECCCCCCHHHHHHHHhhhccCCC---CCCCcccccHHH
Confidence            456789999999999943 234455555  22  1  2999999999999999988765444321   123457888864


Q ss_pred             cc---cccCCeEEEEeeec
Q 003366          232 ST---MRLGADVIVFSCCC  247 (826)
Q Consensus       232 As---mrLG~~v~V~SK~~  247 (826)
                      +-   -.+|-.+.|.+...
T Consensus       187 ~~~i~~~~gG~i~i~s~~~  205 (222)
T 3jz3_A          187 VQRIAKLHGMNVEFGNAEQ  205 (222)
T ss_dssp             HHHHHHHTTCEEECCBCTT
T ss_pred             HHHHHHHcCCEEEEEcCCC
Confidence            32   25677887777643

>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima}

Probab=96.93  E-value=0.00087  Score=68.25  Aligned_cols=86  Identities=10%  Similarity=0.075  Sum_probs=59.1

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....+|.+||+||+.+.. .+..|.|.+...  ++...|.|.|||.||+++.+.+.+...++.+.      +..|+|+.
T Consensus       243 ~~l~~vl~nLl~NA~k~~~-~~~~i~i~~~~~--~~~~~i~v~D~G~Gi~~~~~~~if~~f~~~~~------~g~GlGL~  313 (349)
T 3a0r_A          243 TRIKQVLINLVQNAIEATG-ENGKIKITSEDM--YTKVRVSVWNSGPPIPEELKEKIFSPFFTTKT------QGTGLGLS  313 (349)
T ss_dssp             HHHHHHHHHHHTHHHHTTC-TTCCEEEEEEEE--TTEEEEEEEEESCCCCGGGGTTTSSSCCCC------------CCCT
T ss_pred             HHHHHHHHHHHHHHHHhcc-CCCEEEEEEEec--CCEEEEEEEECCCCCChHHHhhcCCCCccCCC------CCccchHH
Confidence            4567889999999999953 245677777543  46678999999999999999988876665542      24588876


Q ss_pred             ccc--c--ccCCeEEEEee
Q 003366          231 TST--M--RLGADVIVFSC  245 (826)
Q Consensus       231 sAs--m--rLG~~v~V~SK  245 (826)
                      .+-  +  ..|-.+.+-+.
T Consensus       314 i~~~~v~~~~gg~i~~~~~  332 (349)
T 3a0r_A          314 ICRKIIEDEHGGKIWTENR  332 (349)
T ss_dssp             HHHHHHHHTTCSBCCEEEC
T ss_pred             HHHHHHHHhCCCEEEEEeC
Confidence            431  1  36666666665

>3zxo_A Redox sensor histidine kinase response regulator; transferase; HET: MSE; 1.90A {Mycobacterium tuberculosis}

Probab=96.75  E-value=0.0016  Score=57.70  Aligned_cols=71  Identities=20%  Similarity=0.287  Sum_probs=52.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...+|.+||+||+.+.  .+..|.|.+...  ++ ..|.|.|||.||+++.                     .|+|+.
T Consensus        42 ~~l~~il~nll~NA~k~~--~~~~i~i~~~~~--~~-~~i~v~D~G~gi~~~~---------------------~GlGL~   95 (129)
T 3zxo_A           42 DQAEAVVREAVSNAVRHA--AASTLTVRVKVD--DD-LCIEVTDNGRGMPDEF---------------------TGSGLT   95 (129)
T ss_dssp             HHHHHHHHHHHHHCCCCS--SCCEEEEEEEES--SE-EEEEEEECCCCCTTTT---------------------CSHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC--CCceEEEEEEEc--CC-EEEEEecCCCCCCccc---------------------CCcCHH
Confidence            456778999999999984  356788877654  34 7899999999998875                     377875


Q ss_pred             ccc---cccCCeEEEEeeec
Q 003366          231 TST---MRLGADVIVFSCCC  247 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~~  247 (826)
                      .+.   -.+|-.+.+.+...
T Consensus        96 i~~~~~~~~gG~i~~~~~~~  115 (129)
T 3zxo_A           96 NLRQRAEQAGGEFTLASMPG  115 (129)
T ss_dssp             HHHHHHHHTTCEEEEEECTT
T ss_pred             HHHHHHHHcCCEEEEeeCCC
Confidence            322   24677788877653

>3zxq_A Hypoxia sensor histidine kinase response regulato; transferase; 1.90A {Mycobacterium tuberculosis}

Probab=96.04  E-value=0.0065  Score=53.45  Aligned_cols=70  Identities=20%  Similarity=0.265  Sum_probs=50.8

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .....++.|||+||+.+.  .+..|.|.+...  ++ ..|.|.|||.||+++.                     -|+|+.
T Consensus        38 ~~l~~il~nll~Na~k~~--~~~~i~i~~~~~--~~-~~i~v~D~G~gi~~~~---------------------~GlGL~   91 (124)
T 3zxq_A           38 NHAEAVLREAVSNAVRHA--NATSLAINVSVE--DD-VRVEVVDDGVGISGDI---------------------TESGLR   91 (124)
T ss_dssp             HHHHHHHHHHHHHHHTCT--TCCEEEEEEEEE--EE-EEEEEEECCCSSCGGG---------------------SHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC--CCCEEEEEEEeC--CC-EEEEEEECCCCCCccc---------------------cccCHH
Confidence            455678999999999984  356777777654  34 7899999999999886                     177765


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -.+|-.+.+.+..
T Consensus        92 ~~~~~~~~~gG~i~~~~~~  110 (124)
T 3zxq_A           92 NLRQRADDAGGEFTVENMP  110 (124)
T ss_dssp             HHHHHHHHHTCEEEEEECT
T ss_pred             HHHHHHHHhCCEEEEEEcC
Confidence            322   2466777777764

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=94.06  E-value=0.4  Score=53.71  Aligned_cols=25  Identities=24%  Similarity=0.335  Sum_probs=16.7

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGEL  744 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~  744 (826)
                      +..+.+++.+...|++++...|+.+
T Consensus       455 ~~e~~~~~~~i~~l~~~~~~~~~~l  479 (597)
T 3oja_B          455 EAEVNELRAEVQQLTNEQIQQEQLL  479 (597)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3346677777777777777666664

>4fpp_A Phosphotransferase; four helix bundle, bergerat fold, CCKA, CTRA, CPDR, bacterial cytoplasme; 2.20A {Caulobacter crescentus} PDB: 4fmt_A

Probab=93.62  E-value=0.077  Score=53.22  Aligned_cols=86  Identities=12%  Similarity=0.086  Sum_probs=56.2

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCC--CCHHHHhhhccccccccccCCcccCcccCc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGG--MNPDKMRHCMSLGYSAKSKAANTIGQYGNG  228 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~G--Ms~eeL~~~LsfG~SsK~~~~~~IGrfG~G  228 (826)
                      .+...++..||+||++|...+ ..|.|.+...  ++...|.|.|+|.|  ++++.+...+...++.+      .+-.|+|
T Consensus       145 ~~~~qvl~NLl~NA~~a~~~g-g~I~v~~~~~--~~~~~i~V~D~G~Gi~i~~~~~~~~f~~~~~~~------~~G~GLG  215 (247)
T 4fpp_A          145 KPSSRAVLNIAQIAASALPAG-GVATVKGVAA--DGRFSIIADAKGPRARLRPEVLAGLKGEPLAEG------LGGPWVQ  215 (247)
T ss_dssp             HHHHHHHHHHHHHHHTTCTTC-CEEEEEEEEE--TTEEEEEEEEESTTCCCCHHHHHHHTTCCCCSS------CHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCC-CeEEEEEEEE--CCEEEEEEEEcCCCCCCCHHHHHHhcCCCCCCC------CCCccHH
Confidence            345678999999999996533 4577777543  46778999999987  66665555543222222      2234788


Q ss_pred             cccc---ccccCCeEEEEee
Q 003366          229 FKTS---TMRLGADVIVFSC  245 (826)
Q Consensus       229 fKsA---smrLG~~v~V~SK  245 (826)
                      +..+   .-..|-.+.|-|.
T Consensus       216 Lai~~~iv~~hGG~i~v~s~  235 (247)
T 4fpp_A          216 AAYLNALVRAAGGQIAVEIG  235 (247)
T ss_dssp             HHHHHHHHHHTTCEEEEEEE
T ss_pred             HHHHHHHHHHcCCEEEEEEc
Confidence            7532   2256888888765

>4gfh_A DNA topoisomerase 2; topoisomerase, protein-DNA complex, DNA supercoiling, DNA replication; HET: DNA PTR TSP ANP; 4.41A {Saccharomyces cerevisiae}

Probab=92.56  E-value=0.13  Score=63.84  Aligned_cols=86  Identities=17%  Similarity=0.247  Sum_probs=53.1

Q ss_pred             HHHHHHHhccchhhhhCC-C-ceEEEEEEEccCCCceEEEEEECCCCCCHHHH--------hhhcc-ccccccccC---C
Q 003366          154 LGAFAELLDNSLDEVCNG-A-TYSNIDMLINRKDGSRMLLIEDNGGGMNPDKM--------RHCMS-LGYSAKSKA---A  219 (826)
Q Consensus       154 FgAIAELIDNAiDA~~~g-A-t~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL--------~~~Ls-fG~SsK~~~---~  219 (826)
                      .--|-|+||||+|...++ + +.|.|.+..    ....|+|.|||.||+-+.-        .-+|. +-...|..+   .
T Consensus        61 ~hl~~EildNsiDea~ag~~~~~I~V~i~~----~d~sisV~DnGRGIPvd~h~~~~~~~~Evv~t~LhAGgKFd~~~yk  136 (1177)
T 4gfh_A           61 FKIFDEILVNAADNKVRDPSMKRIDVNIHA----EEHTIEVKNDGKGIPIEIHNKENIYIPEMIFGHLLTSSNYDDDEKK  136 (1177)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCCEEEEEEET----TTTEEEEEECSSCCCCSBCTTTCSBHHHHHHHSSSEESCCCCSSCC
T ss_pred             eeEeeEEEEChHhHHhhCCCCCeEEEEEEC----CCCEEEEEecCCcccccccCCCCCEeeeeeccccccccCcCCCCCe
Confidence            345789999999954434 2 567777642    1347999999999985421        11121 233334322   3


Q ss_pred             cccCcccCcccccccccCCeEEEEe
Q 003366          220 NTIGQYGNGFKTSTMRLGADVIVFS  244 (826)
Q Consensus       220 ~~IGrfG~GfKsAsmrLG~~v~V~S  244 (826)
                      .+-|.-|+|.+- .=.|+..+.|-+
T Consensus       137 vSGGLHGVG~sv-VNALS~~~~vev  160 (1177)
T 4gfh_A          137 VTGGRNGYGAKL-CNIFSTEFILET  160 (1177)
T ss_dssp             CCSCCSSCHHHH-HHHTEEEEEEEE
T ss_pred             EeccCCChhhhH-HhhcCCceEEEE
Confidence            467999999753 334677766555

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=92.22  E-value=1.2  Score=45.79  Aligned_cols=93  Identities=15%  Similarity=0.194  Sum_probs=55.4

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      +..|..|...++.|+...|+.+..-+++...+++++++++.+++++..+-+.+..-+.++...-+.|.+.|+.+-++...
T Consensus        92 ~~aL~kEie~~~~~i~~lE~eile~~e~ie~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~e~~~e~~~l~~~r~~l~~  171 (256)
T 3na7_A           92 LRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVENEVKNIKETQQIIFKKKEDLVE  171 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44555566666666666666666555666666666666666666666666655555555555555666666666666555


Q ss_pred             HH-HHHHHHHhhhh
Q 003366          803 TI-QDLLDKIKLLE  815 (826)
Q Consensus       803 ~i-~~~~~~~~~~~  815 (826)
                      .| .+||..-..+.
T Consensus       172 ~i~~~lL~~Yerir  185 (256)
T 3na7_A          172 KTEPKIYSFYERIR  185 (256)
T ss_dssp             TSCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHH
Confidence            55 35555444444

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=90.19  E-value=1.5  Score=54.02  Aligned_cols=26  Identities=15%  Similarity=0.431  Sum_probs=12.3

Q ss_pred             hhhcHHHHHHHHHHHHHHHHHHHHHH
Q 003366          750 RCRSLEAQLKVMQQTIEELNKEQESL  775 (826)
Q Consensus       750 ~~~~l~~~~~~~~~~~~~~~keq~~l  775 (826)
                      +.++|++++++++++++++.||-+.|
T Consensus       985 ~v~~L~~e~~~l~~~~~~~~ke~~~l 1010 (1080)
T 2dfs_A          985 RVLSLQEEIAKLRKELHQTQTEKKTI 1010 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            33444444444444444444444444

>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon, coiled post-transcriptional, gene regulation, chaperone; HET: EPE; 2.20A {Helicobacter pylori}

Probab=89.90  E-value=3.7  Score=42.26  Aligned_cols=21  Identities=5%  Similarity=0.158  Sum_probs=10.5

Q ss_pred             hhhhhhhhhHHHHHHHHhHHh
Q 003366          723 LGQLKQENHELKKRLEKKEGE  743 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~  743 (826)
                      +++++.+..+++.|+.+.+..
T Consensus        62 ~~~~e~~i~~~~~ri~~~~~~   82 (256)
T 3na7_A           62 VSKNEQTLQDTNAKIASIQKK   82 (256)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH
Confidence            444445555555555554443

>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil (dimeric, parallel), familial hypertrophic cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo sapiens} SCOP: h.1.26.1 PDB: 2fxm_A

Probab=89.53  E-value=4.6  Score=37.85  Aligned_cols=83  Identities=30%  Similarity=0.416  Sum_probs=43.3

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHH-HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEER-ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEER-DRREREEENLRKKIKDA  800 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~-~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer-~rr~~e~~~lr~kl~~a  800 (826)
                      ++.+.++...|++.|.+.+.. +.|+ +++..|..+..+++.+|+   .|++.|-|+  ||| .|-...+..|..||+++
T Consensus        15 ~~~~~eel~~lke~l~k~e~~-r~ele~~~~~l~~Ek~~L~~qL~---~E~~~l~e~--EE~~~~L~~~k~eLe~~l~el   88 (129)
T 2fxo_A           15 MASMKEEFTRLKEALEKSEAR-RKELEEKMVSLLQEKNDLQLQVQ---AEQDNLADA--EERCDQLIKNKIQLEAKVKEM   88 (129)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhH--HHHHHHHHHHHHHHHHHHHHH
Confidence            556666666677776654433 3333 556666666666665544   355555554  333 23333344455555555


Q ss_pred             HHHHHHHHHHH
Q 003366          801 SDTIQDLLDKI  811 (826)
Q Consensus       801 ~~~i~~~~~~~  811 (826)
                      ..-+.+.-++.
T Consensus        89 ~~rleeeee~~   99 (129)
T 2fxo_A           89 NKRLEDEEEMN   99 (129)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55554443333

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=89.18  E-value=0.94  Score=55.98  Aligned_cols=11  Identities=27%  Similarity=0.746  Sum_probs=7.0

Q ss_pred             CcceeeeeecC
Q 003366          487 GRGVIGVLEAN  497 (826)
Q Consensus       487 GrGVIGVlEan  497 (826)
                      ....|||||..
T Consensus       456 ~~~~IgvLDi~  466 (1184)
T 1i84_S          456 GASFLGILDIA  466 (1184)
T ss_dssp             -CEEEEEEECC
T ss_pred             CcceEEEeecC
Confidence            34677777775

>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp contractIle protein-transport protein complex; 24.00A {Gallus gallus}

Probab=88.89  E-value=1.4  Score=54.26  Aligned_cols=93  Identities=16%  Similarity=0.179  Sum_probs=39.4

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHH-------HHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---hhhH----H
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEE-------RERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEER---DRRE----R  788 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e-------~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer---~rr~----~  788 (826)
                      |..++++|.+|.+++...++.++.|       ++..+.++.+++.++.++.++.+|.+.|-+-+.+..   ...+    +
T Consensus       937 L~~~e~~n~~L~~~~~~~~~~~~~e~~~L~~~l~~le~~~~e~~~~~~~v~~L~~e~~~l~~~~~~~~ke~~~lee~~~~ 1016 (1080)
T 2dfs_A          937 IDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADK 1016 (1080)
T ss_dssp             --------------CHHHHHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4445567777777766555544333       444555666666666666666666666655554432   2221    2


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 003366          789 EEENLRKKIKDASDTIQDLLDKIKLLE  815 (826)
Q Consensus       789 e~~~lr~kl~~a~~~i~~~~~~~~~~~  815 (826)
                      ..+.|..|+..-.+..+.|-.++..++
T Consensus      1017 ~~~~L~~kv~~L~~e~~~L~qq~~~l~ 1043 (1080)
T 2dfs_A         1017 YKHETEQLVSELKEQNTLLKTEKEELN 1043 (1080)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            223444444444444444444444443

>3ke6_A Protein RV1364C/MT1410; anti-sigma factor, anti-sigma factor antagonist, phosphatase serine kinase, ATPase, unknown function; 2.60A {Mycobacterium tuberculosis}

Probab=88.75  E-value=0.39  Score=52.03  Aligned_cols=75  Identities=13%  Similarity=0.149  Sum_probs=43.4

Q ss_pred             cHHHHHHHHhccchhhhhC--CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCcc
Q 003366          152 WALGAFAELLDNSLDEVCN--GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGF  229 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~--gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~Gf  229 (826)
                      .+.-|+.|||.||+.....  ....|.|.+.... ++...|.|.|+|.|+++.          .       .-+.-|.|+
T Consensus       297 ~~~l~v~El~~Nav~Ha~~~~~~g~i~v~~~~~~-~~~l~i~V~D~G~g~~~~----------~-------~~~~~G~GL  358 (399)
T 3ke6_A          297 DIVHAISEFVENAVEHGYATDVSKGIVVAAALAG-DGNVRASVIDRGQWKDHR----------D-------GARGRGRGL  358 (399)
T ss_dssp             HHHHHHHHHHHHHHHHBCCSCCTTCEEEEEEECT-TSEEEEEEEESCBC-----------------------------CH
T ss_pred             HHHHHHHHHHHHHHHhcccCCCCceEEEEEEEcC-CCEEEEEEEECCCCCCCC----------C-------CCCCCCcHH
Confidence            3456899999999998310  1356777776532 346789999999999876          0       012347777


Q ss_pred             cccccccCCeEEEEee
Q 003366          230 KTSTMRLGADVIVFSC  245 (826)
Q Consensus       230 KsAsmrLG~~v~V~SK  245 (826)
                      .... +++..+.+.+.
T Consensus       359 ~lv~-~l~~~~~~~~~  373 (399)
T 3ke6_A          359 AMAE-ALVSEARIMHG  373 (399)
T ss_dssp             HHHH-TTSSEEEEEEE
T ss_pred             HHHH-HHHHheeeEEC
Confidence            5432 47777775543

>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein, nuclear protein, neurogenesis, cytosk LIS1 binding, differentiation; 2.24A {Rattus norvegicus}

Probab=88.48  E-value=7  Score=39.46  Aligned_cols=89  Identities=12%  Similarity=0.278  Sum_probs=46.3

Q ss_pred             hhhhhhhhHHHHHHHHhHHhHHHHH-----------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 003366          724 GQLKQENHELKKRLEKKEGELQEER-----------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEEN  792 (826)
Q Consensus       724 ~~~~~e~~~~~~~~~~~~~~~~~e~-----------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~  792 (826)
                      .+|+.|..+..+-=..+|.+|..|+           .++..|..+++.++.|++....|-...|..+..|-..--.+.+.
T Consensus        27 ~~le~El~EFqesSrELE~ELE~eL~~~Ek~~~~L~~~~~~L~~E~e~~k~K~~~~~~e~~~~~~~Lq~el~~l~~~~~~  106 (189)
T 2v71_A           27 QEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQADNQRLKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQTRAIKEQ  106 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3344444444444444444454444           44445555556666666666666555566665554444444445


Q ss_pred             HHHHH--------------HHHHHHHHHHHHHHh
Q 003366          793 LRKKI--------------KDASDTIQDLLDKIK  812 (826)
Q Consensus       793 lr~kl--------------~~a~~~i~~~~~~~~  812 (826)
                      |+++|              ..++.+++|+=.+++
T Consensus       107 l~~~ireLEq~NDdlEr~~R~~~~SleD~e~kln  140 (189)
T 2v71_A          107 LHKYVRELEQANDDLERAKRATIMSLEDFEQRLN  140 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHhhHHHHHHHHH
Confidence            54444              334555555555554

>3u59_A Tropomyosin beta chain; muscle contraction, actin, contractIle protein; 2.50A {Gallus gallus}

Probab=88.20  E-value=8.9  Score=34.49  Aligned_cols=89  Identities=25%  Similarity=0.419  Sum_probs=63.0

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      |..|+.|.....+|....+..+...-+++..++.++..+++++.-+..+-+.+-+-+.+-..    .-+.-++++.+|-.
T Consensus        11 m~~lk~e~e~a~d~ae~~e~~~k~~e~~~~~~E~ei~sL~kKiq~lE~eld~~~e~l~~a~~----kLe~~ek~~~~AE~   86 (101)
T 3u59_A           11 MQMLKLDKENAIDRAEQAEADKKQAEDRCKQLEEEQQGLQKKLKGTEDEVEKYSESVKEAQE----KLEQAEKKATDAEA   86 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence            66788888888999999999988888889999999999999887666665544443332221    11222455566777


Q ss_pred             HHHHHHHHHhhhh
Q 003366          803 TIQDLLDKIKLLE  815 (826)
Q Consensus       803 ~i~~~~~~~~~~~  815 (826)
                      .+..|--+|..+|
T Consensus        87 evasLnRriqllE   99 (101)
T 3u59_A           87 EVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHc
Confidence            7777777776665

>1l8d_A DNA double-strand break repair RAD50 ATPase; zinc finger, DNA repair, recombination, HOOK motif, replication; HET: DNA CIT; 2.20A {Pyrococcus furiosus} SCOP: h.4.12.1

Probab=88.12  E-value=6.4  Score=35.30  Aligned_cols=65  Identities=18%  Similarity=0.302  Sum_probs=46.7

Q ss_pred             HhhhcHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 003366          749 ERCRSLEAQLKVMQQTIEELNK---------------EQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKL  813 (826)
Q Consensus       749 ~~~~~l~~~~~~~~~~~~~~~k---------------eq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~  813 (826)
                      .....|+.+++++++.++++++               ....+|+-+..+...-..+-+.|+.++.+....|+.|-.+++.
T Consensus        24 ~~~~~l~~~i~~l~~~l~~l~~~g~~CPvCgs~l~~~~~~~~i~~~~~~l~~l~~~i~~l~~~i~~l~~~~~~l~~~~~~  103 (112)
T 1l8d_A           24 QRIGELKNKIGDLKTAIEELKKAKGKCPVCGRELTDEHREELLSKYHLDLNNSKNTLAKLIDRKSELERELRRIDMEIKR  103 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCSEECTTTCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4455677788888888888765               2245777777777777777777788877777777777777763

>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET: MSE; 2.33A {Homo sapiens}

Probab=87.17  E-value=8.8  Score=38.12  Aligned_cols=84  Identities=21%  Similarity=0.329  Sum_probs=53.4

Q ss_pred             HHHHHhHHhHHHHH----HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH-----------------HHHHHH
Q 003366          735 KRLEKKEGELQEER----ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRRE-----------------REEENL  793 (826)
Q Consensus       735 ~~~~~~~~~~~~e~----~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~-----------------~e~~~l  793 (826)
                      .||.|...+++.-+    .+|+-|...+.-++..-..+.++-..|=-.+.+||.-|-                 .|-+.+
T Consensus        30 ~rlkK~~tEl~k~~~~~E~~~rELq~~~~~L~~~k~~Leke~~~LQa~L~qEr~~r~q~se~~~elq~ri~~L~~El~~~  109 (168)
T 3o0z_A           30 VRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRGHDSEMIGDLQARITSLQEEVKHL  109 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            46666666664333    444444444444555555555555555556666664433                 345677


Q ss_pred             HHHHHHHHHHHHHHHHHHhhhhhcC
Q 003366          794 RKKIKDASDTIQDLLDKIKLLEKMK  818 (826)
Q Consensus       794 r~kl~~a~~~i~~~~~~~~~~~~~~  818 (826)
                      +.++..+...-+.|-|+|..+||-|
T Consensus       110 k~~~~k~~~e~r~L~Ekl~~lEKe~  134 (168)
T 3o0z_A          110 KHNLEKVEGERKEAQDMLNHSEKEK  134 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888899999999999854

>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment 2, heavy meromyosin, essential light chain, motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A

Probab=87.12  E-value=1.9  Score=53.25  Aligned_cols=13  Identities=31%  Similarity=0.590  Sum_probs=7.7

Q ss_pred             ceeeeeecCcccc
Q 003366          489 GVIGVLEANFVEP  501 (826)
Q Consensus       489 GVIGVlEanfleP  501 (826)
                      |++.+||---+-|
T Consensus       535 Gil~lLdee~~~p  547 (1184)
T 1i84_S          535 GVLALLDEECWFP  547 (1184)
T ss_dssp             CHHHHHHHTTSCT
T ss_pred             CchhhhhhhhCCC
Confidence            7777776544445

>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle protein; 1.80A {Gallus gallus} PDB: 3u1a_A

Probab=86.83  E-value=12  Score=33.83  Aligned_cols=89  Identities=17%  Similarity=0.311  Sum_probs=61.3

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASD  802 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~  802 (826)
                      |..|+.|.....+|....+..+...-+++..++.++..++++|..+..+-+.+-+-+.+-...-+  +  -.+++.+|-.
T Consensus        11 m~~lk~e~e~a~drae~~e~~~k~~e~~~~~~E~Ei~sL~kk~~~lE~eld~~ee~L~ea~~kLe--e--~ek~~~~aE~   86 (101)
T 3u1c_A           11 MQMLKLDKENALDRAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLL--F--AEENAAKAES   86 (101)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--H--HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--H--HHHHHHHHHH
Confidence            67788888888999999999988888899999999999999887665555544444443322211  1  1344456666


Q ss_pred             HHHHHHHHHhhhh
Q 003366          803 TIQDLLDKIKLLE  815 (826)
Q Consensus       803 ~i~~~~~~~~~~~  815 (826)
                      .+..|--+|..+|
T Consensus        87 ev~~L~RriqllE   99 (101)
T 3u1c_A           87 EVASLNRRIQLVE   99 (101)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666655

>1ixm_A SPO0B, protein (sporulation response regulatory protein); phosphotransferase, two component system; 2.60A {Bacillus subtilis} SCOP: d.123.1.1 PDB: 2ftk_A* 1f51_A

Probab=86.81  E-value=0.39  Score=47.85  Aligned_cols=57  Identities=14%  Similarity=0.254  Sum_probs=36.7

Q ss_pred             HHHHHhccchhhhhC-----CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccc
Q 003366          156 AFAELLDNSLDEVCN-----GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGY  212 (826)
Q Consensus       156 AIAELIDNAiDA~~~-----gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~  212 (826)
                      .+..|++||.+|+.+     ....|.|.+.....++...|.|.|+|.|++.+.+.+++.-|+
T Consensus       109 ~lgnLi~na~~Ai~~~~~~~~~~~I~i~i~~~~~~~~l~i~V~d~G~~i~~e~~~~if~~~~  170 (192)
T 1ixm_A          109 KLAKLMRKLFHLFDQAVSRESENHLTVSLQTDHPDRQLILYLDFHGAFADPSAFDDIRQNGY  170 (192)
T ss_dssp             HHHHHHHHHHHHHHHHBCTTSCCEEEEEEECCCSSSSCEEEEEEESCBSCGGGCC-------
T ss_pred             HHHHHHHHHHHHHHhhhccCCCCeEEEEEEEecCCCEEEEEEEeCCCCCCHHHHHHHHhCCC
Confidence            356788888888642     235677777653113568899999999999999888875444

>2ocy_A RAB guanine nucleotide exchange factor SEC2; RAB, GEF, guanine exchange factor, coiled-coil, endocytosis/exocytosis complex; 3.30A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=86.63  E-value=9.9  Score=37.28  Aligned_cols=30  Identities=20%  Similarity=0.330  Sum_probs=23.8

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 003366          787 EREEENLRKKIKDASDTIQDLLDKIKLLEK  816 (826)
Q Consensus       787 ~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~  816 (826)
                      +...+.|++.|+|+-..|..|=++|..|..
T Consensus       114 e~r~~~L~~ql~e~~~~l~~lq~ql~~LK~  143 (154)
T 2ocy_A          114 EILNKRLTEQLREKDTLLDTLTLQLKNLKK  143 (154)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444567999999999888888888887653

>1ses_A Seryl-tRNA synthetase; ligase; HET: AHX AMP; 2.50A {Thermus thermophilus} SCOP: a.2.7.1 d.104.1.1 PDB: 1ser_A* 1set_A* 1sry_A

Probab=86.04  E-value=3  Score=46.24  Aligned_cols=97  Identities=16%  Similarity=0.311  Sum_probs=55.0

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhhhHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFA----EERDRREREEENLRKKIK  798 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~----eer~rr~~e~~~lr~kl~  798 (826)
                      |+.+++.-..+++.|.++-.++.  .++-..|.++...+++++++++.++-++=..+.    |++..--.|-..|+++|+
T Consensus         4 ~~~~r~~~~~~~~~~~~r~~~~~--~~~~~~~~~~~r~~~~~~~~l~~~~n~~sk~i~~~~~~~~~~l~~~~~~~~~~~~   81 (421)
T 1ses_A            4 LKRLRQEPEVFHRAIREKGVALD--LEALLALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAK   81 (421)
T ss_dssp             HHHHHHCHHHHHHHHHHHTCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHhCCCcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHH
Confidence            66777766777888887755431  555555555555556666666555555544443    333333344555555666


Q ss_pred             HHHHHHHHHHHHHhhhhhcCCCCc
Q 003366          799 DASDTIQDLLDKIKLLEKMKTPSI  822 (826)
Q Consensus       799 ~a~~~i~~~~~~~~~~~~~~~~~~  822 (826)
                      +.-....++-+++..+- +..||.
T Consensus        82 ~~~~~~~~~~~~~~~~~-~~ipN~  104 (421)
T 1ses_A           82 RLEEALREKEARLEALL-LQVPLP  104 (421)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTCCCC
T ss_pred             HHHHHHHHHHHHHHHHH-HhCCCC
Confidence            55555555555555433 556654

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=86.02  E-value=2.3  Score=46.75  Aligned_cols=30  Identities=23%  Similarity=0.335  Sum_probs=16.7

Q ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          781 EERDRREREEENLRKKIKDASDTIQDLLDK  810 (826)
Q Consensus       781 eer~rr~~e~~~lr~kl~~a~~~i~~~~~~  810 (826)
                      ||.+|-..|-+++-+++.+|-.|.||+..+
T Consensus       449 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  478 (487)
T 3oja_A          449 EENARLKKLNGEADLALASANATLQELVVR  478 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhhhhhhhhhhhhHhcccHHHHHHHH
Confidence            444455555555555556666666666544

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=85.52  E-value=3.8  Score=44.99  Aligned_cols=57  Identities=12%  Similarity=0.145  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 003366          758 LKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLL  814 (826)
Q Consensus       758 ~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~  814 (826)
                      .+++++++|.....++.+.+++++|-+.-.+|.+.|++.+.+.-..|.+-.+++..+
T Consensus       419 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  475 (487)
T 3oja_A          419 YEEMYVEQQSVQNNAIRDWDMYQHKETQLAEENARLKKLNGEADLALASANATLQEL  475 (487)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcchhhhhhhhhHHHHHHHHhhhhhhhhhhhhhhhHhcccHHHHH
Confidence            344444444444445566677777777777788888888888888887777776654

>2jee_A YIIU; FTSZ, septum, coiled-coil, cell division, cell cycle, hypothetical protein; 2.8A {Escherichia coli}

Probab=85.48  E-value=11  Score=33.55  Aligned_cols=74  Identities=20%  Similarity=0.392  Sum_probs=47.6

Q ss_pred             HHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 003366          735 KRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDASDTIQDLLDKIK  812 (826)
Q Consensus       735 ~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~  812 (826)
                      |-|.++|+.++.=.|....|..++++++.+-..++.+.+.+    ...|+..++|-+.|+.-...=-.-|+.||.|+.
T Consensus         6 ElleqLE~KIq~avdtI~lLqmEieELKekN~~L~~e~~e~----~~~~~~L~~en~qLk~E~~~wq~Rl~~LLgk~e   79 (81)
T 2jee_A            6 EVFEKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNA----QHQREELERENNHLKEQQNGWQERLQALLGRME   79 (81)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            34555566666666666667667766666666666655443    445666666767776666666667777777753

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae}

Probab=84.98  E-value=6.1  Score=44.17  Aligned_cols=100  Identities=19%  Similarity=0.165  Sum_probs=48.8

Q ss_pred             chhhhhhhhhhhHHHHHHHHhHHhHHHHHHh-------hhcHHHHHHHHHHHHHHHHHHHHHHH--------------HH
Q 003366          720 GANLGQLKQENHELKKRLEKKEGELQEERER-------CRSLEAQLKVMQQTIEELNKEQESLI--------------DI  778 (826)
Q Consensus       720 ~~~~~~~~~e~~~~~~~~~~~~~~~~~e~~~-------~~~l~~~~~~~~~~~~~~~keq~~li--------------~~  778 (826)
                      +..+.+|++|.....+-+..+++++...++.       .....+++++..+++++..++-+...              +-
T Consensus       462 ~~~i~~l~~~~~~~~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  541 (597)
T 3oja_B          462 RAEVQQLTNEQIQQEQLLQGLHAEIDTNLRRYRLPKDGLARSSDNLNKVFTHLKERQAFKLRETQARRTEADAKQKETED  541 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcCccccccCCHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhhhcchhh
Confidence            4567777777777777776666666444321       11122233332233222222222222              22


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhcCC
Q 003366          779 FAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKMKT  819 (826)
Q Consensus       779 f~eer~rr~~e~~~lr~kl~~a~~~i~~~~~~~~~~~~~~~  819 (826)
                      +-+|+++-++..+..++++++....++++..+++.++.--.
T Consensus       542 ~~~~~~~le~~~~~~~~~~~~l~~e~~~~~~~~~~l~~~~~  582 (597)
T 3oja_B          542 LEQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKKN  582 (597)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHhhhHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            22444444444455555555555555566666666664433

>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1 PDB: 2tma_A 2w49_A 2w4u_A

Probab=84.58  E-value=15  Score=35.17  Aligned_cols=17  Identities=24%  Similarity=0.368  Sum_probs=6.5

Q ss_pred             hhhhhhHHHHHHHHhHH
Q 003366          726 LKQENHELKKRLEKKEG  742 (826)
Q Consensus       726 ~~~e~~~~~~~~~~~~~  742 (826)
                      |+.+...+..++..++.
T Consensus        11 l~~~~~~~~~~~~~l~~   27 (284)
T 1c1g_A           11 LKLDKENALDRADEAEA   27 (284)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHH
Confidence            33333333333333333

>2eqb_B RAB guanine nucleotide exchange factor SEC2; coiled coil, endocytosis/exocytosis complex; 2.70A {Saccharomyces cerevisiae} SCOP: h.1.33.1

Probab=84.58  E-value=10  Score=34.58  Aligned_cols=49  Identities=16%  Similarity=0.317  Sum_probs=36.4

Q ss_pred             hhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHH
Q 003366          722 NLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNK  770 (826)
Q Consensus       722 ~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~k  770 (826)
                      -|.+|+.++......+.++.+.|..|+.++...|.++..+++.||+|.-
T Consensus        13 ~l~~le~~~~~~~~e~~~L~~~l~eE~~~R~~aE~~~~~ie~ElEeLTa   61 (97)
T 2eqb_B           13 DYNTLKRELSDRDDEVKRLREDIAKENELRTKAEEEADKLNKEVEDLTA   61 (97)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3666666777777777777777888888888888888777777777653

>2oto_A M protein; helical coiled coil, fibrinogen-binding, virulence factor, S active protein, toxin; 3.04A {Streptococcus pyogenes serotype M1} PDB: 2xny_M

Probab=83.05  E-value=19  Score=34.51  Aligned_cols=44  Identities=32%  Similarity=0.465  Sum_probs=26.5

Q ss_pred             hhhhhhhHHHHHHHHhHHhH----------H---HHH-HhhhcHHHHHHHHHHHHHHH
Q 003366          725 QLKQENHELKKRLEKKEGEL----------Q---EER-ERCRSLEAQLKVMQQTIEEL  768 (826)
Q Consensus       725 ~~~~e~~~~~~~~~~~~~~~----------~---~e~-~~~~~l~~~~~~~~~~~~~~  768 (826)
                      .|+.||..|++.+......+          +   +++ ++++.|..++.+++.+...+
T Consensus        26 ~l~~eN~~Lk~e~e~l~~~~~~~~~~~~eL~~~~~~Le~~n~~L~~~lke~~~~~~~l   83 (155)
T 2oto_A           26 RLRHENKDLKARLENAMEVAGRDFKRAEELEKAKQALEDQRKDLETKLKELQQDYDLA   83 (155)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            67777777777776554322          2   122 55667777777776666333

>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic vesicle, protein transport, transport, vacuole; 2.80A {Saccharomyces cerevisiae}

Probab=82.98  E-value=3.3  Score=40.55  Aligned_cols=59  Identities=19%  Similarity=0.258  Sum_probs=48.4

Q ss_pred             hhhhhhhhhhHHHHHHHHhHHhHHHHH-------HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003366          722 NLGQLKQENHELKKRLEKKEGELQEER-------ERCRSLEAQLKVMQQTIEELNKEQESLIDIFA  780 (826)
Q Consensus       722 ~~~~~~~e~~~~~~~~~~~~~~~~~e~-------~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~  780 (826)
                      .|..|+.|...|+.|+..+++++...-       |-.-+|..|+..+++++..+.+|...||+-+=
T Consensus        69 ~I~~L~~El~~l~~ki~dLeeel~eK~K~~e~l~DEl~aLqlq~n~lE~kl~kLq~EN~~LV~RWM  134 (152)
T 3a7p_A           69 TLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISGTIENNVLQQKLSDLKKEHSQLVARWL  134 (152)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            588899999999999999888864322       66777888888889999999999999988764

>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support, cytosolic protein; 3.00A {Homo sapiens}

Probab=80.63  E-value=14  Score=34.67  Aligned_cols=81  Identities=23%  Similarity=0.221  Sum_probs=48.4

Q ss_pred             hhhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Q 003366          722 NLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLRKKIKDAS  801 (826)
Q Consensus       722 ~~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr~kl~~a~  801 (826)
                      .+...|.|..+|+..++.++.+|+.-+..+.+|+.++.++++..+..-+.-...|.-+       +.|-..+|..+..-.
T Consensus        32 ~l~~~k~Ei~elrr~iq~L~~el~~l~~~~~sLE~~l~e~e~~~~~~l~~~q~~i~~l-------E~eL~~~r~em~~ql  104 (131)
T 3tnu_A           32 LVQSGKSEISELRRTMQNLEIELQSQLSMKASLENSLEETKGRYCMQLAQIQEMIGSV-------EEQLAQLRCEMEQQN  104 (131)
T ss_dssp             ---------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
Confidence            3777889999999999999999998889999999999999987765433323333332       233333444444444


Q ss_pred             HHHHHHHH
Q 003366          802 DTIQDLLD  809 (826)
Q Consensus       802 ~~i~~~~~  809 (826)
                      ..-|+||+
T Consensus       105 ~EYq~Ll~  112 (131)
T 3tnu_A          105 QEYKILLD  112 (131)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44555554

>2dq0_A Seryl-tRNA synthetase; coiled-coil, homodimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: SSA; 2.60A {Pyrococcus horikoshii} PDB: 2dq1_A* 2dq2_A 2zr2_A* 2zr3_A

Probab=80.10  E-value=9  Score=42.92  Aligned_cols=98  Identities=16%  Similarity=0.241  Sum_probs=55.8

Q ss_pred             hhhhhhhhhHHHHHHHHhHH-h---HHHHH----HhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEG-E---LQEER----ERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEERDRREREEENLR  794 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~-~---~~~e~----~~~~~l~~~~~~~~~~~~~~~keq~~li~~f~eer~rr~~e~~~lr  794 (826)
                      |+.+++.-..+++.|.++-. +   +-.++    ++.|.|..++++++.+.+++.|+--.+... .|++..--.|...|+
T Consensus         4 ~~~~r~n~~~~~~~~~~R~~~~~~~~~~~~~~l~~~~r~~~~~~~~l~~~~n~~sk~i~~~~~~-~~~~~~l~~~~~~~~   82 (455)
T 2dq0_A            4 IKLIRENPELVKNDLIKRGELEKVKWVDEILKLDTEWRTKLKEINRLRHERNKIAVEIGKRRKK-GEPVDELLAKSREIV   82 (455)
T ss_dssp             HHHHHHCHHHHHHHHHHHTCGGGTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS-CCCTHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-cccHHHHHHHHHHHH
Confidence            66677666667777777643 2   11222    556666666666666655555553222110 133344445666677


Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhcCCCCc
Q 003366          795 KKIKDASDTIQDLLDKIKLLEKMKTPSI  822 (826)
Q Consensus       795 ~kl~~a~~~i~~~~~~~~~~~~~~~~~~  822 (826)
                      ++|++.-..+.++-+++..+- +..||.
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~-~~ipN~  109 (455)
T 2dq0_A           83 KRIGELENEVEELKKKIDYYL-WRLPNI  109 (455)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH-TTSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHHHH-HhCCCC
Confidence            777777777777777766544 566664

---

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	826
d1f5na1	300	a.114.1.1 (A:284-583) Interferon-induced guanylate	2e-04
d1b63a2	218	d.122.1.2 (A:-2-216) DNA mismatch repair protein M	7e-04
d1h7sa2	203	d.122.1.2 (A:29-231) DNA mismatch repair protein P	7e-04
d1t7sa_	129	a.7.7.1 (A:) BAG-family molecular chaperon regulat	0.002

>d1f5na1 a.114.1.1 (A:284-583) Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 300

class: All alpha proteins
fold: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
superfamily: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
family: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
domain: Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 2e-04
 Identities = 14/75 (18%), Positives = 39/75 (52%), Gaps = 5/75 (6%)

Query: 725 QLKQENHELKKRLEKKEGELQE--ERERCRSLEAQLKVMQQTIEELNKEQESLIDIFAEE 782
           + +Q   + ++  ++   +L E  E +R + L+ Q + +   ++E   +++ L + F +E
Sbjct: 229 KNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQE---QEQLLKEGFQKE 285

Query: 783 RDRREREEENLRKKI 797
               + E ++L+ K+
Sbjct: 286 SRIMKNEIQDLQTKM 300

>d1b63a2 d.122.1.2 (A:-2-216) DNA mismatch repair protein MutL {Escherichia coli [TaxId: 562]} Length = 218

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA mismatch repair protein MutL
species: Escherichia coli [TaxId: 562]

 Score = 39.7 bits (92), Expect = 7e-04
 Identities = 22/100 (22%), Positives = 47/100 (47%), Gaps = 10/100 (10%)

Query: 156 AFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAK 215
              EL++NSLD    GAT   ID+ I  + G++++ I DNG G+  D++   ++   ++K
Sbjct: 28  VVKELVENSLDA---GAT--RIDIDI-ERGGAKLIRIRDNGCGIKKDELALALARHATSK 81

Query: 216 SKAANTIGQY----GNGFKTSTMRLGADVIVFSCCCGKDG 251
             + + +         G   +++   + + + S    +  
Sbjct: 82  IASLDDLEAIISLGFRGEALASISSVSRLTLTSRTAEQQE 121

>d1h7sa2 d.122.1.2 (A:29-231) DNA mismatch repair protein PMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 203

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA mismatch repair protein PMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.4 bits (91), Expect = 7e-04
 Identities = 29/103 (28%), Positives = 44/103 (42%), Gaps = 8/103 (7%)

Query: 156 AFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNP-DKMRHCMSLGYSA 214
           A  EL++NSLD    GAT  NID+ + +  G  ++ + DNG G+   +     +    S 
Sbjct: 10  AVKELVENSLDA---GAT--NIDLKL-KDYGVDLIEVSDNGCGVEEENFEGLTLKHHTSK 63

Query: 215 KSKAANTIGQYGNGFKTSTM-RLGADVIVFSCCCGKDGKSPTR 256
             + A+       GF+   +  L A   V    C    K  TR
Sbjct: 64  IQEFADLTQVETFGFRGEALSSLCALSDVTISTCHASAKVGTR 106

>d1t7sa_ a.7.7.1 (A:) BAG-family molecular chaperon regulator-1, BAG1 {Nematode (Caenorhabditis elegans) [TaxId: 6239]} Length = 129

class: All alpha proteins
fold: Spectrin repeat-like
superfamily: BAG domain
family: BAG domain
domain: BAG-family molecular chaperon regulator-1, BAG1
species: Nematode (Caenorhabditis elegans) [TaxId: 6239]

 Score = 36.8 bits (85), Expect = 0.002
 Identities = 23/100 (23%), Positives = 41/100 (41%), Gaps = 3/100 (3%)

Query: 718 SLGANLGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLID 777
              +NL +    N      LE+   E  ++ E  + LE ++K      EE  +  E+L  
Sbjct: 27  HNLSNLQKAYDLNLRDVADLERGFLEKPKQVEMGKKLEKKVKY---FNEEAERHLETLDG 83

Query: 778 IFAEERDRREREEENLRKKIKDASDTIQDLLDKIKLLEKM 817
           +        E + +  R+K K   + IQ LL++   L + 
Sbjct: 84  MNIITETTPENQAKRNREKRKTLVNGIQTLLNQNDALLRR 123

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	826
d1uyla_	208	HSP90 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d2iwxa1	213	HSP90 {Baker's yeast (Saccharomyces cerevisiae) [T	99.65
d2gqpa1	227	HSP90 {Dog (Canis familiaris) [TaxId: 9615]}	99.6
d1h7sa2	203	DNA mismatch repair protein PMS2 {Human (Homo sapi	99.13
d1b63a2	218	DNA mismatch repair protein MutL {Escherichia coli	99.13
d2hkja3	219	Topoisomerase VI-B subunit {Archaeon Sulfolobus sh	99.05
d2c2aa2	161	Sensor histidine kinase TM0853 {Thermotoga maritim	97.87
d1bxda_	161	Histidine kinase domain of the osmosensor EnvZ {Es	97.68
d1id0a_	146	Histidine kinase PhoQ domain {Escherichia coli [Ta	97.67
d1gkza2	193	Branched-chain alpha-ketoacid dehydrogenase kinase	97.55
d1ysra1	148	Sensor-type histidine kinase PrrB {Mycobacterium t	97.53
d1jm6a2	190	Pyruvate dehydrogenase kinase {Rat (Rattus norvegi	97.52
d1ixma_	179	Sporulation response regulatory protein Spo0B {Bac	97.38
d1ei1a2	219	DNA gyrase B {Escherichia coli [TaxId: 562]}	97.36
d1kija2	212	DNA gyrase B {Thermus thermophilus [TaxId: 274]}	97.15
d1y8oa2	125	Pyruvate dehydrogenase kinase {Human (Homo sapiens	97.08
d1r62a_	156	Nitrogen regulation protein NtrB, C-terminal domai	96.77
d1pvga2	239	DNA topoisomerase II {Baker's yeast (Saccharomyces	96.59
d1s14a_	168	Topoisomerase IV subunit B {Escherichia coli [TaxI	96.23
d1th8a_	139	Anti-sigma factor spoIIab {Bacillus stearothermoph	96.18
d1seta1	110	Seryl-tRNA synthetase (SerRS) {Thermus thermophilu	85.91

>d1uyla_ d.122.1.1 (A:) HSP90 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Heat shock protein 90, HSP90, N-terminal domain
domain: HSP90
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=7.3e-18  Score=168.06  Aligned_cols=130  Identities=22%  Similarity=0.314  Sum_probs=98.2

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++.+|.++-+|.-|      |+.+.|  |+|||.||.||+.+             ......|.+..+.  ...+|.
T Consensus         5 ~Fq~e~~~ll~ll~~slY------s~~~if--lRELIqNa~DA~~k~~~~~~~~~~~~~~~~~~~i~i~~d~--~~~~l~   74 (208)
T d1uyla_           5 AFQAEIAQLMSLIINTFY------SNKEIF--LRELISNSSDALDKIRYESLTDPSKLDSGKELHINLIPNK--QDRTLT   74 (208)
T ss_dssp             ECCHHHHHHHHHHHHSCC------SCTTHH--HHHHHHHHHHHHHHHHHHHHHCGGGGTTCCCCCEEEEEET--TTTEEE
T ss_pred             eehHHHHHHHHHHHHhhc------CCchHh--HHHHHhhHHHHHHHHHHHhcCCchhccCCcccceEEeecC--CccEEE
Confidence            489999999999999999      889988  99999999999643             1122345554443  567999


Q ss_pred             EEECCCCCCHHHHhhhc-cccccccc---------cCCcccCcccCcccccccccCCeEEEEeeecCCCCCCCeeeeecc
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKS---------KAANTIGQYGNGFKTSTMRLGADVIVFSCCCGKDGKSPTRSIGLL  261 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~---------~~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~dg~~~t~SvgLL  261 (826)
                      |.|||.||+.++|.+.| .+|.|.+.         ...+.|||||+||++++| ++.+|.|+||+.+.. ...+.+.+=-
T Consensus        75 I~DnGiGMt~~el~~~LgtIa~Sg~~~f~~~~~~~~~~~~IGqFGVGFyS~Fm-Vad~v~V~sk~~~~~-~~~~~~~~~~  152 (208)
T d1uyla_          75 IVDTGIGMTKADLINNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYL-VAEKVTVITKHNDDE-QYAWESSAGG  152 (208)
T ss_dssp             EEECSCCCCHHHHHTGGGSCHHHHHHHHHHHHHTTCCGGGGGGGTCGGGGGGG-TEEEEEEEEECTTSC-CEEEEECSTT
T ss_pred             EEcCCccccHHHHHhhcccccccchHHHHHhhhhccchhhhhhcccceEEeee-ccCceEEEEecCCcc-hheeeeccCC
Confidence            99999999999999865 47877543         124679999999999998 999999999976532 2223333434


Q ss_pred             ceeec
Q 003366          262 SYTFL  266 (826)
Q Consensus       262 S~Tfl  266 (826)
                      +++|.
T Consensus       153 ~~~~~  157 (208)
T d1uyla_         153 SFTVR  157 (208)
T ss_dssp             EEEEE
T ss_pred             CceEE
Confidence            44443

>d2iwxa1 d.122.1.1 (A:2-214) HSP90 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Heat shock protein 90, HSP90, N-terminal domain
domain: HSP90
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.65  E-value=2.2e-17  Score=165.29  Aligned_cols=114  Identities=20%  Similarity=0.273  Sum_probs=92.1

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++++|.++-+|.-|      ++...|  |+|||.||+||+.+             ....+.|.+..++  +...|.
T Consensus         6 ~Fqae~~~ll~ll~~~lY------s~~~if--lRELiqNa~DA~~~~~~~~~~~~~~~~~~~~~~I~i~~d~--~~~~l~   75 (213)
T d2iwxa1           6 EFQAEITQLMSLIINTVY------SNKEIF--LRELISNASDALDKIRYKSLSDPKQLETEPDLFIRITPKP--EQKVLE   75 (213)
T ss_dssp             ECCHHHHHHHHHHHHCCC------SCTTHH--HHHHHHHHHHHHHHHHHHTTTCGGGGTTSCCCCEEEEEEG--GGTEEE
T ss_pred             eehhhHHHHHHHHHHhhc------CCchHH--HHHHHHhHHHHHHHHHHhhccCcccccCCccccccccccc--ccceeE
Confidence            589999999999999989      777776  99999999999753             1123455555444  567899


Q ss_pred             EEECCCCCCHHHHhhh-cccccccccc---------CCcccCcccCcccccccccCCeEEEEeeecCC
Q 003366          192 IEDNGGGMNPDKMRHC-MSLGYSAKSK---------AANTIGQYGNGFKTSTMRLGADVIVFSCCCGK  249 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~-LsfG~SsK~~---------~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g~  249 (826)
                      |.|||.||+.++|.+. ..+|.|.+..         ..+.|||||+||.+|+| +|.+|.|+||+.+.
T Consensus        76 i~DnGiGMt~~~~~~~l~~ia~S~~~~~~~~~~~~~~~~~IGqFGIGfyS~Fm-vad~v~V~trs~~~  142 (213)
T d2iwxa1          76 IRDSGIGMTKAELINNLGTIAKSGTKAFMEALSAGADVSMIGQFGVGFYSLFL-VADRVQVISKSNDD  142 (213)
T ss_dssp             EEECSSCCCHHHHHHHHTTCCCSTHHHHHHHHHHTCCGGGGGGGTCGGGGGGG-TEEEEEEEEECTTS
T ss_pred             EecCCccccHHHHHHHHhhhhcccchHHHhhhhhhhhhhhhcccccchhhhhh-hccceeEEeecCCc
Confidence            9999999999999984 5688886532         23679999999999888 99999999998753

>d2gqpa1 d.122.1.1 (A:74-337) HSP90 {Dog (Canis familiaris) [TaxId: 9615]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Heat shock protein 90, HSP90, N-terminal domain
domain: HSP90
species: Dog (Canis familiaris) [TaxId: 9615]

Probab=99.60  E-value=8.8e-17  Score=162.34  Aligned_cols=113  Identities=21%  Similarity=0.387  Sum_probs=86.7

Q ss_pred             CccccCCCccccccCchhhcccccccccHHHHHHHHhccchhhhhC-------------CCceEEEEEEEccCCCceEEE
Q 003366          125 GWEFSTGGMDHVRVHPKFLHSNATSHKWALGAFAELLDNSLDEVCN-------------GATYSNIDMLINRKDGSRMLL  191 (826)
Q Consensus       125 ~~~~~~~~l~~~~v~p~fLhSNSTSH~wpFgAIAELIDNAiDA~~~-------------gAt~V~Idi~~~~~~g~~~L~  191 (826)
                      .||+++++|.++-+|+-|      ++...|  |+|||.||.||+.+             +...+.|.+..++  +...|.
T Consensus         4 ~Fq~e~~~ll~ll~~sLY------s~~~if--lRELiqNA~DA~~k~r~~~~~~~~~~~~~~~~~i~i~~d~--~~~~l~   73 (227)
T d2gqpa1           4 AFQAEVNRMMKLIINSLY------KNKEIF--LRELISNASDALDKIRLISLTDENALAGNEELTVKIKCDK--EKNLLH   73 (227)
T ss_dssp             CCCHHHHHHHHHHHHHTT------TCTTHH--HHHHHHHHHHHHHHHHHHHHHCTTTTTTCCCCCEEEEEET--TTTEEE
T ss_pred             eeehhHHHHHHHHHhccc------CCCchh--HHHHHhhHHHHHHHHHHHhccCcccccccchhhhhcccCC--CCcEEE
Confidence            589999999999999999      788887  99999999999742             1123455555443  567899


Q ss_pred             EEECCCCCCHHHHhhhc-ccccccccc--------------CCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          192 IEDNGGGMNPDKMRHCM-SLGYSAKSK--------------AANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       192 I~DNG~GMs~eeL~~~L-sfG~SsK~~--------------~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                      |.|||.||+.++|.+.| .+|.|....              ....|||||+||.+|+| ++.+|.|.||+.+
T Consensus        74 i~DnGiGMt~~e~~~~lgtIa~Sgt~~f~~~~~~~~~~~~~~~~~IGqFGvGfyS~Fm-Vad~V~v~s~~~~  144 (227)
T d2gqpa1          74 VTDTGVGMTREELVKNLGTIAKSGTSEFLNKMTEAQEDGQSTSELIGQFGVGFYSAFL-VADKVIVTSKHNN  144 (227)
T ss_dssp             EEECSCCCCHHHHHHHHHCC---------------------CHHHHHHTTCGGGGGGG-TEEEEEEEEECTT
T ss_pred             EEecCccccHHHHHHHHHHHhhcchHHHHHhhhhcccccccchhhhhhcCcceeEEEe-eeeeEEEEEeccC
Confidence            99999999999999866 477664321              11359999999999999 9999999999765

>d1h7sa2 d.122.1.2 (A:29-231) DNA mismatch repair protein PMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA mismatch repair protein PMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=1.4e-11  Score=120.96  Aligned_cols=91  Identities=24%  Similarity=0.346  Sum_probs=65.2

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC------CcccCc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA------ANTIGQ  224 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~------~~~IGr  224 (826)
                      ..|..||+|||+||+||   +|+.|.|.+..   .+...|.|.|||.||++++|..+..-++.+|...      ...+|.
T Consensus         5 ~~~~~~v~ELi~NsiDA---~At~I~i~i~~---~g~~~i~V~DnG~Gi~~~dl~~~~~~~~tsk~~~~~~~~~~~t~Gf   78 (203)
T d1h7sa2           5 LSLSTAVKELVENSLDA---GATNIDLKLKD---YGVDLIEVSDNGCGVEEENFEGLTLKHHTSKIQEFADLTQVETFGF   78 (203)
T ss_dssp             CCHHHHHHHHHHHHHHT---TCSEEEEEEEG---GGTSEEEEEECSCCCCGGGSGGGGC----------CCTTCSEEESS
T ss_pred             ecHHHHHHHHHHHHHcC---CCCEEEEEEEc---CCEEEEEEeeCCcccCHHHhhhhhhheeecccccccccccccccCc
Confidence            46789999999999999   89999998853   3556899999999999999998665444455322      234566


Q ss_pred             ccCcccccccccCCeEEEEeeecCC
Q 003366          225 YGNGFKTSTMRLGADVIVFSCCCGK  249 (826)
Q Consensus       225 fG~GfKsAsmrLG~~v~V~SK~~g~  249 (826)
                      .|.++.  ++....+++|.|++.+.
T Consensus        79 rGeaL~--si~~~s~~~i~s~~~~~  101 (203)
T d1h7sa2          79 RGEALS--SLCALSDVTISTCHASA  101 (203)
T ss_dssp             SSSHHH--HHHHHSEEEEEEECTTC
T ss_pred             cchhhh--hhhhccceEEEeecCCC
Confidence            676654  44555789999998763

>d2hkja3 d.122.1.2 (A:10-228) Topoisomerase VI-B subunit {Archaeon Sulfolobus shibatae [TaxId: 2286]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: Topoisomerase VI-B subunit
species: Archaeon Sulfolobus shibatae [TaxId: 2286]

Probab=99.05  E-value=1.1e-10  Score=115.18  Aligned_cols=96  Identities=24%  Similarity=0.302  Sum_probs=70.2

Q ss_pred             cHHHHHHHHhccchhhhhCC----CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhc-cccccccccCCcccCccc
Q 003366          152 WALGAFAELLDNSLDEVCNG----ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCM-SLGYSAKSKAANTIGQYG  226 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~g----At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~L-sfG~SsK~~~~~~IGrfG  226 (826)
                      -.+.||+||||||+||...+    +..+.|...... .+...|.|.|||+||+++++..++ .|.++.+.......|.+|
T Consensus        22 ~L~~~l~eLi~Naida~~~~~~~~~i~i~i~~~~~~-~~~~~i~V~DnG~Gi~~~~~~~~f~~~~~s~~~~~~~~~G~~G  100 (219)
T d2hkja3          22 ALYQTVRELIENSLDATDVHGILPNIKITIDLIDDA-RQIYKVNVVDNGIGIPPQEVPNAFGRVLYSSKYVNRQTRGMYG  100 (219)
T ss_dssp             HHHHHHHHHHHHHHHTTGGGTCCCEEEEEEEEEETT-TTEEEEEEEECSCCCCGGGHHHHHHCCCSSCCCCCSCCSCSCT
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCcceEEEEEEEecCC-CCEEEEEEEcCCCCCCHHHHHhhccceEeccccccccccCccC
Confidence            46789999999999995432    122334443322 344579999999999999999977 466766655566789999


Q ss_pred             Ccccccc----cccCCeEEEEeeecC
Q 003366          227 NGFKTST----MRLGADVIVFSCCCG  248 (826)
Q Consensus       227 ~GfKsAs----mrLG~~v~V~SK~~g  248 (826)
                      +||..+.    +..|..+.|.|+..+
T Consensus       101 lGl~~~~~~s~~~~g~~i~V~S~~~~  126 (219)
T d2hkja3         101 LGVKAAVLYSQMHQDKPIEIETSPVN  126 (219)
T ss_dssp             TTHHHHHHHHHHHCCCCEEEEEECTT
T ss_pred             HHHHHHHHHHHHcCCcEEEEEEEecC
Confidence            9998754    344677999999764

>d2c2aa2 d.122.1.3 (A:321-481) Sensor histidine kinase TM0853 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Histidine kinase
domain: Sensor histidine kinase TM0853
species: Thermotoga maritima [TaxId: 2336]

Probab=97.87  E-value=7.3e-06  Score=76.33  Aligned_cols=94  Identities=21%  Similarity=0.258  Sum_probs=61.0

Q ss_pred             ccHHHHHHHHhccchhhhhCCCc--eEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCc
Q 003366          151 KWALGAFAELLDNSLDEVCNGAT--YSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG  228 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt--~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~G  228 (826)
                      .+.-.+|..||+||+.+...+..  .|.|.+..  .++.-.|.|.|||.||+++++.+++..-+..+.......+-.|+|
T Consensus        48 ~~l~qvl~NLi~NAik~t~~~~~~~~i~i~~~~--~~~~~~i~V~D~G~GI~~~~~~~iF~~F~~~~~~~~~~~~G~GLG  125 (161)
T d2c2aa2          48 TRIRQVLLNLLNNGVKYSKKDAPDKYVKVILDE--KDGGVLIIVEDNGIGIPDHAKDRIFEQFYRVDSSLTYEVPGTGLG  125 (161)
T ss_dssp             HHHHHHHHHHHHHHHHTCCTTCTTCEEEEEEEE--ETTEEEEEEEECSSCCCGGGTTGGGSTTCCCC---------CCCT
T ss_pred             HHHHHHHHHHHHHHHHhhhcCCCcceeeEEEEe--cCCEEEEEEEEcCCCCCHHHHHHhhCCcEEcCCCCCCCCCcccHH
Confidence            34557899999999998543333  35555543  346678999999999999999998864333222112234456888


Q ss_pred             cccc---ccccCCeEEEEeee
Q 003366          229 FKTS---TMRLGADVIVFSCC  246 (826)
Q Consensus       229 fKsA---smrLG~~v~V~SK~  246 (826)
                      |..+   .-..|-.+.|.|..
T Consensus       126 L~i~k~iv~~hgG~i~v~s~~  146 (161)
T d2c2aa2         126 LAITKEIVELHGGRIWVESEV  146 (161)
T ss_dssp             HHHHHHHHHHTTCEEEEEEET
T ss_pred             HHHHHHHHHHCCCEEEEEecC
Confidence            8632   22678899998875

>d1bxda_ d.122.1.3 (A:) Histidine kinase domain of the osmosensor EnvZ {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Histidine kinase
domain: Histidine kinase domain of the osmosensor EnvZ
species: Escherichia coli [TaxId: 562]

Probab=97.68  E-value=3.5e-05  Score=71.90  Aligned_cols=89  Identities=18%  Similarity=0.185  Sum_probs=62.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+.-.+|..||+||+.+   ....|.|.+...  ++.-.|.|.|||.||+++++.+++...+....  ....+-.|+||.
T Consensus        46 ~~l~~vl~NLi~NAik~---~~~~i~i~~~~~--~~~~~i~V~D~G~GI~~e~~~~iF~~F~r~~~--~~~~~g~GLGL~  118 (161)
T d1bxda_          46 LSIKRAVANMVVNAARY---GNGWIKVSSGTE--PNRAWFQVEDDGPGIAPEQRKHLFQPFVRGDS--ARTISGTGLGLA  118 (161)
T ss_dssp             HHHHHHHHHHHHHHHTT---CCSCEEEEEEEE--TTEEEEEEEEESSCSCTTGGGCSSCCCCCCSC--CCCCCCCSCCCC
T ss_pred             HHHHHHHHHHHHHHHHh---CCCeEEEEEEEe--CCEEEEEEEEcCCCCCHHHHHHHhCCceECCC--CCcCCCCCchHH
Confidence            34557899999999999   345577776543  45678999999999999999998763333221  123456799986


Q ss_pred             ccc---cccCCeEEEEeee
Q 003366          231 TST---MRLGADVIVFSCC  246 (826)
Q Consensus       231 sAs---mrLG~~v~V~SK~  246 (826)
                      .+-   -..|-.+.|.+..
T Consensus       119 ivk~iv~~hgG~i~v~s~~  137 (161)
T d1bxda_         119 IVQRIVDNHNGMLELGTSE  137 (161)
T ss_dssp             TTHHHHHHHTSEEEEEEET
T ss_pred             HHHHHHHHCCCEEEEEEcC
Confidence            422   2567788888764

>d1id0a_ d.122.1.3 (A:) Histidine kinase PhoQ domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Histidine kinase
domain: Histidine kinase PhoQ domain
species: Escherichia coli [TaxId: 562]

Probab=97.67  E-value=4.3e-05  Score=70.23  Aligned_cols=87  Identities=16%  Similarity=0.213  Sum_probs=62.9

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+.-.+|..||+||+.+   ....|.|.+...  ++...|.|.|||.||+++++.+.+...+.....    -+-.|+||.
T Consensus        43 ~~l~~vl~NLl~NAik~---~~~~i~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~iF~~F~r~~~~----~~G~GLGL~  113 (146)
T d1id0a_          43 NDFVEVMGNVLDNACKY---CLEFVEISARQT--DEHLYIVVEDDGPGIPLSKREVIFDRGQRVDTL----RPGQGVGLA  113 (146)
T ss_dssp             HHHHHHHHHHHHHHHHH---CSSEEEEEEEEC--SSCEEEEEEESSSCCCGGGTTGGGSCCCCTTCC----CTTCCSCHH
T ss_pred             HHHHHHHHHHHHHHHHh---hcCCEEEEEEee--CCEEEEEEEeeCCCCCHHHHHHHcCCcccCCCC----CCCeeHHHH
Confidence            34567899999999999   456788877654  356689999999999999999988654432211    134688885


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-+.|-.+.|-+..
T Consensus       114 I~k~iv~~h~G~i~~~s~~  132 (146)
T d1id0a_         114 VAREITEQYEGKIVAGESM  132 (146)
T ss_dssp             HHHHHHHHTTCEEEEEECT
T ss_pred             HHHHHHHHcCCEEEEEEcC
Confidence            32   22567888887764

>d1gkza2 d.122.1.4 (A:186-378) Branched-chain alpha-ketoacid dehydrogenase kinase (BCK) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: alpha-ketoacid dehydrogenase kinase, C-terminal domain
domain: Branched-chain alpha-ketoacid dehydrogenase kinase (BCK)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.55  E-value=3.2e-05  Score=73.00  Aligned_cols=92  Identities=22%  Similarity=0.324  Sum_probs=64.2

Q ss_pred             HHHHHHHHhccchhhhhCC-------CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCC------
Q 003366          153 ALGAFAELLDNSLDEVCNG-------ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAA------  219 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~g-------At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~------  219 (826)
                      .-.+|..||+||++|...+       ...|.|.+...  ++.-.|.|.|||.||+++++.+++...++.+....      
T Consensus        54 l~qvl~NLl~NAi~~t~~~~~~~~~~~~~I~i~~~~~--~~~v~i~V~D~G~GI~~e~~~~iF~~f~tt~~~~~~~~~~~  131 (193)
T d1gkza2          54 LDYILPELLKNAMRATMESHLDTPYNVPDVVITIANN--DVDLIIRISDRGGGIAHKDLDRVMDYHFTTAEASTQDPRIS  131 (193)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCTTCTTSCCCEEEEEEEC--SSEEEEEEECCSCCCCTTTTTTTTSTTCCCC----------
T ss_pred             HHHHHHHHHHHHHHhcccCceeeccccceEEEEEEcc--CCEEEEEEecCCCCCCHHHHHHhcCCceecccccccccccc
Confidence            4468999999999985321       23466666543  46678999999999999999999988877664321      


Q ss_pred             --------------cccCcccCccccc---ccccCCeEEEEeee
Q 003366          220 --------------NTIGQYGNGFKTS---TMRLGADVIVFSCC  246 (826)
Q Consensus       220 --------------~~IGrfG~GfKsA---smrLG~~v~V~SK~  246 (826)
                                    ..+.-.|+||..+   .=..|-++.|.|..
T Consensus       132 ~~~~~~~~~~~~~~~~~~G~GlGL~i~k~ive~~gG~i~v~S~~  175 (193)
T d1gkza2         132 PLFGHLDMHSGGQSGPMHGFGFGLPTSRAYAEYLGGSLQLQSLQ  175 (193)
T ss_dssp             ---------------CCSCSSCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             cccccccccccccccccccCCcCHHHHHHHHHHCCCEEEEEecC
Confidence                          1233578888532   12577899998874

>d1ysra1 d.122.1.3 (A:299-446) Sensor-type histidine kinase PrrB {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Histidine kinase
domain: Sensor-type histidine kinase PrrB
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.53  E-value=7.4e-05  Score=68.67  Aligned_cols=89  Identities=15%  Similarity=0.132  Sum_probs=58.4

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      .+...+|..||+||+.+.  .+..|.|.+...  ++.-.|.|.|||.||+++++.+++...+....   ..-+-.|+||.
T Consensus        43 ~~l~~vl~NLl~NAiky~--~~~~I~i~~~~~--~~~~~i~V~D~G~Gi~~~~~~~ife~f~r~~~---~~~~G~GLGL~  115 (148)
T d1ysra1          43 AGLRLAVDNAIANAVKHG--GATLVQLSAVSS--RAGVEIAIDDNGSGVPEGERQVVFERFSRGST---ASHSGSGLGLA  115 (148)
T ss_dssp             HHHHHHHHHHHHHHHHTT--CCSEEEEEEEEE--TTEEEEEEEESSSCCCGGGHHHHHTSCC--------------CCCH
T ss_pred             HHHHHHHHHHHHHHHHhc--CCcEEEEEEEec--CCEEEEEEEEcCCCCCHHHHHHhcCccccCCC---CCCCCccHHHH
Confidence            345679999999999983  355677776543  45678999999999999999998753332111   11234588886


Q ss_pred             cc---ccccCCeEEEEeee
Q 003366          231 TS---TMRLGADVIVFSCC  246 (826)
Q Consensus       231 sA---smrLG~~v~V~SK~  246 (826)
                      .+   .-..|-.+.+-|..
T Consensus       116 i~~~iv~~hgG~i~~~s~~  134 (148)
T d1ysra1         116 LVAQQAQLHGGTASLENSP  134 (148)
T ss_dssp             HHHHHHHHTTCEEEEEECT
T ss_pred             HHHHHHHHcCCEEEEEEcC
Confidence            32   22677888888765

>d1jm6a2 d.122.1.4 (A:1177-1366) Pyruvate dehydrogenase kinase {Rat (Rattus norvegicus), isozyme 2 [TaxId: 10116]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: alpha-ketoacid dehydrogenase kinase, C-terminal domain
domain: Pyruvate dehydrogenase kinase
species: Rat (Rattus norvegicus), isozyme 2 [TaxId: 10116]

Probab=97.52  E-value=7.3e-05  Score=71.36  Aligned_cols=93  Identities=19%  Similarity=0.334  Sum_probs=66.0

Q ss_pred             cHHHHHHHHhccchhhhhCC------CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccC-----Cc
Q 003366          152 WALGAFAELLDNSLDEVCNG------ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKA-----AN  220 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~g------At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~-----~~  220 (826)
                      +...+|.+||+||+.|...+      ...|.|.+...  ++...|.|.|||.||+++++.+++...++.+...     ..
T Consensus        60 ~l~qvl~NLl~NA~~~~~~~~~~~~~~~~I~v~~~~~--~~~~~i~V~D~G~GI~~~~~~~iF~~f~~~~~~~~~~~~~~  137 (190)
T d1jm6a2          60 HLYHMLFELFKNAMRATVESHESSLTLPPIKIMVALG--EEDLSIKMSDRGGGVPLRKIERLFSYMYSTAPTPQPGTGGT  137 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCSCTTSCCCEEEEEEEC--SSEEEEEEEECSCCCCGGGTTGGGCTTCCCSCCC-------
T ss_pred             HHHHHHHHHHHHHHHHhhccCccccccceEEEEEEeC--CeEEEEEEeccCCCCCHHHHHHHhCcceecCCcCcCccccc
Confidence            35578999999999985321      13367776543  4678899999999999999999998776655322     13


Q ss_pred             ccCcccCccccccc---ccCCeEEEEeee
Q 003366          221 TIGQYGNGFKTSTM---RLGADVIVFSCC  246 (826)
Q Consensus       221 ~IGrfG~GfKsAsm---rLG~~v~V~SK~  246 (826)
                      ..+-.|+||..+-.   ..|-++.|.|..
T Consensus       138 ~~~G~GLGL~i~k~ive~hgG~I~v~s~~  166 (190)
T d1jm6a2         138 PLAGFGYGLPISRLYAKYFQGDLQLFSME  166 (190)
T ss_dssp             --CCSSCHHHHHHHHHHHTTCEEEEEEET
T ss_pred             ccCCCCccHHHHHHHHHHCCCEEEEEecC
Confidence            45677888864332   578899998874

>d1ixma_ d.123.1.1 (A:) Sporulation response regulatory protein Spo0B {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Sporulation response regulatory protein Spo0B
superfamily: Sporulation response regulatory protein Spo0B
family: Sporulation response regulatory protein Spo0B
domain: Sporulation response regulatory protein Spo0B
species: Bacillus subtilis [TaxId: 1423]

Probab=97.38  E-value=3.6e-05  Score=68.14  Aligned_cols=64  Identities=13%  Similarity=0.163  Sum_probs=41.6

Q ss_pred             ccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccc
Q 003366          151 KWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSA  214 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~Ss  214 (826)
                      .+...++..||+||++|.... .....|.+.....++...|.|.|||.||+++.+.+++.-||..
T Consensus        96 ~~l~qvl~Nll~NAi~~~~~~~~~~~~I~i~~~~~~~~~~i~v~D~G~gi~~e~l~~if~~~y~~  160 (179)
T d1ixma_          96 QKLAKLMRKLFHLFDQAVSRESENHLTVSLQTDHPDRQLILYLDFHGAFADPSAFDDIRQNGYED  160 (179)
T ss_dssp             HHHHHHHHHHHHHHHHHBCTTSCCEEEEEEECCCSSSSCEEEEEEESCBSCGGGCC---------
T ss_pred             hhhHHHHHHHHHHHHHHhhhccccchhhhhhhcccccEEEEEEEeCCCCcCHHHHHHHHHhcccc
Confidence            455678999999999996432 2334555544444677899999999999999999998777754

>d1ei1a2 d.122.1.2 (A:2-220) DNA gyrase B {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA gyrase B
species: Escherichia coli [TaxId: 562]

Probab=97.36  E-value=8.8e-05  Score=73.27  Aligned_cols=112  Identities=20%  Similarity=0.256  Sum_probs=75.8

Q ss_pred             CCCccccccCch-hhcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHH----
Q 003366          130 TGGMDHVRVHPK-FLHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDK----  203 (826)
Q Consensus       130 ~~~l~~~~v~p~-fLhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~ee----  203 (826)
                      -.++.|++.-|. |+=+... ...++--+-|+||||+|....+ +..+.|.+.  .   ...|+|.|||.||+-+.    
T Consensus        12 L~~lE~Vr~RP~mYiGs~~~-~~gl~~l~~Eil~Na~De~~~~~~~~i~v~i~--~---dgsIsV~ddGrGIPv~~h~~~   85 (219)
T d1ei1a2          12 LKGLDAVRKRPGMYIGDTDD-GTGLHHMVFEVVDNAIDEALAGHCKEIIVTIH--A---DNSVSVQDDGRGIPTGIHPEE   85 (219)
T ss_dssp             CCTTHHHHHCTHHHHCCSSS-SHHHHHHHHHHHHHHHHHHHTTCCCEEEEEEC--T---TSCEEEEECSSCCCCSBCTTT
T ss_pred             ecchhHHHhCCCcEEccCCC-cccchhhhHhHhhhhhhhhcCCCccceeEEEc--C---CCeEEEEECCccccccccCcc
Confidence            367889999888 5543321 2355566889999999987654 566666553  2   24699999999998653    


Q ss_pred             ----Hhhhcc-ccccccccC---CcccCcccCcccccccccCCeEEEEeeecC
Q 003366          204 ----MRHCMS-LGYSAKSKA---ANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       204 ----L~~~Ls-fG~SsK~~~---~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                          +.-+|. +..+.+...   +...|+.|+|.+.+- .++..+.|.+++.+
T Consensus        86 ~~~~~e~if~~l~tg~~fd~~~~~~sgG~nGvG~~~~N-alS~~f~v~~~r~g  137 (219)
T d1ei1a2          86 GVSAAEVIMTVLHAGGKFDDNSYKVSGGLHGVGVSVVN-ALSQKLELVIQREG  137 (219)
T ss_dssp             SSBHHHHHHHSTTEESCSSSSSCSSCSCCSSCHHHHHH-HTEEEEEEEEEETT
T ss_pred             CCchhhhhhhhhhhccCCCCCcceeEcCccccceeEEE-EeeeEEEEEEEECC
Confidence                122222 334444322   457899999987544 48899999998765

>d1kija2 d.122.1.2 (A:9-220) DNA gyrase B {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA gyrase B
species: Thermus thermophilus [TaxId: 274]

Probab=97.15  E-value=0.00029  Score=68.85  Aligned_cols=110  Identities=29%  Similarity=0.324  Sum_probs=70.3

Q ss_pred             CCccccccCchh-hcccccccccHHHHHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh--
Q 003366          131 GGMDHVRVHPKF-LHSNATSHKWALGAFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH--  206 (826)
Q Consensus       131 ~~l~~~~v~p~f-LhSNSTSH~wpFgAIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~--  206 (826)
                      .++.|++.=|.. +=+  |.-.-+.--+-|+||||+|....+ +..|.|.+  ..   ...|+|.|||.||+-+.-..  
T Consensus         6 ~~lE~Vr~RP~mYiGs--t~~~Gl~~l~~Eil~Na~De~~~~~~~~i~v~~--~~---dg~i~V~ddG~GIpv~~h~~~~   78 (212)
T d1kija2           6 KGLEGVRHRPAMYIGG--TGVEGYHHLFKEILDNAVDEALAGYATEILVRL--NE---DGSLTVEDNGRGIPVDLMPEEG   78 (212)
T ss_dssp             CTTHHHHHCTHHHHSC--SSHHHHHHHHHHHHHHHHHHHHTTSCCEEEEEE--CT---TSCEEEEECSSCCCCSEETTTT
T ss_pred             cccHHHHhCCCcEeCC--CCCcchhhhhhhhhhhhhhhhhhcCCceEEEEE--cC---CCcEEEEECCcccccccccccC
Confidence            356666666653 222  222344556899999999987543 45566655  32   24699999999998753221  


Q ss_pred             ------hc-ccccccccc---CCcccCcccCcccccccccCCeEEEEeeecC
Q 003366          207 ------CM-SLGYSAKSK---AANTIGQYGNGFKTSTMRLGADVIVFSCCCG  248 (826)
Q Consensus       207 ------~L-sfG~SsK~~---~~~~IGrfG~GfKsAsmrLG~~v~V~SK~~g  248 (826)
                            ++ .+..+.+..   .+...|+.|+|.+.+ -.++..+.|.+++.+
T Consensus        79 ~~~~e~if~~l~~~~~~d~~~~~~sgG~hGvGa~vv-NalS~~~~v~v~r~~  129 (212)
T d1kija2          79 KPAVEVIYNTLHSGGKFEQGAYKVSGGLHGVGASVV-NALSEWTVVEVFREG  129 (212)
T ss_dssp             EEHHHHHHHSSCEESGGGGSSCCCCSCSSTTSHHHH-HHTEEEEEEEEEETT
T ss_pred             cceEEEEEEEEcccccccCCCceecCCCccccceEE-EEeccceEEEEEEec
Confidence                  11 122333322   246789999998744 458899999999865

>d1y8oa2 d.122.1.4 (A:177-301) Pyruvate dehydrogenase kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: alpha-ketoacid dehydrogenase kinase, C-terminal domain
domain: Pyruvate dehydrogenase kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.08  E-value=0.00032  Score=60.16  Aligned_cols=53  Identities=21%  Similarity=0.281  Sum_probs=39.8

Q ss_pred             HHHHHHHHhccchhhhhC-------CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhh
Q 003366          153 ALGAFAELLDNSLDEVCN-------GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHC  207 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~-------gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~  207 (826)
                      ...++..||.||++|...       ....|.|.+...  .+.-.|.|.|||.||+++++.+.
T Consensus        65 l~qvl~NLl~NAi~~~~~~~~~~~~~~~~I~i~~~~~--~~~v~i~V~D~G~GI~~e~~~~I  124 (125)
T d1y8oa2          65 LFHMLFELFKNSMRATVELYEDRKEGYPAVKTLVTLG--KEDLSIKISDLGGGVPLRKIDRL  124 (125)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTTCSSCCCCEEEEEEEC--SSEEEEEEEECSCCCCHHHHGGG
T ss_pred             HHHHHHHHHHHHHHhhhccccccCCCceeEEEEeecC--CCEEEEEEEEeCCCcCHHHHccc
Confidence            446899999999998532       123466665443  46778999999999999999765

>d1r62a_ d.122.1.3 (A:) Nitrogen regulation protein NtrB, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Histidine kinase
domain: Nitrogen regulation protein NtrB, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00037  Score=63.93  Aligned_cols=90  Identities=16%  Similarity=0.149  Sum_probs=44.2

Q ss_pred             ccHHHHHHHHhccchhhhhCCCceEEEEE------EEc--cCCCceEEEEEECCCCCCHHHHhhhccccccccccCCccc
Q 003366          151 KWALGAFAELLDNSLDEVCNGATYSNIDM------LIN--RKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTI  222 (826)
Q Consensus       151 ~wpFgAIAELIDNAiDA~~~gAt~V~Idi------~~~--~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~I  222 (826)
                      .+.-.++..||+||++|...+...+.+..      ...  ..+..-.|.|.|||.||+++++.+++...++.|.      
T Consensus        43 ~~l~qvl~NLl~NA~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~iF~pf~s~k~------  116 (156)
T d1r62a_          43 DQIEQVLLNIVRNALQALGPEGGEIILRTRTAFQLTLHGERYRLAARIDVEDNGPGIPPHLQDTLFYPMVSGRE------  116 (156)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGCEEEEEEEEEEEEEEETTEEEEEEEEEEEEEECTTC-----------------------
T ss_pred             HHHHHHHHHHHHHHHHhhhcCCCceeeeccccceeeeccccCCceEEEEEecCCCCCCHHHHHhhcccceecCC------
Confidence            34557899999999999654433222111      111  0112346999999999999999998876666553      


Q ss_pred             CcccCcccccc---cccCCeEEEEeee
Q 003366          223 GQYGNGFKTST---MRLGADVIVFSCC  246 (826)
Q Consensus       223 GrfG~GfKsAs---mrLG~~v~V~SK~  246 (826)
                      +-.|+||..+-   =+.|-.+.|-|..
T Consensus       117 ~G~GLGL~i~~~iv~~hgG~i~v~s~~  143 (156)
T d1r62a_         117 GGTGLGLSIARNLIDQHSGKIEFTSWP  143 (156)
T ss_dssp             ---CHHHHHHHHHHHHTTCEEEEEEET
T ss_pred             CCCCchHHHHHHHHHHCCCEEEEEEeC
Confidence            23477876322   1567888887764

>d1pvga2 d.122.1.2 (A:7-245) DNA topoisomerase II {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: DNA topoisomerase II
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.59  E-value=0.001  Score=66.25  Aligned_cols=89  Identities=17%  Similarity=0.236  Sum_probs=58.6

Q ss_pred             cHHHHHHHHhccchhhhhC--CCceEEEEEEEccCCCceEEEEEECCCCCCHHHHhh--------hcc-ccccccccC--
Q 003366          152 WALGAFAELLDNSLDEVCN--GATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRH--------CMS-LGYSAKSKA--  218 (826)
Q Consensus       152 wpFgAIAELIDNAiDA~~~--gAt~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~--------~Ls-fG~SsK~~~--  218 (826)
                      -.+-.+-|+|+||+|....  .++.|.|.+.  .  ....|+|.|||.||+-+....        +|. +..+.+...  
T Consensus        53 gl~ki~dEil~Na~D~~~r~~~~~~I~v~i~--~--~~~si~V~d~GrGIPv~~h~~~~~~~~e~ift~l~ag~nfd~~~  128 (239)
T d1pvga2          53 GLFKIFDEILVNAADNKVRDPSMKRIDVNIH--A--EEHTIEVKNDGKGIPIEIHNKENIYIPEMIFGHLLTSSNYDDDE  128 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCCEEEEEEE--T--TTTEEEEEEESSCCCCSBCTTTCSBHHHHHHHSSSEESCCCTTS
T ss_pred             cceeecceeeecccchhhhccccceEEEEEe--C--CCCEEEEEecCcceeeeeccccccchhheeeEeecccccccccc
Confidence            3456789999999997543  2456666663  2  234799999999997653211        221 334444332  


Q ss_pred             -CcccCcccCcccccccccCCeEEEEee
Q 003366          219 -ANTIGQYGNGFKTSTMRLGADVIVFSC  245 (826)
Q Consensus       219 -~~~IGrfG~GfKsAsmrLG~~v~V~SK  245 (826)
                       +...|..|+|.+.+- .|+..++|.+.
T Consensus       129 ~k~sgGlnGvG~~vvN-alS~~f~vev~  155 (239)
T d1pvga2         129 KKVTGGRNGYGAKLCN-IFSTEFILETA  155 (239)
T ss_dssp             CCCCSCCSSCHHHHHH-HTEEEEEEEEE
T ss_pred             ceeeCCeeccceeehh-hhhHhhheeeE
Confidence             357899999987544 48888877764

>d1s14a_ d.122.1.2 (A:) Topoisomerase IV subunit B {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: DNA gyrase/MutL, N-terminal domain
domain: Topoisomerase IV subunit B
species: Escherichia coli [TaxId: 562]

Probab=96.23  E-value=0.0014  Score=62.33  Aligned_cols=74  Identities=26%  Similarity=0.245  Sum_probs=49.0

Q ss_pred             HHHHHhccchhhhhCC-CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCc--c-cc
Q 003366          156 AFAELLDNSLDEVCNG-ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNG--F-KT  231 (826)
Q Consensus       156 AIAELIDNAiDA~~~g-At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~G--f-Ks  231 (826)
                      -|-|+||||+|...+| |+.|.|.+..     ...++|.|||.||+-+-         ..+      -|..++.  | .|
T Consensus         9 lv~EivDNsiDEa~aG~~~~I~V~l~~-----D~si~V~D~GRGIPvd~---------h~~------~~~~~~e~v~t~S   68 (168)
T d1s14a_           9 LGQEVIDNSVDEALAGHAKRVDVILHA-----DQSLEVIDDGRGMPVDI---------HPE------EGVPAVELILCIS   68 (168)
T ss_dssp             HHHHHHHHHHHHHHTTSCSEEEEEECT-----TSCEEEEECSSCCCCSB---------CTT------TCSBHHHHHHHTS
T ss_pred             EEeeeeecHHHHHHcCCCCEEEEEEeC-----CCeEEEEEEecccceee---------ecc------CCCchhhccCcee
Confidence            3789999999987655 6777777732     23699999999999531         111      0111111  1 12


Q ss_pred             cccccCCeEEEEeeecCC
Q 003366          232 STMRLGADVIVFSCCCGK  249 (826)
Q Consensus       232 AsmrLG~~v~V~SK~~g~  249 (826)
                      +.=+|+..+.|..+++|+
T Consensus        69 VVNALS~~l~v~v~RdGk   86 (168)
T d1s14a_          69 VVNALSKRVEVNVRRDGQ   86 (168)
T ss_dssp             HHHHHEEEEEEEEEETTE
T ss_pred             EeeeccCeEEEEEEECCE
Confidence            333788999999998763

>d1th8a_ d.122.1.3 (A:) Anti-sigma factor spoIIab {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a+b)
fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
family: Histidine kinase
domain: Anti-sigma factor spoIIab
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.18  E-value=0.0025  Score=57.42  Aligned_cols=85  Identities=22%  Similarity=0.302  Sum_probs=53.1

Q ss_pred             HHHHHHHHhccchhhhhCC--CceEEEEEEEccCCCceEEEEEECCCCCCHHHHhhhccccccccccCCcccCcccCccc
Q 003366          153 ALGAFAELLDNSLDEVCNG--ATYSNIDMLINRKDGSRMLLIEDNGGGMNPDKMRHCMSLGYSAKSKAANTIGQYGNGFK  230 (826)
Q Consensus       153 pFgAIAELIDNAiDA~~~g--At~V~Idi~~~~~~g~~~L~I~DNG~GMs~eeL~~~LsfG~SsK~~~~~~IGrfG~GfK  230 (826)
                      +-.||.||+.||+.+--.+  ...|.|.+...  ++...|.|.|||.||+.  +..++...++.+.    ....-|+|+.
T Consensus        40 i~~av~E~v~Nai~ha~~~~~~~~I~i~~~~~--~~~l~i~i~D~G~gi~~--~~~~~~~~~~~~~----~~~~~GlGL~  111 (139)
T d1th8a_          40 IKTVVSEAVTNAIIHGYNNDPNGIVSISVIIE--DGVVHLTVRDEGVGIPD--IEEARQPLFTTKP----ELERSGMGFT  111 (139)
T ss_dssp             HHHHHHHHHHHHHHTTSTTCTTSEEEEEEEEE--TTEEEEEEEECSSCCSC--HHHHTCCC-----------CCCSCHHH
T ss_pred             HHHHHHHhhhhhhheecCCCCCcEEEEEEEEe--cCEEEEEEccccccccc--ccccccccceecc----cCCCchHHHH
Confidence            3469999999999862111  24577777654  46789999999999974  3333432222221    2233488876


Q ss_pred             ccccccCCeEEEEeee
Q 003366          231 TSTMRLGADVIVFSCC  246 (826)
Q Consensus       231 sAsmrLG~~v~V~SK~  246 (826)
                      .. -+++.++.|-|..
T Consensus       112 iv-~~l~d~i~i~s~~  126 (139)
T d1th8a_         112 IM-ENFMDEVIVESEV  126 (139)
T ss_dssp             HH-HHHSSEEEEEEET
T ss_pred             HH-HHhCCEEEEEEcC
Confidence            33 3678888888875

>d1seta1 a.2.7.1 (A:1-110) Seryl-tRNA synthetase (SerRS) {Thermus thermophilus, strain hb27 [TaxId: 274]}

class: All alpha proteins
fold: Long alpha-hairpin
superfamily: tRNA-binding arm
family: Seryl-tRNA synthetase (SerRS)
domain: Seryl-tRNA synthetase (SerRS)
species: Thermus thermophilus, strain hb27 [TaxId: 274]

Probab=85.91  E-value=3  Score=35.51  Aligned_cols=97  Identities=16%  Similarity=0.311  Sum_probs=50.6

Q ss_pred             hhhhhhhhhHHHHHHHHhHHhHHHHHHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHhhhHHHHHHHHHHHH
Q 003366          723 LGQLKQENHELKKRLEKKEGELQEERERCRSLEAQLKVMQQTIEELNKEQESLIDIF----AEERDRREREEENLRKKIK  798 (826)
Q Consensus       723 ~~~~~~e~~~~~~~~~~~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~keq~~li~~f----~eer~rr~~e~~~lr~kl~  798 (826)
                      |+.+++.-...++.|.++--++.  +++--.|..+..+++++++++..++-.+=.-+    .++++.--+|-..|+.+++
T Consensus         4 ik~ir~n~e~v~~~l~~R~~~~~--ld~i~~ld~~rr~l~~~~e~l~~~rN~~sk~i~k~~~~~~~~l~~~~k~lk~~i~   81 (110)
T d1seta1           4 LKRLRQEPEVFHRAIREKGVALD--LEALLALDREVQELKKRLQEVQTERNQVAKRVPKAPPEEKEALIARGKALGEEAK   81 (110)
T ss_dssp             HHHHHHCHHHHHHHHHHTTCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCHHHHHHHHHHcCCccC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHH
Confidence            56666555666777777655542  34444444444444444444444443332222    2334434445555666666


Q ss_pred             HHHHHHHHHHHHHhhhhhcCCCCc
Q 003366          799 DASDTIQDLLDKIKLLEKMKTPSI  822 (826)
Q Consensus       799 ~a~~~i~~~~~~~~~~~~~~~~~~  822 (826)
                      +.....+++-+++..+- +..||.
T Consensus        82 ~le~~~~~~~~~l~~~l-l~iPNi  104 (110)
T d1seta1          82 RLEEALREKEARLEALL-LQVPLP  104 (110)
T ss_dssp             HHHHHHHHHHHHHHHHH-TTCCCC
T ss_pred             HHHHHHHHHHHHHHHHH-HcCCCC
Confidence            66666666666666554 556654