Citrus Sinensis ID: 005722

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------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-
MSSKSTNKTNYSRSSSARSKQNARVAAQTSIDAKLAEDFDESDFDYSTSVNISSSTSNVPSSTVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHDSGGKDGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
cccccccccccccccccccccHHHHHHccccHHHHcccccccccccccccccccccccccccccHHHHHHcccccccccccEEEEEEccccEEEEEcccHHHHHcccccccccccccccccccccHHHHccHHHHHHHHHHHccccccccccEEEEEcccccEEEEEEEEEccEEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHccccEEEEEEEccccccEEEEEEcccccccccccccccccccHHHHHHHHcccEEEEcccccccccEEccccccccccccccccccccHHHHHHHHHccccEEEEEEEEEEcccccccccccccccEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHccccEEEEEEccEEEEccccccHHHHHHHHHHHHHHccccEEEEEcccccccccccccccccccEEEEEEcccccEEEEEcccccEEEEcccccccccccccccccccccHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEEccccccccccHHHHHHccccccccccccHHHHcccccHHHHHHHHHHHHccccc
cccccccccccccccccccccccEEEEEEccccEEEEEEccccccccccEEcccccccccHHHHHHHHHHHHHccccccccEEEEEccccEEEEEEcccHHHHHccccccccccccccEEEEcccHHHHccHHHHHHHHHHHHHccHcccccEEEEEccccccEEEEEEEEEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccEEEEEEEccccccEEEEEEcccccccccccccccccHHHHHHHHHHHccEEEEEEcccccEEEEEccccccccEEccccccccccHHHHHHHHHcHHHHHHEEEEEEccccccccccccccEEEEEEEEcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEEcccccHcHEccccEEEEEcccEEEEcccccHHHHHHHHHHHHHHcccccccccHHHHHcccccHHHHccHHcccEEEEEccccEEEEEccccHHHHccccccccccccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHccccccccEEEEccccccccccHHHHHHHHHHHHHHHHHccccEEEEEccccEcccHHHHHHHccccHHHHHcHHHHHHHHHcHHHHHHHHHHHHHccccc
msskstnktnysrsssARSKQNARVAAQTSIDAklaedfdesdfdystsvnissstsnvpsstVSAYLQRVQRgrliqpfgcmiavdeqnftvlgysenapemldlaphavpnieqqdaltlgidvrtlfTSSGAAALQKAAnfgevnllnpilihcktsgkpfyAILHRIDVGlvidlepvnpddvpvtaaGALKSYKLAAKAISRlqslpsgnisLLCDVLVNEvsdltgydrVMVYKFhedehgevvaecrrpdlepylgfhypatdipqasRFLIMKNKVRMIcdclappvkviqdkkldqplslcgstlraphgchaRYMENMGSIASLVMSVTINEaedeldndqeqGRKLWGLVVchhtsprfvpfpLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMllrdspvgivtqtpnvmdlvkcdgaalyyrgklwllgvtpteEQIKDIAEWLLEYhrgstglstdslveagypgalaLGDAVCGIAAVKITSKDFLFWFRSHTAKeikwggakhdsggkdggrkmhprsSFKAFLEVVKqrslpwedvEMDAIHSLQLILRGSLQDEVAEDSKmivnvpsvddrIEKIDELRIITNEMVRLIETAAVpilavdasgnvngwnskaaeltgLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
msskstnktnysrsssarskqnARVAAQTSIDAKLAEDFDESDFDYSTSVnissstsnvpsstVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVgivtqtpnvmdLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTakeikwggakhdsggkdggrkmhprSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSkmivnvpsvddrieKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
MSSKSTNKTNYSRSSSARSKQNARVAAQTSIDAKLAEDFDESDFDYstsvnissstsnvpsstvsAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHDSGGKDGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
****************************************************************SAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTIN************GRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWG********************FKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIW*
*******************************DAKLAE*************************TVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTIN****************WGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAK***************SSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAE******************DELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
****************************TSIDAKLAEDFDESDFDYSTS**************VSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKW*****************PRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
*********************NARVAAQTSIDAKLAEDFDESDFDYSTSVNISSSTSNVPSSTVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAE*******EQGRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAK***********MHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
SSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
MSSKSTNKTNYSRSSSARSKQNARVAAQTSIDAKLAEDFDESDFDYSTSVNISSSTSNVPSSTVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHDSGGKDGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGDSVDVVKNMLSSAFLAIWF
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query681 2.2.26 [Sep-21-2011]
Q10CQ8 1137 Phytochrome C OS=Oryza sa yes no 0.994 0.595 0.728 0.0
A2XM23 1137 Phytochrome C OS=Oryza sa N/A no 0.994 0.595 0.727 0.0
P14714 1111 Phytochrome C OS=Arabidop yes no 0.975 0.597 0.684 0.0
P93528 1135 Phytochrome C OS=Sorghum N/A no 0.995 0.597 0.731 0.0
Q40762 1136 Phytochrome OS=Picea abie N/A no 0.964 0.578 0.715 0.0
Q39557 1121 Phytochrome 2 OS=Ceratodo N/A no 0.976 0.593 0.683 0.0
P36505 1132 Phytochrome 1 OS=Physcomi N/A no 0.953 0.573 0.685 0.0
Q01549 1134 Phytochrome 1 OS=Selagine N/A no 0.982 0.589 0.660 0.0
P93673 1124 Phytochrome type A OS=Lat N/A no 0.986 0.597 0.636 0.0
P25848 1307 Light-sensor Protein kina N/A no 0.982 0.511 0.652 0.0
>sp|Q10CQ8|PHYC_ORYSJ Phytochrome C OS=Oryza sativa subsp. japonica GN=PHYC PE=2 SV=1 Back     alignment and function desciption
 Score = 1043 bits (2697), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 502/689 (72%), Positives = 581/689 (84%), Gaps = 12/689 (1%)

Query: 2   SSKSTNKTNYSRSSSARSKQNARVAAQTSIDAKLAEDFDESD--FDYSTSVNISSSTSNV 59
           SS+S N+   SRSSSARSK +ARV AQT +DA+L  +F+ S   FDYS+SV  +++ S  
Sbjct: 3   SSRSNNRATCSRSSSARSKHSARVVAQTPMDAQLHAEFEGSQRHFDYSSSVG-AANRSGA 61

Query: 60  PSSTVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDA 119
            +S VSAYLQ +QRGR +QPFGC++AV  + F +L YSENA EMLDL PHAVP I+Q++A
Sbjct: 62  TTSNVSAYLQNMQRGRFVQPFGCLLAVHPETFALLAYSENAAEMLDLTPHAVPTIDQREA 121

Query: 120 LTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDL 179
           L +G DVRTLF S    ALQKAA FG+VNLLNPIL+H +TSGKPFYAI+HRIDVGLVIDL
Sbjct: 122 LAVGTDVRTLFRSHSFVALQKAATFGDVNLLNPILVHARTSGKPFYAIMHRIDVGLVIDL 181

Query: 180 EPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVY 239
           EPVNP D+PVTA GA+KSYKLAA+AI+RLQSLPSGN+SLLCDVLV EVS+LTGYDRVM Y
Sbjct: 182 EPVNPVDLPVTATGAIKSYKLAARAIARLQSLPSGNLSLLCDVLVREVSELTGYDRVMAY 241

Query: 240 KFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQ 299
           KFHEDEHGEV+AEC+R DLEPYLG HYPATDIPQASRFL MKNKVRMICDC A PVK+IQ
Sbjct: 242 KFHEDEHGEVIAECKRSDLEPYLGLHYPATDIPQASRFLFMKNKVRMICDCSATPVKIIQ 301

Query: 300 DKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTIN----EAEDELDNDQEQGR 355
           D  L QP+S+CGSTLRAPHGCHA+YM +MGS+ASLVMSVTIN    +  D   + Q +GR
Sbjct: 302 DDSLTQPISICGSTLRAPHGCHAQYMASMGSVASLVMSVTINEDEDDDGDTGSDQQPKGR 361

Query: 356 KLWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDM 415
           KLWGL+VCHHTSPRFVPFPLRYACEFL+QVFG+Q+NKEVEL+AQ +E+HILRTQT+LCDM
Sbjct: 362 KLWGLMVCHHTSPRFVPFPLRYACEFLLQVFGIQINKEVELAAQAKERHILRTQTLLCDM 421

Query: 416 LLRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGST 475
           LLRD+PVGI TQ+PNVMDLVKCDGAALYY+ +LW+LG TP+E +IK+I  WL EYH GST
Sbjct: 422 LLRDAPVGIFTQSPNVMDLVKCDGAALYYQNQLWVLGSTPSEAEIKNIVAWLQEYHDGST 481

Query: 476 GLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHDS-GGK 534
           GLSTDSLVEAGYPGA ALGD VCG+AA+KI+SKDF+FWFRSHTAKEIKWGGAKH+     
Sbjct: 482 GLSTDSLVEAGYPGAAALGDVVCGMAAIKISSKDFIFWFRSHTAKEIKWGGAKHEPIDAD 541

Query: 535 DGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVA---EDSKMIV 591
           D GRKMHPRSSFKAFLEVVK RS+PWEDVEMDAIHSLQLILRGSLQDE A    ++K IV
Sbjct: 542 DNGRKMHPRSSFKAFLEVVKWRSVPWEDVEMDAIHSLQLILRGSLQDEDANKNNNAKSIV 601

Query: 592 NVPSVD-DRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQ 650
             PS D  +I+ + ELR +TNEMVRLIETA  PILAVD +G++NGWN+KAAELTGL V +
Sbjct: 602 TAPSDDMKKIQGLLELRTVTNEMVRLIETATAPILAVDITGSINGWNNKAAELTGLPVME 661

Query: 651 AIGTALVDLVAGDSVDVVKNMLSSAFLAI 679
           AIG  LVDLV  DSV+VVK +L+SA   I
Sbjct: 662 AIGKPLVDLVIDDSVEVVKQILNSALQGI 690
Regulatory photoreceptor which exists in two forms that are reversibly interconvertible by light: the Pr form that absorbs maximally in the red region of the spectrum and the Pfr form that absorbs maximally in the far-red region. Photoconversion of Pr to Pfr induces an array of morphogenic responses, whereas reconversion of Pfr to Pr cancels the induction of those responses. Pfr controls the expression of a number of nuclear genes including those encoding the small subunit of ribulose-bisphosphate carboxylase, chlorophyll A/B binding protein, protochlorophyllide reductase, rRNA, etc. It also controls the expression of its own gene(s) in a negative feedback fashion.
Oryza sativa subsp. japonica (taxid: 39947)
>sp|A2XM23|PHYC_ORYSI Phytochrome C OS=Oryza sativa subsp. indica GN=PHYC PE=2 SV=2 Back     alignment and function description
>sp|P14714|PHYC_ARATH Phytochrome C OS=Arabidopsis thaliana GN=PHYC PE=1 SV=1 Back     alignment and function description
>sp|P93528|PHYC_SORBI Phytochrome C OS=Sorghum bicolor GN=PHYC PE=2 SV=1 Back     alignment and function description
>sp|Q40762|PHY_PICAB Phytochrome OS=Picea abies PE=2 SV=1 Back     alignment and function description
>sp|Q39557|PHY2_CERPU Phytochrome 2 OS=Ceratodon purpureus GN=PHY2 PE=3 SV=1 Back     alignment and function description
>sp|P36505|PHY1_PHYPA Phytochrome 1 OS=Physcomitrella patens subsp. patens GN=PHY1 PE=2 SV=1 Back     alignment and function description
>sp|Q01549|PHY1_SELMA Phytochrome 1 OS=Selaginella martensii GN=PHY1 PE=3 SV=1 Back     alignment and function description
>sp|P93673|PHYA_LATSA Phytochrome type A OS=Lathyrus sativus GN=PHYA PE=3 SV=1 Back     alignment and function description
>sp|P25848|PHY1_CERPU Light-sensor Protein kinase OS=Ceratodon purpureus GN=PHY1 PE=3 SV=3 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query681
183239026 1123 phytochrome C [Vitis riparia] 0.997 0.604 0.827 0.0
225447543 1118 PREDICTED: phytochrome C [Vitis vinifera 0.997 0.607 0.828 0.0
183239018 1118 phytochrome C [Vitis vinifera] 0.997 0.607 0.827 0.0
449506938 1119 PREDICTED: LOW QUALITY PROTEIN: phytochr 0.997 0.606 0.783 0.0
449453752 1119 PREDICTED: phytochrome C-like [Cucumis s 0.997 0.606 0.783 0.0
6671484 1118 phytochrome F [Solanum lycopersicum] 0.988 0.601 0.774 0.0
51556875 1139 phytochrome C [Triticum aestivum] gi|515 0.989 0.591 0.737 0.0
115455391 1137 Os03g0752100 [Oryza sativa Japonica Grou 0.994 0.595 0.728 0.0
357115337 1140 PREDICTED: phytochrome C-like [Brachypod 0.994 0.593 0.727 0.0
7672696 1137 phytochrome C [Oryza sativa Indica Group 0.994 0.595 0.728 0.0
>gi|183239026|gb|ACC60971.1| phytochrome C [Vitis riparia] Back     alignment and taxonomy information
 Score = 1192 bits (3085), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 565/683 (82%), Positives = 623/683 (91%), Gaps = 4/683 (0%)

Query: 1   MSSKSTNKTNYSRSSSARSKQNARVAAQTSIDAKLAEDFDESD--FDYSTSV--NISSST 56
           MSSKSTNKTN SRSSSARSK  ARV AQT IDA+L  +F+ES+  FDYS S+  NISSST
Sbjct: 1   MSSKSTNKTNCSRSSSARSKHGARVVAQTPIDAQLHVNFEESERHFDYSASIDFNISSST 60

Query: 57  SNVPSSTVSAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQ 116
            +VPSSTVSAYLQ++QRG LIQPFGCMIAVDEQN TVL YSENAPEMLDLAPHAVP+IEQ
Sbjct: 61  GDVPSSTVSAYLQKMQRGNLIQPFGCMIAVDEQNLTVLAYSENAPEMLDLAPHAVPSIEQ 120

Query: 117 QDALTLGIDVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLV 176
           Q+AL +G DVRTLF SSGAAALQKAANFGEVNLLNPIL+HC+ SGKPFYAILHRIDVGL+
Sbjct: 121 QEALAIGTDVRTLFRSSGAAALQKAANFGEVNLLNPILVHCRNSGKPFYAILHRIDVGLI 180

Query: 177 IDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRV 236
           IDLEPVNP DVP+TAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLV E S+LTGYDRV
Sbjct: 181 IDLEPVNPADVPITAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVKEASELTGYDRV 240

Query: 237 MVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVK 296
           MVYKFHEDEHGEV+AECR+PDLEPYLG HYPATDIPQASRFL MKNKVRMICDCLAPPVK
Sbjct: 241 MVYKFHEDEHGEVIAECRKPDLEPYLGLHYPATDIPQASRFLFMKNKVRMICDCLAPPVK 300

Query: 297 VIQDKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRK 356
           VIQ+K+L QPLSLCGSTLR+PHGCHA+YM NMGS+ASLVMSVTINE +D+ +++Q++GRK
Sbjct: 301 VIQNKRLAQPLSLCGSTLRSPHGCHAQYMANMGSVASLVMSVTINEEDDDTESEQQKGRK 360

Query: 357 LWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDML 416
           LWGLVVCH+TSPRFVPFPLRYACEFL+QVFGVQ++KE+EL+AQ++EKHIL+TQTVLCDML
Sbjct: 361 LWGLVVCHNTSPRFVPFPLRYACEFLVQVFGVQISKEMELAAQMKEKHILQTQTVLCDML 420

Query: 417 LRDSPVGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTG 476
           LRD+PVGIVTQ+PNVMDLV+CDGAALYY+ K WLLGVTPTE QI+DI EWLLEYH GSTG
Sbjct: 421 LRDAPVGIVTQSPNVMDLVRCDGAALYYQKKFWLLGVTPTEAQIRDIVEWLLEYHSGSTG 480

Query: 477 LSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHDSGGKDG 536
           LSTDSL+EAGYP AL LGDAVCGIAAVKI S DFLFWFRSHTAKEIKWGGAKHD   KD 
Sbjct: 481 LSTDSLMEAGYPAALVLGDAVCGIAAVKINSNDFLFWFRSHTAKEIKWGGAKHDPDDKDD 540

Query: 537 GRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSV 596
           GRKMHPRSSFKAFLEVVK+RSLPWEDVEMDAIHSLQLILRGSLQD+ A+DSKMIVNVPSV
Sbjct: 541 GRKMHPRSSFKAFLEVVKRRSLPWEDVEMDAIHSLQLILRGSLQDKSADDSKMIVNVPSV 600

Query: 597 DDRIEKIDELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTAL 656
           D  I+  D+LRI+TNEMVRLIETA+VPILAVDA+G +NGWN+KAAELTGL + QAIG  L
Sbjct: 601 DASIKMADDLRIVTNEMVRLIETASVPILAVDAAGCINGWNNKAAELTGLIMQQAIGMPL 660

Query: 657 VDLVAGDSVDVVKNMLSSAFLAI 679
           +DLV  DS D+VK MLS A   I
Sbjct: 661 IDLVENDSADMVKKMLSMALQGI 683

Source: Vitis riparia

Species: Vitis riparia

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|225447543|ref|XP_002268724.1| PREDICTED: phytochrome C [Vitis vinifera] Back     alignment and taxonomy information
>gi|183239018|gb|ACC60967.1| phytochrome C [Vitis vinifera] Back     alignment and taxonomy information
>gi|449506938|ref|XP_004162889.1| PREDICTED: LOW QUALITY PROTEIN: phytochrome C-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449453752|ref|XP_004144620.1| PREDICTED: phytochrome C-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|6671484|gb|AAC49301.2| phytochrome F [Solanum lycopersicum] Back     alignment and taxonomy information
>gi|51556875|gb|AAU06208.1| phytochrome C [Triticum aestivum] gi|51556889|gb|AAU06215.1| phytochrome C [Triticum aestivum] Back     alignment and taxonomy information
>gi|115455391|ref|NP_001051296.1| Os03g0752100 [Oryza sativa Japonica Group] gi|122246759|sp|Q10CQ8.1|PHYC_ORYSJ RecName: Full=Phytochrome C gi|21070927|gb|AAM34402.1|AF377947_8 phytochrome C [Oryza sativa Japonica Group] gi|4190974|dbj|BAA74448.1| phytochrome C [Oryza sativa Japonica Group] gi|31712054|gb|AAP68360.1| phytochrome C [Oryza sativa Japonica Group] gi|40538982|gb|AAR87239.1| phytochrome C [Oryza sativa Japonica Group] gi|108711120|gb|ABF98915.1| Phytochrome C, putative, expressed [Oryza sativa Japonica Group] gi|113549767|dbj|BAF13210.1| Os03g0752100 [Oryza sativa Japonica Group] gi|125587941|gb|EAZ28605.1| hypothetical protein OsJ_12592 [Oryza sativa Japonica Group] Back     alignment and taxonomy information
>gi|357115337|ref|XP_003559446.1| PREDICTED: phytochrome C-like [Brachypodium distachyon] Back     alignment and taxonomy information
>gi|7672696|gb|AAF66603.1|AF141942_1 phytochrome C [Oryza sativa Indica Group] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query681
TAIR|locus:2165199 1111 PHYC "phytochrome C" [Arabidop 0.973 0.596 0.671 1.4e-253
TAIR|locus:2012300 1122 PHYA "phytochrome A" [Arabidop 0.985 0.598 0.619 9.4e-233
UNIPROTKB|P06593 1129 PHYA3 "Phytochrome A type 3" [ 0.967 0.583 0.609 1.6e-219
TAIR|locus:2005515 1172 PHYB "AT2G18790" [Arabidopsis 0.973 0.565 0.609 1.6e-219
TAIR|locus:2005535 1164 PHYD "phytochrome D" [Arabidop 0.983 0.575 0.581 7.4e-211
TAIR|locus:2005536 1112 PHYE "phytochrome E" [Arabidop 0.953 0.583 0.547 2.2e-192
UNIPROTKB|Q55168 748 cph1 "Phytochrome-like protein 0.706 0.643 0.323 3.2e-65
UNIPROTKB|Q48G81 745 bphP "Bacteriophytochrome hist 0.584 0.534 0.296 7.4e-44
UNIPROTKB|Q4K656 746 bphP "Bacteriophytochrome hist 0.678 0.619 0.274 2.4e-41
UNIPROTKB|Q7CY45 736 Atu1990 "Bacteriophytochrome p 0.599 0.554 0.298 1.6e-40
TAIR|locus:2165199 PHYC "phytochrome C" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2417 (855.9 bits), Expect = 1.4e-253, Sum P(2) = 1.4e-253
 Identities = 451/672 (67%), Positives = 557/672 (82%)

Query:     9 TNYSRSSSARSKQNARVAAQTSIDAKLAEDFDESD--FDYXXXXXXXXXXXXXX--XXXX 64
             +N SRS S RS+QN+RV++Q  +DAKL  +F+ES+  FDY                    
Sbjct:     3 SNTSRSCSTRSRQNSRVSSQVLVDAKLHGNFEESERLFDYSASINLNMPSSSCEIPSSAV 62

Query:    65 XAYLQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGI 124
               YLQ++QRG LIQPFGC+I VDE+N  V+ +SEN  EML L PH VP++EQ++ALT+G 
Sbjct:    63 STYLQKIQRGMLIQPFGCLIVVDEKNLKVIAFSENTQEMLGLIPHTVPSMEQREALTIGT 122

Query:   125 DVRTLFTSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNP 184
             DV++LF S G +AL+KA +FGE+++LNPI +HC++S KPFYAILHRI+ GLVIDLEPV+P
Sbjct:   123 DVKSLFLSPGCSALEKAVDFGEISILNPITLHCRSSSKPFYAILHRIEEGLVIDLEPVSP 182

Query:   185 DDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHED 244
             D+VPVTAAGAL+SYKLAAK+ISRLQ+LPSGN+ LLCD LV EVS+LTGYDRVMVYKFHED
Sbjct:   183 DEVPVTAAGALRSYKLAAKSISRLQALPSGNMLLLCDALVKEVSELTGYDRVMVYKFHED 242

Query:   245 EHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQDKKLD 304
              HGEV+AEC R D+EPYLG HY ATDIPQASRFL M+NKVRMICDC A PVKV+QDK L 
Sbjct:   243 GHGEVIAECCREDMEPYLGLHYSATDIPQASRFLFMRNKVRMICDCSAVPVKVVQDKSLS 302

Query:   305 QPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAE-DELDNDQEQGRKLWGLVVC 363
             QP+SL GSTLRAPHGCHA+YM NMGS+ASLVMSVTIN ++ DE++ D + GR LWGLVVC
Sbjct:   303 QPISLSGSTLRAPHGCHAQYMSNMGSVASLVMSVTINGSDSDEMNRDLQTGRHLWGLVVC 362

Query:   364 HHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPVG 423
             HH SPRFVPFPLRYACEFL QVFGVQ+NKE E +  L+EK IL+TQ+VLCDML R++P+G
Sbjct:   363 HHASPRFVPFPLRYACEFLTQVFGVQINKEAESAVLLKEKRILQTQSVLCDMLFRNAPIG 422

Query:   424 IVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLV 483
             IVTQ+PN+MDLVKCDGAALYYR  LW LGVTPTE QI+D+ +W+L+ H G+TG +T+SL+
Sbjct:   423 IVTQSPNIMDLVKCDGAALYYRDNLWSLGVTPTETQIRDLIDWVLKSHGGNTGFTTESLM 482

Query:   484 EAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHDSGGKDGGRKMHPR 543
             E+GYP A  LG+++CG+AAV I+ KDFLFWFRS TAK+IKWGGA+HD   +DG ++MHPR
Sbjct:   483 ESGYPDASVLGESICGMAAVYISEKDFLFWFRSSTAKQIKWGGARHDPNDRDG-KRMHPR 541

Query:   544 SSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQDEVAEDSKMIVNVPSVDDRIEKI 603
             SSFKAF+E+V+ +S+PW+D+EMDAI+SLQLI++GSLQ+E    SK +V+VP VD+R++K+
Sbjct:   542 SSFKAFMEIVRWKSVPWDDMEMDAINSLQLIIKGSLQEE---HSKTVVDVPLVDNRVQKV 598

Query:   604 DELRIITNEMVRLIETAAVPILAVDASGNVNGWNSKAAELTGLTVDQAIGTALVDLVAGD 663
             DEL +I NEMVRLI+TAAVPI AVDASG +NGWNSKAAE+TGL V+QAIG  + DLV  D
Sbjct:   599 DELCVIVNEMVRLIDTAAVPIFAVDASGVINGWNSKAAEVTGLAVEQAIGKPVSDLVEDD 658

Query:   664 SVDVVKNMLSSA 675
             SV+ VKNML+ A
Sbjct:   659 SVETVKNMLALA 670
GO:0000155 "phosphorelay sensor kinase activity" evidence=IEA
GO:0004673 "protein histidine kinase activity" evidence=IEA;ISS
GO:0004871 "signal transducer activity" evidence=IEA
GO:0005524 "ATP binding" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0007165 "signal transduction" evidence=IEA
GO:0008020 "G-protein coupled photoreceptor activity" evidence=IEA
GO:0009584 "detection of visible light" evidence=IEA
GO:0009585 "red, far-red light phototransduction" evidence=IEA
GO:0009881 "photoreceptor activity" evidence=IEA
GO:0016020 "membrane" evidence=IEA
GO:0017006 "protein-tetrapyrrole linkage" evidence=IEA
GO:0018106 "peptidyl-histidine phosphorylation" evidence=IEA
GO:0018298 "protein-chromophore linkage" evidence=IEA
GO:0042803 "protein homodimerization activity" evidence=IEA
GO:0005515 "protein binding" evidence=IPI
GO:0007623 "circadian rhythm" evidence=RCA
GO:0009630 "gravitropism" evidence=RCA
GO:0010017 "red or far-red light signaling pathway" evidence=RCA
GO:0010155 "regulation of proton transport" evidence=RCA
GO:0046777 "protein autophosphorylation" evidence=RCA
TAIR|locus:2012300 PHYA "phytochrome A" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|P06593 PHYA3 "Phytochrome A type 3" [Avena sativa (taxid:4498)] Back     alignment and assigned GO terms
TAIR|locus:2005515 PHYB "AT2G18790" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2005535 PHYD "phytochrome D" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
TAIR|locus:2005536 PHYE "phytochrome E" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|Q55168 cph1 "Phytochrome-like protein cph1" [Synechocystis sp. PCC 6803 substr. Kazusa (taxid:1111708)] Back     alignment and assigned GO terms
UNIPROTKB|Q48G81 bphP "Bacteriophytochrome histidine kinase" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)] Back     alignment and assigned GO terms
UNIPROTKB|Q4K656 bphP "Bacteriophytochrome histidine kinase" [Pseudomonas protegens Pf-5 (taxid:220664)] Back     alignment and assigned GO terms
UNIPROTKB|Q7CY45 Atu1990 "Bacteriophytochrome protein" [Agrobacterium fabrum str. C58 (taxid:176299)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q10CQ8PHYC_ORYSJNo assigned EC number0.72850.99410.5954yesno

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:
PHYC
SubName- Full=Chromosome chr12 scaffold_47, whole genome shotgun sequence; (1118 aa)
(Vitis vinifera)
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 ?Alignment Graph ?Length ? Definition ? E-value ?
Query681
COG4251 750 COG4251, COG4251, Bacteriophytochrome (light-regul 1e-102
pfam00360183 pfam00360, PHY, Phytochrome region 3e-95
pfam08446107 pfam08446, PAS_2, PAS fold 1e-50
pfam01590143 pfam01590, GAF, GAF domain 3e-18
smart00065149 smart00065, GAF, Domain present in phytochromes an 7e-14
pfam00989113 pfam00989, PAS, PAS fold 1e-11
smart0009167 smart00091, PAS, PAS domain 5e-07
cd00130103 cd00130, PAS, PAS domain; PAS motifs appear in arc 2e-05
TIGR00229124 TIGR00229, sensory_box, PAS domain S-box 5e-05
COG3829 560 COG3829, RocR, Transcriptional regulator containin 3e-04
>gnl|CDD|226702 COG4251, COG4251, Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms] Back     alignment and domain information 
 Score =  329 bits (844), Expect = e-102
 Identities = 176/514 (34%), Positives = 259/514 (50%), Gaps = 49/514 (9%)

Query: 76  LIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGA 135
            IQP G ++ +DE +  VL  SEN   +L   P      E     TLG     + TS   
Sbjct: 25  AIQPHGALLVLDEADLMVLQASENCANILGREP------EDLLGRTLG----AVLTSEQV 74

Query: 136 AALQKAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGAL 195
             LQ A   G +  LNP  +  +  G  F    HR    L+++ EP    +     A  L
Sbjct: 75  PPLQSALTVGGLTTLNPTKMWTR-KGGSFDVSAHRSKELLILEFEPAGTGE----TASFL 129

Query: 196 KSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRR 255
             Y LA  A++RLQS    N+  L      EV  +TG+DRVM+Y+F ED  GEV+AE +R
Sbjct: 130 GFYHLAKLAMNRLQSAA--NLRDLLSRTTQEVRRMTGFDRVMLYRFDEDGSGEVIAEAKR 187

Query: 256 PDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQ--DKKLDQPLSLCGST 313
            DLE YLG  YPA+DIPQ +R L ++N +R+I D    PV V+   + + ++PL L  S 
Sbjct: 188 EDLESYLGLRYPASDIPQQARALYIQNPLRLIPDVSYTPVPVLPAVNPETNEPLDLSYSV 247

Query: 314 LRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPF 373
           LR+    H  Y+ NMG  AS+ +S+ ++              KLWGL+ CHH SP+ +P+
Sbjct: 248 LRSVSPIHLEYLRNMGVGASMSISIVVDG-------------KLWGLIACHHQSPKVIPY 294

Query: 374 PLRYACEFLIQVFGVQVNKE-----VELSAQLREKHILRTQTVLCDMLLRDSPV-GIVTQ 427
            +R ACEF  QV  ++++        +   QL E H      +L  M      V G++  
Sbjct: 295 EVRKACEFFGQVLSMEISALEQSEDADYRVQLTEHHAR----LLRYMAHAADFVDGLIDH 350

Query: 428 TPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGY 487
             +++DL+  DGAAL + G+  L+G TP    ++ + +WL E   G    +TDSL +  Y
Sbjct: 351 QDDLLDLMPADGAALCFGGRWHLVGETPPRPAVQRLLQWLAEREEGDV-FATDSLSQV-Y 408

Query: 488 PGALALGDAVCGIAAVKIT--SKDFLFWFRSHTAKEIKWGG--AKHDSGGKDGGRKMHPR 543
           P A        G+ A+ I+    ++L WFR    + + WGG   K    G  G R + PR
Sbjct: 409 PDAEDYASVASGLLAIPISRVKSNYLLWFRPEVVQTVNWGGDPEKPYEAGPMGIR-LTPR 467

Query: 544 SSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRG 577
            SF+ + E V+ +S PW +VE++A   L+  + G
Sbjct: 468 KSFELWKETVRLQSQPWSEVEIEAALELRKAIVG 501

Length = 750
>gnl|CDD|215877 pfam00360, PHY, Phytochrome region Back     alignment and domain information
>gnl|CDD|203947 pfam08446, PAS_2, PAS fold Back     alignment and domain information
>gnl|CDD|216590 pfam01590, GAF, GAF domain Back     alignment and domain information
>gnl|CDD|214500 smart00065, GAF, Domain present in phytochromes and cGMP-specific phosphodiesterases Back     alignment and domain information
>gnl|CDD|216228 pfam00989, PAS, PAS fold Back     alignment and domain information
>gnl|CDD|214512 smart00091, PAS, PAS domain Back     alignment and domain information
>gnl|CDD|238075 cd00130, PAS, PAS domain; PAS motifs appear in archaea, eubacteria and eukarya Back     alignment and domain information
>gnl|CDD|232884 TIGR00229, sensory_box, PAS domain S-box Back     alignment and domain information
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 681
COG4251 750 Bacteriophytochrome (light-regulated signal transd 100.0
PF00360182 PHY: Phytochrome region; InterPro: IPR013515 Phyto 100.0
PF08446110 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold 99.91
PF01590154 GAF: GAF domain; InterPro: IPR003018 This domain i 99.37
smart00065149 GAF Domain present in phytochromes and cGMP-specif 99.08
PF00989113 PAS: PAS fold; InterPro: IPR013767 PAS domains are 99.02
PF08448110 PAS_4: PAS fold; InterPro: IPR013656 The PAS fold 98.61
PF13426104 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_ 98.52
COG2203175 FhlA FOG: GAF domain [Signal transduction mechanis 98.5
PF13492129 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_ 98.5
PF13185148 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_ 98.22
TIGR02040 442 PpsR-CrtJ transcriptional regulator PpsR. This mod 98.21
TIGR01817534 nifA Nif-specific regulatory protein. This model r 98.13
TIGR00229124 sensory_box PAS domain S-box. The PAS domain was p 98.05
PRK11091 779 aerobic respiration control sensor protein ArcB; P 98.02
PF1318864 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A. 97.94
PRK09776 1092 putative diguanylate cyclase; Provisional 97.94
PRK13560 807 hypothetical protein; Provisional 97.9
TIGR02966 333 phoR_proteo phosphate regulon sensor kinase PhoR. 97.88
PRK05022509 anaerobic nitric oxide reductase transcription reg 97.85
TIGR02040 442 PpsR-CrtJ transcriptional regulator PpsR. This mod 97.8
PRK13557 540 histidine kinase; Provisional 97.79
smart0009167 PAS PAS domain. PAS motifs appear in archaea, euba 97.79
PRK15429686 formate hydrogenlyase transcriptional activator Fh 97.79
PRK11006 430 phoR phosphate regulon sensor protein; Provisional 97.73
cd00130103 PAS PAS domain; PAS motifs appear in archaea, euba 97.73
PF13596106 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D. 97.7
COG3604550 FhlA Transcriptional regulator containing GAF, AAA 97.69
PRK10060 663 RNase II stability modulator; Provisional 97.65
PRK10820 520 DNA-binding transcriptional regulator TyrR; Provis 97.61
PRK13558665 bacterio-opsin activator; Provisional 97.57
PRK13559 361 hypothetical protein; Provisional 97.55
PRK11061 748 fused phosphoenolpyruvate-protein phosphotransfera 97.49
PRK11073 348 glnL nitrogen regulation protein NR(II); Provision 97.46
TIGR02938 494 nifL_nitrog nitrogen fixation negative regulator N 97.27
PRK15429 686 formate hydrogenlyase transcriptional activator Fh 97.27
PRK11359 799 cyclic-di-GMP phosphodiesterase; Provisional 97.23
PF14598111 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W 97.13
COG3829 560 RocR Transcriptional regulator containing PAS, AAA 97.11
PF12860115 PAS_7: PAS fold 97.08
PRK09776 1092 putative diguanylate cyclase; Provisional 97.04
PRK11360 607 sensory histidine kinase AtoS; Provisional 96.86
PF0844791 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold 96.74
PRK11359 799 cyclic-di-GMP phosphodiesterase; Provisional 96.7
PRK11388 638 DNA-binding transcriptional regulator DhaR; Provis 96.7
PRK11086 542 sensory histidine kinase DcuS; Provisional 96.65
PRK15053 545 dpiB sensor histidine kinase DpiB; Provisional 96.64
PRK13560 807 hypothetical protein; Provisional 96.58
COG2202232 AtoS FOG: PAS/PAC domain [Signal transduction mech 96.52
PRK13558 665 bacterio-opsin activator; Provisional 96.51
COG5002 459 VicK Signal transduction histidine kinase [Signal 96.39
TIGR02938 494 nifL_nitrog nitrogen fixation negative regulator N 96.38
COG3283 511 TyrR Transcriptional regulator of aromatic amino a 96.24
COG3290 537 CitA Signal transduction histidine kinase regulati 95.97
TIGR02373124 photo_yellow photoactive yellow protein. Members o 95.17
TIGR02916679 PEP_his_kin putative PEP-CTERM system histidine ki 94.95
COG5000 712 NtrY Signal transduction histidine kinase involved 94.84
KOG3561 803 consensus Aryl-hydrocarbon receptor nuclear transl 94.47
COG3852 363 NtrB Signal transduction histidine kinase, nitroge 93.19
PRK09959 1197 hybrid sensory histidine kinase in two-component r 92.17
KOG3558 768 consensus Hypoxia-inducible factor 1/Neuronal PAS 91.69
PF08446110 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold 91.27
KOG1229 775 consensus 3'5'-cyclic nucleotide phosphodiesterase 91.04
TIGR02851180 spore_V_T stage V sporulation protein T. Members o 90.19
KOG3559 598 consensus Transcriptional regulator SIM1 [Transcri 89.7
KOG3558 768 consensus Hypoxia-inducible factor 1/Neuronal PAS 88.64
PF00989113 PAS: PAS fold; InterPro: IPR013767 PAS domains are 86.09
PF13426104 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_ 85.65
KOG3560 712 consensus Aryl-hydrocarbon receptor [Transcription 85.04
PF08670148 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEK 82.24
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms] Back     alignment and domain information 
Probab=100.00  E-value=1e-127  Score=1052.67  Aligned_cols=485  Identities=35%  Similarity=0.630  Sum_probs=433.8

Q ss_pred             ccchhhh-hhcccCCCCCCCCceEEEEecCCceEEEEccChhhhhCCCCCCCCCccccchhccCCchhhhcCchHHHHHH
Q 005722           61 SSTVSAY-LQRVQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLFTSSGAAALQ  139 (681)
Q Consensus        61 ~~~~t~~-~~~I~~pG~IQp~G~LLa~d~~~~~I~~~SeN~~~~Lg~~~~~~~~~~~~~~~~lG~~l~~~~~~~~~~~l~  139 (681)
                      ..+++.| .+|||+||+||||||||++|+.++.|+|+|+||..+||+.|++          ++|+++.++|+..+...++
T Consensus         9 ~v~l~nce~ePIHipG~IQPHG~Llvl~~~~~~Vlq~S~N~~~~LG~~~e~----------l~~~tl~~vl~~~qv~~l~   78 (750)
T COG4251           9 HVTLTNCEREPIHIPGAIQPHGALLVLDEADLMVLQASENCANILGREPED----------LLGRTLGAVLTSEQVPPLQ   78 (750)
T ss_pred             cCcccccccCCccCCCccCCceeEEEeecCCchhhhhhhhHHHHhCCChhh----------hhcCCHHHhcchhhccHHH
Confidence            5678899 9999999999999999999999999999999999999999976          5899999999999999999


Q ss_pred             HHhccCCCccCCceeeeccCCCceEEEEEEeeCCeEEEEeccCCCCCCccchhhhhHHHHHHHHHHHHHhcCCCCCHHHH
Q 005722          140 KAANFGEVNLLNPILIHCKTSGKPFYAILHRIDVGLVIDLEPVNPDDVPVTAAGALKSYKLAAKAISRLQSLPSGNISLL  219 (681)
Q Consensus       140 ~~l~~~~~~~~~p~~~~~~~~~~~f~~~~Hr~~~~lviElEp~~~~~~~~~~~g~~~~~~l~~~~i~rl~~~~~~~l~~l  219 (681)
                      .++..+.....||..+-.+. +..|++++||+++.+|+||||+...+. .   ..+.++.++..++.+||+.+  ++.++
T Consensus        79 ~~l~~~~~~~~np~~~w~~~-~~~fDv~~HR~~~llIlEfEp~~t~e~-~---~~l~f~h~~k~a~~~lq~a~--~l~~l  151 (750)
T COG4251          79 SALTVGGLTTLNPTKMWTRK-GGSFDVSAHRSKELLILEFEPAGTGET-A---SFLGFYHLAKLAMNRLQSAA--NLRDL  151 (750)
T ss_pred             HhccccCcccCCchhhhhhc-CCceeEEEEecCcEEEEEEecCccccc-c---cccchHHHHHHHHHHHhcCc--cHHHH
Confidence            99998888888884432222 338999999999999999999754442 1   23456788888999999955  99999


Q ss_pred             HHHHHHHHHHhhCCCEEEEEEecCCCCeEEEEeecCCCCCCcCCCcCCCCCchHHHHHHHHcCCeEEeecCCCCCceeec
Q 005722          220 CDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAPPVKVIQ  299 (681)
Q Consensus       220 ~~~~v~evr~ltg~DRVmiYrF~~D~~GeVVAEs~~~~l~s~LGlhfPasDIP~qaR~Ly~~n~vR~I~Dv~~~pv~lv~  299 (681)
                      |+.++++||++|||||||+|||++||+|+||||+++++|+||||+||||||||+|||+||.+|++|+|+|+.|+||||+|
T Consensus       152 ~~~~tqeVr~~tGfDRVMlYrF~~d~~G~VIAEak~e~LesyLGl~yPaSDIP~qAR~LY~~N~lRlIpD~~~~~vpv~P  231 (750)
T COG4251         152 LSRTTQEVRRMTGFDRVMLYRFDEDGSGEVIAEAKREDLESYLGLRYPASDIPQQARALYIQNPLRLIPDVSYTPVPVLP  231 (750)
T ss_pred             HHHHHHHHHHhcCCceEEEEeecCCCCccEEeccccccchhhhcccCCcccCCHHHHHHHhcCceeecccccCccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             --CCCCCCCcccccccccCCChHHHHHHHhcCCeeEEEEEEEecCccccccccccccCceeEEEEeecCCCCCCChhHHH
Q 005722          300 --DKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCHHTSPRFVPFPLRY  377 (681)
Q Consensus       300 --~~~~~~pldLs~s~LRsvsp~H~qYL~NMGV~ASlsvsIiv~~~~~~~~~~~~~~~kLWGLi~cHh~spr~v~~~~R~  377 (681)
                        +|.++.|+|||+|.|||+||||+|||+||||.||||||||+|             |+|||||+|||.+||.+||++|.
T Consensus       232 avNp~t~~p~DLs~svLRSvSp~H~eYLrNMGV~ASmSISivv~-------------g~LWGLIACHH~sPk~ip~~vR~  298 (750)
T COG4251         232 AVNPETNEPLDLSYSVLRSVSPIHLEYLRNMGVGASMSISIVVD-------------GKLWGLIACHHQSPKVIPYEVRK  298 (750)
T ss_pred             ccCcccCCcccchHHHHhccChHHHHHHHhcCcceeeEEEEEEC-------------CeeEEeeeeccCCCccCCHHHHH
Confidence              688999999999999999999999999999999999999998             89999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhhccCC-ccccccCChhhhhhccCCeEEEEECCeEEEe
Q 005722          378 ACEFLIQVFGVQVNKEVE-----LSAQLREKHILRTQTVLCDMLLRDS-PVGIVTQTPNVMDLVKCDGAALYYRGKLWLL  451 (681)
Q Consensus       378 a~e~l~q~~s~ql~~~~e-----l~~q~~e~~~~~~~~~l~~~l~~~~-~~~i~~~~~~ll~L~~adGaal~~~~~~~~~  451 (681)
                      +||||+|++|.+|+.+.+     ...++.+.+    ..++..|...++ ..++..+.++|++|+.|||++++++|++.++
T Consensus       299 acef~gq~~s~~i~~~e~~~~~d~r~~l~~~~----arl~~~ma~~~~~~d~L~~~~~dll~L~~adGaal~fg~~~~~v  374 (750)
T COG4251         299 ACEFFGQVLSMEISALEQSEDADYRVQLTEHH----ARLLRYMAHAADFVDGLIDHQDDLLDLMPADGAALCFGGRWHLV  374 (750)
T ss_pred             HHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH----HHHHHHHhhhcchhhhhcCCchhhHhhccCCceEEEECCEEEEe
Confidence            999999999999976422     222222211    123344444444 4567888899999999999999999999999


Q ss_pred             ccCCCHHHHHHHHHHHHHhcCCCeeeeeccccccCCCCccccccccccEEEEEeCC--CcEEEEeecCcceEEeecCCCC
Q 005722          452 GVTPTEEQIKDIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITS--KDFLFWFRSHTAKEIKWGGAKH  529 (681)
Q Consensus       452 G~tP~~~~i~~l~~wl~~~~~~~~~~~td~L~~~~~p~a~~~~~~~~G~lav~i~~--~~~l~wFR~e~~~~v~WaG~p~  529 (681)
                      |.||+..++..|+.||.+... ..+|+||+|+.. ||++..++..+||+||+||+.  ++||+|||+|..++|+|||||+
T Consensus       375 G~tP~~~~v~~Ll~wl~~~~~-~~vf~TdsL~q~-yPda~~~~~vAsGlLAI~is~~~s~~llWFRpEvv~tV~WGG~P~  452 (750)
T COG4251         375 GETPPRPAVQRLLQWLAEREE-GDVFATDSLSQV-YPDAEDYASVASGLLAIPISRVKSNYLLWFRPEVVQTVNWGGDPE  452 (750)
T ss_pred             cCCCChHHHHHHHHHHhcCCc-ccEEeecccccc-CcchhhhccccceeEEEEeeccccceEEEEchHHheeeccCCCCC
Confidence            999999999999999988754 468999999985 999999999999999999997  8999999999999999999999


Q ss_pred             CCCC-CCCCCCccCCchhhhHHhhhccccCCCCHHHHHHHHHHHHHHHHHHHH
Q 005722          530 DSGG-KDGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRGSLQD  581 (681)
Q Consensus       530 k~~~-~~~g~~l~PR~SFe~w~E~v~~~s~pW~~~Ei~aa~~L~l~l~~~l~~  581 (681)
                      ||.+ .+.|.||+||+||+.|+|+|+++|.||++.|+++|.+||..|.+.+..
T Consensus       453 k~~e~~~~~~rL~PRkSFe~WkE~vRl~s~PWs~~ei~~A~~LR~aiv~ivl~  505 (750)
T COG4251         453 KPYEAGPMGIRLTPRKSFELWKETVRLQSQPWSEVEIEAALELRKAIVGIVLR  505 (750)
T ss_pred             CccccCCCCcccCCcccHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9976 456889999999999999999999999999999999998777666544

>PF00360 PHY: Phytochrome region; InterPro: IPR013515 Phytochrome belongs to a family of plant photoreceptors that mediate physiological and developmental responses to changes in red and far-red light conditions [] Back     alignment and domain information
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs [] Back     alignment and domain information
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases Back     alignment and domain information
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases Back     alignment and domain information
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain [] Back     alignment and domain information
>PF08448 PAS_4: PAS fold; InterPro: IPR013656 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs [] Back     alignment and domain information
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A Back     alignment and domain information
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms] Back     alignment and domain information
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A Back     alignment and domain information
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A Back     alignment and domain information
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR Back     alignment and domain information
>TIGR01817 nifA Nif-specific regulatory protein Back     alignment and domain information
>TIGR00229 sensory_box PAS domain S-box Back     alignment and domain information
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional Back     alignment and domain information
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A Back     alignment and domain information
>PRK09776 putative diguanylate cyclase; Provisional Back     alignment and domain information
>PRK13560 hypothetical protein; Provisional Back     alignment and domain information
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR Back     alignment and domain information
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional Back     alignment and domain information
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR Back     alignment and domain information
>PRK13557 histidine kinase; Provisional Back     alignment and domain information
>smart00091 PAS PAS domain Back     alignment and domain information
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional Back     alignment and domain information
>PRK11006 phoR phosphate regulon sensor protein; Provisional Back     alignment and domain information
>cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya Back     alignment and domain information
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D Back     alignment and domain information
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms] Back     alignment and domain information
>PRK10060 RNase II stability modulator; Provisional Back     alignment and domain information
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional Back     alignment and domain information
>PRK13558 bacterio-opsin activator; Provisional Back     alignment and domain information
>PRK13559 hypothetical protein; Provisional Back     alignment and domain information
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional Back     alignment and domain information
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional Back     alignment and domain information
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL Back     alignment and domain information
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional Back     alignment and domain information
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional Back     alignment and domain information
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A Back     alignment and domain information
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms] Back     alignment and domain information
>PF12860 PAS_7: PAS fold Back     alignment and domain information
>PRK09776 putative diguanylate cyclase; Provisional Back     alignment and domain information
>PRK11360 sensory histidine kinase AtoS; Provisional Back     alignment and domain information
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs [] Back     alignment and domain information
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional Back     alignment and domain information
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional Back     alignment and domain information
>PRK11086 sensory histidine kinase DcuS; Provisional Back     alignment and domain information
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional Back     alignment and domain information
>PRK13560 hypothetical protein; Provisional Back     alignment and domain information
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms] Back     alignment and domain information
>PRK13558 bacterio-opsin activator; Provisional Back     alignment and domain information
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms] Back     alignment and domain information
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL Back     alignment and domain information
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism] Back     alignment and domain information
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms] Back     alignment and domain information
>TIGR02373 photo_yellow photoactive yellow protein Back     alignment and domain information
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase Back     alignment and domain information
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms] Back     alignment and domain information
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription] Back     alignment and domain information
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms] Back     alignment and domain information
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional Back     alignment and domain information
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription] Back     alignment and domain information
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs [] Back     alignment and domain information
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms] Back     alignment and domain information
>TIGR02851 spore_V_T stage V sporulation protein T Back     alignment and domain information
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription] Back     alignment and domain information
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription] Back     alignment and domain information
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain [] Back     alignment and domain information
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A Back     alignment and domain information
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription] Back     alignment and domain information
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query681
2vea_A520 The Complete Sensory Module Of The Cyanobacterial P 6e-71
3zq5_A520 Structure Of The Y263f Mutant Of The Cyanobacterial 2e-70
4gw9_A655 Structure Of A Bacteriophytochrome And Light-Stimul 3e-51
3g6o_A505 Crystal Structure Of P. Aeruginosa Bacteriophytochr 2e-45
3c2w_A505 Crystal Structure Of The Photosensory Core Domain O 5e-45
3ibr_A505 Crystal Structure Of P. Aeruginosa Bacteriophytochr 5e-43
2ool_A337 Crystal Structure Of The Chromophore-Binding Domain 2e-37
4e04_A327 Rpbphp2 Chromophore-binding Domain Crystallized By 4e-34
2o9b_A342 Crystal Structure Of Bacteriophytochrome Chromophor 1e-27
3s7q_A343 Crystal Structure Of A Monomeric Infrared Fluoresce 3e-27
3s7n_A343 Crystal Structure Of The Alternate His 207 Conforma 7e-27
1ztu_A341 Structure Of The Chromophore Binding Domain Of Bact 8e-27
2lb5_A208 Refined Structural Basis For The Photoconversion Of 2e-17
2k2n_A172 Solution Structure Of A Cyanobacterial Phytochrome 2e-17
>pdb|2VEA|A Chain A, The Complete Sensory Module Of The Cyanobacterial Phytochrome Cph1 In The Pr-State Length = 520 Back     alignment and structure 
Iteration: 1

 Score =  265 bits (677), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 166/523 (31%), Positives = 267/523 (51%), Gaps = 49/523 (9%)
Query: 71  VQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLF 130
           +    LIQP G ++ + E + T+   S N   +L  +P  +          LG  +  +F
Sbjct: 20  IHTAHLIQPHGLVVVLQEPDLTISQISANCTGILGRSPEDL----------LGRTLGEVF 69
Query: 131 TSSGAAALQKAANFGEVNLLNPILIHCKTSGKPFY---AILHRIDVGLVI-DLEPV-NPD 185
            S     +Q     G+++ LNP  +  +  G  F     + HR   GL++ +LEP    D
Sbjct: 70  DSFQIDPIQSRLTAGQISSLNPSKLWARVMGDDFVIFDGVFHRNSDGLLVCELEPAYTSD 129
Query: 186 DVPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDE 245
           ++P      L  Y +A  A++RL+     N+    DV+V EV  +TG+DRVM+Y+F E+ 
Sbjct: 130 NLPF-----LGFYHMANAALNRLRQ--QANLRDFYDVIVEEVRRMTGFDRVMLYRFDENN 182
Query: 246 HGEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDC--LAPPVKVIQDKKL 303
           HG+V+AE +R D+EPYLG HYP +DIPQ +R L + N +R+I D   +A P+    +   
Sbjct: 183 HGDVIAEDKRDDMEPYLGLHYPESDIPQPARRLFIHNPIRVIPDVYGVAVPLTPAVNPST 242
Query: 304 DQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVC 363
           ++ + L  S LR+ + CH  Y++NMG  ASL +S+              +   LWGL+ C
Sbjct: 243 NRAVDLTESILRSAYHCHLTYLKNMGVGASLTISLI-------------KDGHLWGLIAC 289
Query: 364 HHTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLR--DSP 421
           HH +P+ +PF LR ACEF  +V    ++ + +         +   + VL D +    D  
Sbjct: 290 HHQTPKVIPFELRKACEFFGRVVFSNISAQEDTETFDYRVQLAEHEAVLLDKMTTAADFV 349
Query: 422 VGIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDS 481
            G+      ++ L    GAA+ +  KL L+G TP E+ ++ + +W LE         T S
Sbjct: 350 EGLTNHPDRLLGLTGSQGAAICFGEKLILVGETPDEKAVQYLLQW-LENREVQDVFFTSS 408
Query: 482 LVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGG---AKHDSGGKDGGR 538
           L +  YP A+       G+ A+ I   +FL WFR    + + WGG     +++  +DG  
Sbjct: 409 LSQI-YPDAVNFKSVASGLLAIPIARHNFLLWFRPEVLQTVNWGGDPNHAYEATQEDGKI 467
Query: 539 KMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQ-----LILR 576
           ++HPR SF  + E+V+ +SLPW+ VE+ +  +L+     LILR
Sbjct: 468 ELHPRQSFDLWKEIVRLQSLPWQSVEIQSALALKKAIVNLILR 510
>pdb|3ZQ5|A Chain A, Structure Of The Y263f Mutant Of The Cyanobacterial Phytochrome Cph1 Length = 520 Back     alignment and structure
>pdb|4GW9|A Chain A, Structure Of A Bacteriophytochrome And Light-Stimulated Protomer Swapping With A Gene Repressor Length = 655 Back     alignment and structure
>pdb|3G6O|A Chain A, Crystal Structure Of P. Aeruginosa Bacteriophytochrome Pabphp Photosensory Core Domain Mutant Q188l Length = 505 Back     alignment and structure
>pdb|3C2W|A Chain A, Crystal Structure Of The Photosensory Core Domain Of P. Aeruginosa Bacteriophytochrome Pabphp In The Pfr State Length = 505 Back     alignment and structure
>pdb|3IBR|A Chain A, Crystal Structure Of P. Aeruginosa Bacteriophytochrome Photosensory Core Module Mutant Q188l In The Mixed PrPFR STATE Length = 505 Back     alignment and structure
>pdb|2OOL|A Chain A, Crystal Structure Of The Chromophore-Binding Domain Of An Unusual Bacteriophytochrome Rpbphp3 From R. Palustris Length = 337 Back     alignment and structure
>pdb|4E04|A Chain A, Rpbphp2 Chromophore-binding Domain Crystallized By Homologue-directed Mutagenesis. Length = 327 Back     alignment and structure
>pdb|2O9B|A Chain A, Crystal Structure Of Bacteriophytochrome Chromophore Binding Domain Length = 342 Back     alignment and structure
>pdb|3S7Q|A Chain A, Crystal Structure Of A Monomeric Infrared Fluorescent Deinococcus Radiodurans Bacteriophytochrome Chromophore Binding Domain Length = 343 Back     alignment and structure
>pdb|3S7N|A Chain A, Crystal Structure Of The Alternate His 207 Conformation Of The Infrared Fluorescent D207h Variant Of Deinococcus Bacteriophytochrome Chromophore Binding Domain At 2.45 Angstrom Resolution Length = 343 Back     alignment and structure
>pdb|1ZTU|A Chain A, Structure Of The Chromophore Binding Domain Of Bacterial Phytochrome Length = 341 Back     alignment and structure
>pdb|2LB5|A Chain A, Refined Structural Basis For The Photoconversion Of A Phytochrome To The Activated Far-Red Light-Absorbing Form Length = 208 Back     alignment and structure
>pdb|2K2N|A Chain A, Solution Structure Of A Cyanobacterial Phytochrome Gaf Domain In The Red Light-Absorbing Ground State Length = 172 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query681
3zq5_A520 Phytochrome-like protein CPH1; arginine finger, ta 0.0
4eho_A635 Bacteriophytochrome, PAS/PAC sensor; photoreceptor 0.0
3nhq_A505 Bacteriophytochrome; photoreceptor, PAS, signaling 0.0
2ool_A337 Sensor protein; bacteriophytochrome, photoconversi 1e-129
4e04_A327 Bacteriophytochrome (light-regulated signal trans 1e-128
3s7o_A343 Bacteriophytochrome; biliverdin, PAS, GAF, photore 1e-121
2lb5_A208 Sensor histidine kinase; PCB, transferase, GAF dom 1e-101
2k2n_A172 Sensor protein, SYB-CPH1(GAF); phytochrome, GAF do 1e-89
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 9e-06
2jhe_A190 Transcription regulator TYRR; aromatic hydrocarbon 7e-07
3fc7_A125 HTR-like protein, sensor protein; APC87712.1, HTR- 4e-06
3mxq_A152 Sensor protein; PSI2, MCSG, structural genomics, p 3e-05
3a0s_A96 Sensor protein; PAS-fold, kinase, phosphoprotein, 1e-04
3mfx_A129 Sensory BOX/ggdef family protein; alpha-beta prote 4e-04
3a0r_A 349 Sensor protein; four helix bundle, PAS fold, kinas 8e-04
3bwl_A126 Sensor protein; structural genomics, APC87707.1, P 8e-04
>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF domain, receptor, PAS domain, chromophore, sensory transduction; HET: CYC; 1.95A {Synechocystis SP} PDB: 2vea_A* Length = 520 Back     alignment and structure
 Score =  587 bits (1515), Expect = 0.0
 Identities = 161/528 (30%), Positives = 262/528 (49%), Gaps = 47/528 (8%)

Query: 71  VQRGRLIQPFGCMIAVDEQNFTVLGYSENAPEMLDLAPHAVPNIEQQDALTLGIDVRTLF 130
           +    LIQP G ++ + E + T+   S N   +L  +P  +          LG  +  +F
Sbjct: 20  IHTAHLIQPHGLVVVLQEPDLTISQISANCTGILGRSPEDL----------LGRTLGEVF 69

Query: 131 TSSGAAALQKAANFGEVNLLNPILIHCKTSGKP---FYAILHRIDVGLVI-DLEPVNPDD 186
            S     +Q     G+++ LNP  +  +  G     F  + HR   GL++ +LEP    D
Sbjct: 70  DSFQIDPIQSRLTAGQISSLNPSKLWARVMGDDFVIFDGVFHRNSDGLLVCELEPAYTSD 129

Query: 187 VPVTAAGALKSYKLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEH 246
                   L  Y +A  A++RL+     N+    DV+V EV  +TG+DRVM+Y+F E+ H
Sbjct: 130 ----NLPFLGFYHMANAALNRLRQ--QANLRDFYDVIVEEVRRMTGFDRVMLYRFDENNH 183

Query: 247 GEVVAECRRPDLEPYLGFHYPATDIPQASRFLIMKNKVRMICDCLAP--PVKVIQDKKLD 304
           G+V+AE +R D+EPYLG HYP +DIPQ +R L + N +R+I D      P+    +   +
Sbjct: 184 GDVIAEDKRDDMEPYLGLHYPESDIPQPARRLFIHNPIRVIPDVYGVAVPLTPAVNPSTN 243

Query: 305 QPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRKLWGLVVCH 364
           + + L  S LR+ + CH  +++NMG  ASL +S+  +               LWGL+ CH
Sbjct: 244 RAVDLTESILRSAYHCHLTFLKNMGVGASLTISLIKDG-------------HLWGLIACH 290

Query: 365 HTSPRFVPFPLRYACEFLIQVFGVQVNKEVELSAQLREKHILRTQTVLCDMLLRDSPV-- 422
           H +P+ +PF LR ACEF  +V    ++ + +         +   + VL D +   +    
Sbjct: 291 HQTPKVIPFELRKACEFFGRVVFSNISAQEDTETFDYRVQLAEHEAVLLDKMTTAADFVE 350

Query: 423 GIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIKDIAEWLLEYHRGSTGLSTDSL 482
           G+      ++ L    GAA+ +  KL L+G TP E+ ++ + +WL           T SL
Sbjct: 351 GLTNHPDRLLGLTGSQGAAICFGEKLILVGETPDEKAVQYLLQWLENREVQDV-FFTSSL 409

Query: 483 VEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKEIKWGGAKHD---SGGKDGGRK 539
            +  YP A+       G+ A+ I   +FL WFR    + + WGG  +    +  +DG  +
Sbjct: 410 SQI-YPDAVNFKSVASGLLAIPIARHNFLLWFRPEVLQTVNWGGDPNHAYEATQEDGKIE 468

Query: 540 MHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQ-----LILRGSLQDE 582
           +HPR SF  + E+V+ +SLPW+ VE+ +  +L+     LILR + +  
Sbjct: 469 LHPRQSFDLWKEIVRLQSLPWQSVEIQSALALKKAIVNLILRQAEEHH 516
>3nhq_A Bacteriophytochrome; photoreceptor, PAS, signaling, signaling protei; HET: BLA; 2.55A {Pseudomonas aeruginosa} PDB: 3c2w_A* 3g6o_A* 3ibr_A* Length = 505 Back     alignment and structure
>2ool_A Sensor protein; bacteriophytochrome, photoconversion, photoreceptor, biliver signaling protein; HET: LBV; 2.20A {Rhodopseudomonas palustris} SCOP: d.110.2.1 d.110.3.9 Length = 337 Back     alignment and structure
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris} Length = 327 Back     alignment and structure
>3s7o_A Bacteriophytochrome; biliverdin, PAS, GAF, photoreceptor, fluorescent protein; HET: LBV GOL; 1.24A {Deinococcus radiodurans} PDB: 3s7n_A* 3s7p_A* 3s7q_A* 2o9c_A* 2o9b_A* 1ztu_A* Length = 343 Back     alignment and structure
>2k2n_A Sensor protein, SYB-CPH1(GAF); phytochrome, GAF domain, phycocyanobilin, PCB, bacteriophytochrome, cyanobacterial phytochrome, kinase; HET: CYC; NMR {Synechococcus SP} SCOP: d.110.2.1 PDB: 2kli_A* 2koi_A* Length = 172 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protei nucleotide-binding, transcription regulation, activator; HET: PG4; 2.30A {Escherichia coli} Length = 190 Back     alignment and structure
>3fc7_A HTR-like protein, sensor protein; APC87712.1, HTR-like protein,haloarcula marismortui ATCC 430 structural genomics, PSI-2; 2.65A {Haloarcula marismortui} Length = 125 Back     alignment and structure
>3mxq_A Sensor protein; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.78A {Vibrio cholerae o1 biovar el tor} Length = 152 Back     alignment and structure
>3a0s_A Sensor protein; PAS-fold, kinase, phosphoprotein, transferase, two-component regulatory system; HET: PG4 PGE; 1.47A {Thermotoga maritima} PDB: 3a0v_A* Length = 96 Back     alignment and structure
>3mfx_A Sensory BOX/ggdef family protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Shewanella oneidensis} Length = 129 Back     alignment and structure
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima} Length = 349 Back     alignment and structure
>3bwl_A Sensor protein; structural genomics, APC87707.1, PAS domain, HTR-like protei protein structure initiative; HET: MSE I3A; 1.73A {Haloarcula marismortui atcc 43049} Length = 126 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query681
4eho_A635 Bacteriophytochrome, PAS/PAC sensor; photoreceptor 100.0
3zq5_A520 Phytochrome-like protein CPH1; arginine finger, ta 100.0
3nhq_A505 Bacteriophytochrome; photoreceptor, PAS, signaling 100.0
4e04_A327 Bacteriophytochrome (light-regulated signal trans 100.0
3s7o_A343 Bacteriophytochrome; biliverdin, PAS, GAF, photore 100.0
2ool_A337 Sensor protein; bacteriophytochrome, photoconversi 100.0
4glq_A171 Methyl-accepting chemotaxis protein; chromophore, 100.0
2k2n_A172 Sensor protein, SYB-CPH1(GAF); phytochrome, GAF do 99.96
2lb5_A208 Sensor histidine kinase; PCB, transferase, GAF dom 99.95
3p01_A184 Two-component response regulator; PSI-2, midwest c 99.14
1ykd_A398 Adenylate cyclase; GAF domain, bound cyclic AMP li 99.09
2zmf_A189 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho 99.03
1d06_A130 Nitrogen fixation regulatory protein FIXL; oxygen 99.02
2r78_A117 Sensor protein; sensory box sensor histidine kinas 98.96
3oov_A169 Methyl-accepting chemotaxis protein, putative; str 98.95
3k2n_A177 Sigma-54-dependent transcriptional regulator; PSI- 98.93
3ci6_A171 Phosphoenolpyruvate-protein phosphotransferase; PE 98.91
3trc_A171 Phosphoenolpyruvate-protein phosphotransferase; si 98.88
3f1p_B121 ARYL hydrocarbon receptor nuclear translocator; PA 98.86
3mxq_A152 Sensor protein; PSI2, MCSG, structural genomics, p 98.86
3e0y_A181 Conserved domain protein; APC87688.2, geobacter su 98.86
2qyb_A181 Membrane protein, putative; GAF domain, domain of 98.85
2gj3_A120 Nitrogen fixation regulatory protein; PAS domain, 98.83
2vlg_A111 Sporulation kinase A; histidine kinase, two-compon 98.8
3bwl_A126 Sensor protein; structural genomics, APC87707.1, P 98.8
2e4s_A189 CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphod 98.77
3mfx_A129 Sensory BOX/ggdef family protein; alpha-beta prote 98.76
3ibj_A 691 CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE 98.75
3fc7_A125 HTR-like protein, sensor protein; APC87712.1, HTR- 98.75
3luq_A114 Sensor protein; PAS, histidine, kinase, PSI, MCSG, 98.74
3olo_A118 Two-component sensor histidine kinase; structural 98.73
1mc0_A368 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF 98.73
2kdk_A121 ARYL hydrocarbon receptor nuclear translocator-LI 98.7
2vv6_A119 FIXL, sensor protein FIXL; signaling protein, tran 98.68
3f1p_A117 Endothelial PAS domain-containing protein 1; PAS d 98.67
3fg8_A118 Uncharacterized protein RHA05790; PAS domain, stru 98.64
3hcy_A151 Putative two-component sensor histidine kinase PR; 98.61
4hia_A176 LOV protein; PAS, HTH, signaling protein; HET: FMN 98.6
3mjq_A126 Uncharacterized protein; NESG, structural genomics 98.59
3eeh_A125 Putative light and redox sensing histidine kinase; 98.58
3nja_A125 Probable ggdef family protein; structural genomics 98.55
3p7n_A 258 Sensor histidine kinase; LOV domain, light-activat 98.52
4eet_B115 Phototropin-2; LOV, blue light photoreceptor, sign 98.48
3lyx_A124 Sensory BOX/ggdef domain protein; structural genom 98.48
2pr5_A132 Blue-light photoreceptor; light-oxygen-voltage, LO 98.48
1ll8_A114 PAS kinase; PAS domain, ligand binding, ligand scr 98.47
1mc0_A368 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF 98.46
3ue6_A166 Aureochrome1; PAS/LOV domain, FMN-binding blue-lig 98.45
3o5y_A165 Sensor protein; GAF domain, histidine, kinase, PSI 98.45
3mqq_A120 Transcriptional regulator, LUXR family; PAS domain 98.44
3ewk_A227 Sensor protein; PAS domain, alpha/beta fold, kinas 98.44
2w0n_A118 Sensor protein DCUS; signal transduction, two-comp 98.43
3icy_A118 Sensor protein; sensory box histidine kinase/respo 98.42
1v9y_A167 Heme PAS sensor protein; signaling protein; HET: H 98.41
2z6d_A130 Phototropin-2; PAS-fold, LOV-fold, alternative spl 98.4
3k3c_A158 Protein RV1364C/MT1410; sensor, PAS, signal transd 98.39
1nwz_A125 PYP, photoactive yellow protein; PAS, LOV, GAF, do 98.36
2w3g_A153 DOSS, two component sensor histidine kinase DEVS ( 98.36
2qkp_A151 Uncharacterized protein; structural genomics, unkn 98.35
3b33_A115 Sensor protein; structural genomics, PAS domain, n 98.33
4hi4_A121 Aerotaxis transducer AER2; PAS domain, diatomic GA 98.33
3mr0_A142 Sensory box histidine kinase/response regulator; P 98.33
3t50_A128 Blue-light-activated histidine kinase; PAS superfa 98.32
1mzu_A129 PPR; photoactive yellow protein, PAS, PYP, signali 98.3
3kx0_X185 Uncharacterized protein RV1364C/MT1410; PAS domain 98.26
2jhe_A190 Transcription regulator TYRR; aromatic hydrocarbon 98.24
2vjw_A149 GAF-B, GAF family protein; histidine kinase, hypox 98.23
1ykd_A398 Adenylate cyclase; GAF domain, bound cyclic AMP li 98.22
3a0s_A96 Sensor protein; PAS-fold, kinase, phosphoprotein, 98.21
1n9l_A109 PHOT-LOV1, putative blue light receptor; phototrop 98.2
3sw1_A162 Sensory box protein; light-oxygen-voltage, LOV, PA 98.16
3d72_A149 Vivid PAS protein VVD; circadian, photoreceptor, b 98.15
2v0u_A146 NPH1-1, LOV2; kinase, transferase, ATP-binding, se 98.1
2wkq_A 332 NPH1-1, RAS-related C3 botulinum toxin substrate 1 98.1
4f3l_A 361 Mclock, circadian locomoter output cycles protein 98.08
2l0w_A138 Potassium voltage-gated channel, subfamily H (EAG 98.07
3ibj_A691 CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE 98.02
3vol_A 233 Aerotaxis transducer AER2; heme, oxygen sensor pro 98.01
3h9w_A115 Diguanylate cyclase with PAS/PAC sensor; alpha-bet 97.94
3a0r_A 349 Sensor protein; four helix bundle, PAS fold, kinas 97.91
4f3l_B 387 BMAL1B; BHLH, PAS, circadian rhythm proteins, tran 97.9
3dba_A180 CONE CGMP-specific 3',5'-cyclic phosphodiesterase 97.89
3bjc_A 878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 97.87
3cax_A369 Uncharacterized protein PF0695; structural genomic 97.78
3mmh_A167 FRMSR, methionine-R-sulfoxide reductase; oxidoredu 97.74
4f3l_B387 BMAL1B; BHLH, PAS, circadian rhythm proteins, tran 97.72
3rty_A 339 Period circadian protein; PAS domain, signalling, 97.68
4dj3_A317 Period circadian protein homolog 3; PAS domain, ci 97.67
1byw_A110 Protein (human ERG potassium channel); PAS domain, 97.67
4dj2_A320 Period circadian protein homolog 1; PAS domains, c 97.64
3gdi_A309 Period circadian protein homolog 2; tandem PAS dom 97.62
4f3l_A361 Mclock, circadian locomoter output cycles protein 97.54
4dj2_A 320 Period circadian protein homolog 1; PAS domains, c 97.47
4dj3_A 317 Period circadian protein homolog 3; PAS domain, ci 97.41
3gdi_A 309 Period circadian protein homolog 2; tandem PAS dom 97.39
1vhm_A195 Protein YEBR; structural genomics, unknown functio 97.3
3rty_A 339 Period circadian protein; PAS domain, signalling, 97.22
1f5m_A180 GAF; CGMP binding, signaling protein; 1.90A {Sacch 97.05
3ksh_A160 Putative uncharacterized protein; FRMSR, free-Met- 96.9
2ykf_A305 Pdtas, probable sensor histidine kinase pdtas; tra 95.7
3rfb_A171 Putative uncharacterized protein; FRMSR, GAF, oxid 96.63
3bjc_A878 CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5 95.17
1oj5_A132 Steroid receptor coactivator 1A; transcriptional c 94.05
3cit_A160 Sensor histidine kinase; MEGA: 3.30.450.40, struct 93.74
1ll8_A114 PAS kinase; PAS domain, ligand binding, ligand scr 93.22
2ool_A 337 Sensor protein; bacteriophytochrome, photoconversi 92.51
2vlg_A111 Sporulation kinase A; histidine kinase, two-compon 91.27
3f1p_B121 ARYL hydrocarbon receptor nuclear translocator; PA 85.03
4e04_A 327 Bacteriophytochrome (light-regulated signal trans 83.73
3szt_A237 QCSR, quorum-sensing control repressor; quorum sen 82.63
>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF domain, receptor, PAS domain, chromophore, sensory transduction; HET: CYC; 1.95A {Synechocystis SP} PDB: 2vea_A* Back     alignment and structure
>3nhq_A Bacteriophytochrome; photoreceptor, PAS, signaling, signaling protei; HET: BLA; 2.55A {Pseudomonas aeruginosa} PDB: 3c2w_A* 3nop_C* 3not_C* 3nou_C* 3g6o_A* 3ibr_A* Back     alignment and structure
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris} Back     alignment and structure
>3s7o_A Bacteriophytochrome; biliverdin, PAS, GAF, photoreceptor, fluorescent protein; HET: LBV GOL; 1.24A {Deinococcus radiodurans} PDB: 3s7n_A* 3s7p_A* 3s7q_A* 2o9c_A* 2o9b_A* 1ztu_A* Back     alignment and structure
>2ool_A Sensor protein; bacteriophytochrome, photoconversion, photoreceptor, biliver signaling protein; HET: LBV; 2.20A {Rhodopseudomonas palustris} SCOP: d.110.2.1 d.110.3.9 Back     alignment and structure
>4glq_A Methyl-accepting chemotaxis protein; chromophore, phytochrome, cyanobacteriochrome, phycoviolobil bilin, BILI-protein; HET: PVN; 1.77A {Thermosynechococcus elongatus} PDB: 4fof_A* Back     alignment and structure
>2k2n_A Sensor protein, SYB-CPH1(GAF); phytochrome, GAF domain, phycocyanobilin, PCB, bacteriophytochrome, cyanobacterial phytochrome, kinase; HET: CYC; NMR {Synechococcus SP} SCOP: d.110.2.1 PDB: 2kli_A* 2koi_A* Back     alignment and structure
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain, phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB: 2lb9_A* Back     alignment and structure
>3p01_A Two-component response regulator; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, signali protein; 2.65A {Nostoc SP} Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Back     alignment and structure
>2zmf_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho 10A; GAF domain, phosphodiesterase, CGMP-binding, HYD nucleotide-binding, structural genomics; HET: MSE CMP; 2.10A {Homo sapiens} Back     alignment and structure
>1d06_A Nitrogen fixation regulatory protein FIXL; oxygen sensor, histidine kinase, PAS, high-resolution, two-C system, signaling protein; HET: HEM; 1.40A {Sinorhizobium meliloti} SCOP: d.110.3.2 PDB: 1ew0_A* Back     alignment and structure
>2r78_A Sensor protein; sensory box sensor histidine kinase/response regulator, structural genomics, PSI, MCSG; 1.60A {Geobacter sulfurreducens pca} Back     alignment and structure
>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens} Back     alignment and structure
>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein structure initiative, structural genomics; 2.50A {Chlorobium tepidum tls} Back     alignment and structure
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP} Back     alignment and structure
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii} Back     alignment and structure
>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain, heterodimer, internal cavity, activator, angiogenesis, congenital erythrocytosis; 1.17A {Homo sapiens} SCOP: d.110.3.0 PDB: 3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 4h6j_B 2b02_A* 2k7s_A 2a24_B Back     alignment and structure
>3mxq_A Sensor protein; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.78A {Vibrio cholerae o1 biovar el tor} Back     alignment and structure
>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens PCA, structural genomics, PSI-2, midwest center for structural G MCSG; 3.10A {Geobacter sulfurreducens} Back     alignment and structure
>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane protein, PSI-2, MCSG structural genomics; 2.40A {Geobacter sulfurreducens pca} Back     alignment and structure
>2gj3_A Nitrogen fixation regulatory protein; PAS domain, FAD, redox sensor, atomic resolution, transferase; HET: FAD; 1.04A {Azotobacter vinelandii} Back     alignment and structure
>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory system, two-component signal transduction, transferase, phosphorylation, SCOD; 1.7A {Bacillus subtilis} Back     alignment and structure
>3bwl_A Sensor protein; structural genomics, APC87707.1, PAS domain, HTR-like protei protein structure initiative; HET: MSE I3A; 1.73A {Haloarcula marismortui atcc 43049} Back     alignment and structure
>3mfx_A Sensory BOX/ggdef family protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Shewanella oneidensis} Back     alignment and structure
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Back     alignment and structure
>3fc7_A HTR-like protein, sensor protein; APC87712.1, HTR-like protein,haloarcula marismortui ATCC 430 structural genomics, PSI-2; 2.65A {Haloarcula marismortui} Back     alignment and structure
>3luq_A Sensor protein; PAS, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: PGE; 2.49A {Geobacter sulfurreducens} Back     alignment and structure
>3olo_A Two-component sensor histidine kinase; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, TRA; 2.09A {Nostoc SP} Back     alignment and structure
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Back     alignment and structure
>2kdk_A ARYL hydrocarbon receptor nuclear translocator-LI 2; circadian clock, PAS domain, transcription, activator, biolo rhythms, DNA-binding, nucleus; NMR {Homo sapiens} Back     alignment and structure
>2vv6_A FIXL, sensor protein FIXL; signaling protein, transferase, phosphoprotein, nitrogen FIX PER-ARNT-SIM, metal-binding, PAS, iron, heme; HET: HEM; 1.5A {Bradyrhizobium japonicum} PDB: 1xj6_A* 1xj4_A* 2vv7_A* 2vv8_A* 1lsw_A* 1dp8_A* 1dp9_A* 1drm_A* 1lsv_A* 1dp6_A* 1lsx_A* 1lt0_A* 1y28_A* 2cmn_A* 1xj3_A* 1xj2_A* 2owh_A* 2owj_A* Back     alignment and structure
>3f1p_A Endothelial PAS domain-containing protein 1; PAS domain, heterodimer, internal cavity, activator, angiogenesis, congenital erythrocytosis; 1.17A {Homo sapiens} SCOP: d.110.3.7 PDB: 3f1o_A* 3f1n_A 3h7w_A* 3h82_A* 1p97_A 2a24_A 4h6j_A Back     alignment and structure
>3fg8_A Uncharacterized protein RHA05790; PAS domain, structural genomics, PS protein structure initiative, midwest center for structural genomics, MCSG; HET: 3PB; 1.80A {Rhodococcus SP} Back     alignment and structure
>3hcy_A Putative two-component sensor histidine kinase PR; two-component sensor histidine kinase protein, structural GE PSI, MCSG; 2.80A {Sinorhizobium meliloti} Back     alignment and structure
>4hia_A LOV protein; PAS, HTH, signaling protein; HET: FMN; 1.95A {Rhodobacter sphaeroides} PDB: 4hnb_A* 4hj4_A* 4hj6_A* 4hj3_A* Back     alignment and structure
>3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; 2.60A {Desulfitobacterium hafniense} Back     alignment and structure
>3eeh_A Putative light and redox sensing histidine kinase; structural genomic MCSG, protein structure initiative, midwest center for STRU genomics; HET: PG5; 1.95A {Haloarcula marismortui} Back     alignment and structure
>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.37A {Chromobacterium violaceum} Back     alignment and structure
>3p7n_A Sensor histidine kinase; LOV domain, light-activated transcription factor, DNA bindin; HET: FMN; 2.10A {Erythrobacter litoralis} Back     alignment and structure
>4eet_B Phototropin-2; LOV, blue light photoreceptor, signaling protein, flavoprote; HET: FMN; 1.20A {Arabidopsis thaliana} PDB: 4ees_A* 4eer_A* 4eep_A* 4eeu_A* 1jnu_A* 1g28_A* Back     alignment and structure
>3lyx_A Sensory BOX/ggdef domain protein; structural genomics, PSI- 2, protein structure initiative, northeast structural genomics consortium; 2.00A {Colwellia psychrerythraea} Back     alignment and structure
>2pr5_A Blue-light photoreceptor; light-oxygen-voltage, LOV, PER-ARNT-SIM, PAS, flavoprotein, protein; HET: FMN; 1.45A {Bacillus subtilis} PDB: 2pr6_A* Back     alignment and structure
>1ll8_A PAS kinase; PAS domain, ligand binding, ligand screening, kinase regulation, transferase; NMR {Homo sapiens} SCOP: d.110.3.5 Back     alignment and structure
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1 Back     alignment and structure
>3ue6_A Aureochrome1; PAS/LOV domain, FMN-binding blue-light photoreceptor, signal protein; HET: FMN; 2.75A {Vaucheria frigida} PDB: 3ulf_A* Back     alignment and structure
>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics, protein S initiative; 2.45A {Bacillus halodurans} Back     alignment and structure
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG, structural genomics, center for structural genomics; 1.65A {Burkholderia thailandensis} PDB: 3mqo_A Back     alignment and structure
>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase, phosphoprotein, transfe flavoprotein; HET: FAD; 2.34A {Methylococcus capsulatus} Back     alignment and structure
>2w0n_A Sensor protein DCUS; signal transduction, two-component regulatory system, PAS, kinase, membrane, transferase, solid state cell inner membrane; NMR {Escherichia coli} Back     alignment and structure
>3icy_A Sensor protein; sensory box histidine kinase/response regulator domain, kinase, chlorobium tepidum TLS, PSI-2; 2.68A {Chlorobaculum tepidum} Back     alignment and structure
>1v9y_A Heme PAS sensor protein; signaling protein; HET: HEM; 1.32A {Escherichia coli} SCOP: d.110.3.2 PDB: 1v9z_A* 1vb6_A* 1s67_L* 1s66_L* Back     alignment and structure
>2z6d_A Phototropin-2; PAS-fold, LOV-fold, alternative splicing, ATP-binding, chromophore, flavoprotein, FMN, kinase, membrane, nucleotide-binding; HET: FMN; 2.00A {Arabidopsis thaliana} PDB: 2z6c_A* Back     alignment and structure
>3k3c_A Protein RV1364C/MT1410; sensor, PAS, signal transduction, fatty-acid binding, sigma regulator, signaling protein; HET: PLM; 1.62A {Mycobacterium tuberculosis} PDB: 3k3d_A Back     alignment and structure
>1nwz_A PYP, photoactive yellow protein; PAS, LOV, GAF, domains fold, signaling protein; HET: HC4; 0.82A {Halorhodospira halophila} SCOP: d.110.3.1 PDB: 1kou_A* 1ot9_A* 1otb_A* 1s4r_A* 1s4s_A* 1ts0_A* 1ts6_A* 1ts7_A* 1ts8_A* 1uwn_X* 1uwp_X* 2d01_A* 2phy_A* 2pyp_A* 2pyr_A* 2qj5_A* 2qj7_A* 2qws_A* 2zoh_A* 2zoi_A* ... Back     alignment and structure
>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family protein); redox sensor, heme, hypoxia, GAF domain, transferase; HET: HEM; 1.40A {Mycobacterium tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A* 2y79_A* 2y8h_A* 2vzw_A* Back     alignment and structure
>2qkp_A Uncharacterized protein; structural genomics, unknown function, PSI-2, protein struct initiative; 1.75A {Streptococcus mutans} Back     alignment and structure
>3b33_A Sensor protein; structural genomics, PAS domain, nitrogen regulation protein APC91440.4, PSI-2; HET: MSE; 1.83A {Vibrio parahaemolyticus rimd 2210633} Back     alignment and structure
>4hi4_A Aerotaxis transducer AER2; PAS domain, diatomic GAS sensor, signaling protein; HET: HEM GOL; 2.30A {Pseudomonas aeruginosa} Back     alignment and structure
>3mr0_A Sensory box histidine kinase/response regulator; PAS fold, structural genomics, PSI-2; HET: PG5; 1.49A {Burkholderia thailandensis} Back     alignment and structure
>3t50_A Blue-light-activated histidine kinase; PAS superfamily, blue-light photoreceptor, FMN binding, TRAN; HET: FMN; 1.64A {Brucella melitensis} Back     alignment and structure
>1mzu_A PPR; photoactive yellow protein, PAS, PYP, signaling protein; HET: HC4; 2.00A {Rhodospirillum centenum} SCOP: d.110.3.1 Back     alignment and structure
>3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain, mycobacteium tuberculos molecule binding domain; 2.30A {Mycobacterium tuberculosis} Back     alignment and structure
>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protei nucleotide-binding, transcription regulation, activator; HET: PG4; 2.30A {Escherichia coli} Back     alignment and structure
>2vjw_A GAF-B, GAF family protein; histidine kinase, hypoxia sensing, hydrolase; HET: MSE; 2.0A {Mycobacterium smegmatis} PDB: 2vks_A Back     alignment and structure
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP} Back     alignment and structure
>3a0s_A Sensor protein; PAS-fold, kinase, phosphoprotein, transferase, two-component regulatory system; HET: PG4 PGE; 1.47A {Thermotoga maritima} PDB: 3a0v_A* Back     alignment and structure
>1n9l_A PHOT-LOV1, putative blue light receptor; phototropin, flavin, electron transport; HET: FMN; 1.90A {Chlamydomonas reinhardtii} SCOP: d.110.3.6 PDB: 1n9n_A* 1n9o_A* Back     alignment and structure
>3sw1_A Sensory box protein; light-oxygen-voltage, LOV, PAS, signaling protein; HET: FMN; 2.63A {Pseudomonas putida} Back     alignment and structure
>3d72_A Vivid PAS protein VVD; circadian, photoreceptor, blue-light, LOV, signaling protein; HET: FAD; 1.65A {Neurospora crassa} PDB: 3is2_A* 2pd8_A* 3hjk_A* 2pdr_A* 2pd7_A* 2pdt_A* 3hji_A* 3rh8_B* Back     alignment and structure
>2v0u_A NPH1-1, LOV2; kinase, transferase, ATP-binding, serine/threonine-protein kinase, light-induced signal trans phototropin1, nucleotide-binding; HET: FMN; 1.40A {Avena sativa} PDB: 2v0w_A* 2v1b_A* 2v1a_A* 1jnu_A* 1g28_A* Back     alignment and structure
>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Back     alignment and structure
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Back     alignment and structure
>2l0w_A Potassium voltage-gated channel, subfamily H (EAG member 2, isoform CRA_B; HERG, PAS domain, voltage-gated potassium channel, membrane; NMR {Homo sapiens} PDB: 2l1m_A 2l4r_A Back     alignment and structure
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens} Back     alignment and structure
>3vol_A Aerotaxis transducer AER2; heme, oxygen sensor protein, PAS, HAMP, cyanoMet, CN-bound, protein; HET: HEM; 2.40A {Pseudomonas aeruginosa} Back     alignment and structure
>3h9w_A Diguanylate cyclase with PAS/PAC sensor; alpha-beta protein., structural genomics, PSI-2, protein STR initiative; 1.90A {Marinobacter aquaeolei} Back     alignment and structure
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima} Back     alignment and structure
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Back     alignment and structure
>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF domain, cyclic nucleotide phosphodiesterase hydrolase, lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus} Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Back     alignment and structure
>3cax_A Uncharacterized protein PF0695; structural genomics, unknown function, PSI-2, protein struct initiative; 2.43A {Pyrococcus furiosus dsm 3638} Back     alignment and structure
>3mmh_A FRMSR, methionine-R-sulfoxide reductase; oxidoreductase; HET: SME MRD; 1.25A {Neisseria meningitidis} SCOP: d.110.2.0 Back     alignment and structure
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Back     alignment and structure
>3rty_A Period circadian protein; PAS domain, signalling, timeless, circadian clock protein; 2.85A {Drosophila melanogaster} PDB: 1wa9_A 3gec_A Back     alignment and structure
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm, protein binding; 2.50A {Mus musculus} Back     alignment and structure
>1byw_A Protein (human ERG potassium channel); PAS domain, potassium channel domain, membrane protein; 2.60A {Homo sapiens} SCOP: d.110.3.6 Back     alignment and structure
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock protein, protein binding; 2.75A {Mus musculus} Back     alignment and structure
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological rhythms, cytoplasm, nucleus, phosphoprotein, transcription; 2.40A {Mus musculus} Back     alignment and structure
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus} Back     alignment and structure
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock protein, protein binding; 2.75A {Mus musculus} Back     alignment and structure
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm, protein binding; 2.50A {Mus musculus} Back     alignment and structure
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological rhythms, cytoplasm, nucleus, phosphoprotein, transcription; 2.40A {Mus musculus} Back     alignment and structure
>1vhm_A Protein YEBR; structural genomics, unknown function; HET: MES; 2.10A {Escherichia coli} SCOP: d.110.2.1 Back     alignment and structure
>3rty_A Period circadian protein; PAS domain, signalling, timeless, circadian clock protein; 2.85A {Drosophila melanogaster} PDB: 1wa9_A 3gec_A Back     alignment and structure
>1f5m_A GAF; CGMP binding, signaling protein; 1.90A {Saccharomyces cerevisiae} SCOP: d.110.2.1 PDB: 3ko6_A* Back     alignment and structure
>3ksh_A Putative uncharacterized protein; FRMSR, free-Met-R-SO, oxidoreductase; 1.50A {Staphylococcus aureus} SCOP: d.110.2.0 PDB: 3ksf_A 3ksi_A 3ksg_A* Back     alignment and structure
>2ykf_A Pdtas, probable sensor histidine kinase pdtas; transferase, two-component system, GAF domain, PAS domain; 2.00A {Mycobacterium tuberculosis} PDB: 2ykh_A Back     alignment and structure
>3rfb_A Putative uncharacterized protein; FRMSR, GAF, oxidoreductase, SME; HET: SME; 2.30A {Streptococcus pneumoniae} Back     alignment and structure
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A* Back     alignment and structure
>1oj5_A Steroid receptor coactivator 1A; transcriptional coactivator, complex, LXXLL motif, transcriptional regulation; 2.2A {Mus musculus} SCOP: d.110.3.8 Back     alignment and structure
>3cit_A Sensor histidine kinase; MEGA: 3.30.450.40, structural genomics, sensor histidine KIN pseudomonas syringae, PSI-2; HET: MSE; 1.90A {Pseudomonas syringae PV} Back     alignment and structure
>1ll8_A PAS kinase; PAS domain, ligand binding, ligand screening, kinase regulation, transferase; NMR {Homo sapiens} SCOP: d.110.3.5 Back     alignment and structure
>2ool_A Sensor protein; bacteriophytochrome, photoconversion, photoreceptor, biliver signaling protein; HET: LBV; 2.20A {Rhodopseudomonas palustris} SCOP: d.110.2.1 d.110.3.9 Back     alignment and structure
>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory system, two-component signal transduction, transferase, phosphorylation, SCOD; 1.7A {Bacillus subtilis} Back     alignment and structure
>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain, heterodimer, internal cavity, activator, angiogenesis, congenital erythrocytosis; 1.17A {Homo sapiens} SCOP: d.110.3.0 PDB: 3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 4h6j_B 2b02_A* 2k7s_A 2a24_B Back     alignment and structure
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris} Back     alignment and structure
>3szt_A QCSR, quorum-sensing control repressor; quorum sensing acyl-homoserine lactone, helix-turn-helix, transcription factor, 3-OXO-C12 HSL; HET: OHN; 2.55A {Pseudomonas aeruginosa} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 681
d2veaa2188 d.110.2.4 (A:327-514) Phytochrome-like protein Cph 7e-75
d2o9ca1187 d.110.2.1 (A:135-321) Bacteriophytochrome BphP {De 9e-74
d3c2wa1192 d.110.2.1 (A:118-309) Bacteriophytochrome BphP {Ps 2e-70
d2oola1194 d.110.2.1 (A:140-333) Sensor protein PhyB2 {Rhodop 2e-69
d2veaa1196 d.110.2.1 (A:131-326) Phytochrome-like protein Cph 1e-68
d3c2wa2185 d.110.2.4 (A:310-494) Bacteriophytochrome BphP {Ps 1e-58
d2k2na1170 d.110.2.1 (A:31-200) Sensor protein CYB2465 {Synec 8e-47
d2veaa3127 d.110.3.9 (A:4-130) Phytochrome-like protein Cph1 2e-26
d2o9ca2127 d.110.3.9 (A:4-130) Bacteriophytochrome BphP {Dein 1e-23
d3c2wa3113 d.110.3.9 (A:5-117) Bacteriophytochrome BphP {Pseu 1e-22
d2oola2114 d.110.3.9 (A:26-139) Sensor protein PhyB2 {Rhodops 4e-22
d1mzua_110 d.110.3.1 (A:) PYP domain of sensor histidine kina 0.002
>d2veaa2 d.110.2.4 (A:327-514) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Length = 188 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: Phytochrome-specific domain
domain: Phytochrome-like protein Cph1
species: Synechocystis sp. pcc 6803 [TaxId: 1148]

 Score =  236 bits (604), Expect = 7e-75
 Identities = 51/179 (28%), Positives = 88/179 (49%), Gaps = 7/179 (3%)

Query: 404 HILRTQTVLCDMLLRDSPV--GIVTQTPNVMDLVKCDGAALYYRGKLWLLGVTPTEEQIK 461
            +   + VL D +   +    G+      ++ L    GAA+ +  KL L+G TP E+ ++
Sbjct: 4   QLAEHEAVLLDKMTTAADFVEGLTNHPDRLLGLTGSQGAAICFGEKLILVGETPDEKAVQ 63

Query: 462 DIAEWLLEYHRGSTGLSTDSLVEAGYPGALALGDAVCGIAAVKITSKDFLFWFRSHTAKE 521
            + +W LE         T SL    YP A+       G+ A+ I   +FL WFR    + 
Sbjct: 64  YLLQW-LENREVQDVFFTSSL-SQIYPDAVNFKSVASGLLAIPIARHNFLLWFRPEVLQT 121

Query: 522 IKWGGA---KHDSGGKDGGRKMHPRSSFKAFLEVVKQRSLPWEDVEMDAIHSLQLILRG 577
           + WGG     +++  +DG  ++HPR SF  + E+V+ +SLPW+ VE+ +  +L+  +  
Sbjct: 122 VNWGGDPNHAYEATQEDGKIELHPRQSFDLWKEIVRLQSLPWQSVEIQSALALKKAIVN 180
>d2o9ca1 d.110.2.1 (A:135-321) Bacteriophytochrome BphP {Deinococcus radiodurans [TaxId: 1299]} Length = 187 Back     information, alignment and structure
>d3c2wa1 d.110.2.1 (A:118-309) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]} Length = 192 Back     information, alignment and structure
>d2oola1 d.110.2.1 (A:140-333) Sensor protein PhyB2 {Rhodopseudomonas palustris [TaxId: 1076]} Length = 194 Back     information, alignment and structure
>d2veaa1 d.110.2.1 (A:131-326) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Length = 196 Back     information, alignment and structure
>d3c2wa2 d.110.2.4 (A:310-494) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]} Length = 185 Back     information, alignment and structure
>d2k2na1 d.110.2.1 (A:31-200) Sensor protein CYB2465 {Synechococcus sp. [TaxId: 1131]} Length = 170 Back     information, alignment and structure
>d2veaa3 d.110.3.9 (A:4-130) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Length = 127 Back     information, alignment and structure
>d2o9ca2 d.110.3.9 (A:4-130) Bacteriophytochrome BphP {Deinococcus radiodurans [TaxId: 1299]} Length = 127 Back     information, alignment and structure
>d3c2wa3 d.110.3.9 (A:5-117) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]} Length = 113 Back     information, alignment and structure
>d2oola2 d.110.3.9 (A:26-139) Sensor protein PhyB2 {Rhodopseudomonas palustris [TaxId: 1076]} Length = 114 Back     information, alignment and structure
>d1mzua_ d.110.3.1 (A:) PYP domain of sensor histidine kinase Ppr {Rhodospirillum centenum [TaxId: 34018]} Length = 110 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query681
d2o9ca1187 Bacteriophytochrome BphP {Deinococcus radiodurans 100.0
d2veaa1196 Phytochrome-like protein Cph1 {Synechocystis sp. p 100.0
d2oola1194 Sensor protein PhyB2 {Rhodopseudomonas palustris [ 100.0
d3c2wa1192 Bacteriophytochrome BphP {Pseudomonas aeruginosa [ 100.0
d2veaa2188 Phytochrome-like protein Cph1 {Synechocystis sp. p 100.0
d3c2wa2185 Bacteriophytochrome BphP {Pseudomonas aeruginosa [ 100.0
d2k2na1170 Sensor protein CYB2465 {Synechococcus sp. [TaxId: 100.0
d2oola2114 Sensor protein PhyB2 {Rhodopseudomonas palustris [ 99.91
d2veaa3127 Phytochrome-like protein Cph1 {Synechocystis sp. p 99.91
d2o9ca2127 Bacteriophytochrome BphP {Deinococcus radiodurans 99.89
d3c2wa3113 Bacteriophytochrome BphP {Pseudomonas aeruginosa [ 99.89
d1ew0a_130 Histidine kinase FixL heme domain {Rhizobium melil 99.07
d1mzua_110 PYP domain of sensor histidine kinase Ppr {Rhodosp 98.88
d1v9ya_113 Direct oxygen sensor protein, DOS {Escherichia col 98.85
d1nwza_125 Photoactive yellow protein, PYP {Ectothiorhodospir 98.74
d1xj3a1106 Histidine kinase FixL heme domain {Bradyrhizobium 98.67
d1mc0a2154 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF 98.64
d1n9la_109 Putative blue light receptor, phot-lov1 domain {Gr 98.47
d1ll8a_114 N-terminal PAS domain of Pas kinase {Human (Homo s 98.44
d1p97a_114 Hypoxia-inducible factor Hif2a, C-terminal domain 98.37
d1jnua_104 Photoreceptor phy3 flavin-binding domain, lov2 {Ma 98.32
d1mc0a1187 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF 98.07
d1bywa_110 Erg potassium channel, N-terminal domain {Human (H 97.81
d1oj5a_109 PAS domain of steroid receptor coactivator 1A, NCo 97.68
d2oola2114 Sensor protein PhyB2 {Rhodopseudomonas palustris [ 97.18
d1vhma_159 Hypothetical protein YebR {Escherichia coli [TaxId 97.15
d1f5ma_176 Hypothetical protein ykl069wp {Baker's yeast (Sacc 95.22
d2veaa3127 Phytochrome-like protein Cph1 {Synechocystis sp. p 93.43
d1ll8a_114 N-terminal PAS domain of Pas kinase {Human (Homo s 92.16
d1mzua_110 PYP domain of sensor histidine kinase Ppr {Rhodosp 91.87
d2o9ca2127 Bacteriophytochrome BphP {Deinococcus radiodurans 91.06
d1nwza_125 Photoactive yellow protein, PYP {Ectothiorhodospir 87.65
d1n9la_109 Putative blue light receptor, phot-lov1 domain {Gr 84.75
>d2o9ca1 d.110.2.1 (A:135-321) Bacteriophytochrome BphP {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Profilin-like
superfamily: GAF domain-like
family: GAF domain
domain: Bacteriophytochrome BphP
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=1.9e-51  Score=404.25  Aligned_cols=179  Identities=39%  Similarity=0.661  Sum_probs=171.6

Q ss_pred             HHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhCCCEEEEEEecCCCCeEEEEeecCCCCCCcCCCcCCCCCchHHHHHH
Q 005722          199 KLAAKAISRLQSLPSGNISLLCDVLVNEVSDLTGYDRVMVYKFHEDEHGEVVAECRRPDLEPYLGFHYPATDIPQASRFL  278 (681)
Q Consensus       199 ~l~~~~i~rl~~~~~~~l~~l~~~~v~evr~ltg~DRVmiYrF~~D~~GeVVAEs~~~~l~s~LGlhfPasDIP~qaR~L  278 (681)
                      ++++.++.+|++  +.|+++||+++|+|||+++||||||||||++||+|+||||++.++++|+||++||++|||++++++
T Consensus         4 ~~l~~~~~~ir~--s~dl~~Il~tav~evr~~L~~DRV~IYrf~~d~~g~vvaEs~~~~~~S~lg~~~p~~~~~~~~~~~   81 (187)
T d2o9ca1           4 HALRNAMFALES--APNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARAL   81 (187)
T ss_dssp             HHHHHHHHHHHH--CCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCEEEEEEEECTTSCCCTTCEECGGGSCHHHHHH
T ss_pred             HHHHHHHHHHHh--CCCHHHHHHHHHHHHHHHhCCCEeEEEEECCCCCEEEEEEEECCCCCCCCCCccChHHHHHHHHHH
Confidence            466789999999  779999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCeEEeecCCCCCceeec--CCCCCCCcccccccccCCChHHHHHHHhcCCeeEEEEEEEecCccccccccccccCc
Q 005722          279 IMKNKVRMICDCLAPPVKVIQ--DKKLDQPLSLCGSTLRAPHGCHARYMENMGSIASLVMSVTINEAEDELDNDQEQGRK  356 (681)
Q Consensus       279 y~~n~vR~I~Dv~~~pv~lv~--~~~~~~pldLs~s~LRsvsp~H~qYL~NMGV~ASlsvsIiv~~~~~~~~~~~~~~~k  356 (681)
                      |.+|++|+|+|++.+++++.+  ++.++.++||+.++||++||||++||+||||+|+|++||+++             |+
T Consensus        82 ~~~~~~~~i~dv~~~~~~l~~~~~~~~~~~~dl~~~~l~~~s~~~~~~L~~~~vkA~L~vPI~~~-------------~~  148 (187)
T d2o9ca1          82 YTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVG-------------GQ  148 (187)
T ss_dssp             HHHSCEEEESCTTCCCEEEESSEETTTTEECCCTTCTTBCCCHHHHHHHHHTTCSEEEEEEEEET-------------TE
T ss_pred             HHcCCeEEEeecccCccccccccccccCCCcccccchhccccHHHHHHHHhcCCCeEEEEEEEEC-------------Ce
Confidence            999999999999999999875  577789999999999999999999999999999999999998             89


Q ss_pred             eeEEEEeecCCCCCCChhHHHHHHHHHHHHHHHHHH
Q 005722          357 LWGLVVCHHTSPRFVPFPLRYACEFLIQVFGVQVNK  392 (681)
Q Consensus       357 LWGLi~cHh~spr~v~~~~R~a~e~l~q~~s~ql~~  392 (681)
                      |||||+||||+||+|++++|.+||+|+|++|.+|+.
T Consensus       149 LWGLL~~H~~~pr~~~~~~r~~~e~l~~~ls~~l~~  184 (187)
T d2o9ca1         149 LWGLIACHHQTPYVLPPDLRTTLESLGRLLSLQVQV  184 (187)
T ss_dssp             EEEEEEEEESSCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999988853
>d2veaa1 d.110.2.1 (A:131-326) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Back     information, alignment and structure
>d2oola1 d.110.2.1 (A:140-333) Sensor protein PhyB2 {Rhodopseudomonas palustris [TaxId: 1076]} Back     information, alignment and structure
>d3c2wa1 d.110.2.1 (A:118-309) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2veaa2 d.110.2.4 (A:327-514) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Back     information, alignment and structure
>d3c2wa2 d.110.2.4 (A:310-494) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d2k2na1 d.110.2.1 (A:31-200) Sensor protein CYB2465 {Synechococcus sp. [TaxId: 1131]} Back     information, alignment and structure
>d2oola2 d.110.3.9 (A:26-139) Sensor protein PhyB2 {Rhodopseudomonas palustris [TaxId: 1076]} Back     information, alignment and structure
>d2veaa3 d.110.3.9 (A:4-130) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Back     information, alignment and structure
>d2o9ca2 d.110.3.9 (A:4-130) Bacteriophytochrome BphP {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d3c2wa3 d.110.3.9 (A:5-117) Bacteriophytochrome BphP {Pseudomonas aeruginosa [TaxId: 287]} Back     information, alignment and structure
>d1ew0a_ d.110.3.2 (A:) Histidine kinase FixL heme domain {Rhizobium meliloti [TaxId: 382]} Back     information, alignment and structure
>d1mzua_ d.110.3.1 (A:) PYP domain of sensor histidine kinase Ppr {Rhodospirillum centenum [TaxId: 34018]} Back     information, alignment and structure
>d1v9ya_ d.110.3.2 (A:) Direct oxygen sensor protein, DOS {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1nwza_ d.110.3.1 (A:) Photoactive yellow protein, PYP {Ectothiorhodospira halophila [TaxId: 1053]} Back     information, alignment and structure
>d1xj3a1 d.110.3.2 (A:154-259) Histidine kinase FixL heme domain {Bradyrhizobium japonicum [TaxId: 375]} Back     information, alignment and structure
>d1mc0a2 d.110.2.1 (A:402-555) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1n9la_ d.110.3.6 (A:) Putative blue light receptor, phot-lov1 domain {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Back     information, alignment and structure
>d1ll8a_ d.110.3.5 (A:) N-terminal PAS domain of Pas kinase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1p97a_ d.110.3.7 (A:) Hypoxia-inducible factor Hif2a, C-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1jnua_ d.110.3.6 (A:) Photoreceptor phy3 flavin-binding domain, lov2 {Maidenhair fern (Adiantum capillus-veneris) [TaxId: 13818]} Back     information, alignment and structure
>d1mc0a1 d.110.2.1 (A:215-401) 3',5'-cyclic nucleotide phosphodiesterase 2A, GAF A and GAF B domains {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d1bywa_ d.110.3.6 (A:) Erg potassium channel, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1oj5a_ d.110.3.8 (A:) PAS domain of steroid receptor coactivator 1A, NCo-A1 {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2oola2 d.110.3.9 (A:26-139) Sensor protein PhyB2 {Rhodopseudomonas palustris [TaxId: 1076]} Back     information, alignment and structure
>d1vhma_ d.110.2.1 (A:) Hypothetical protein YebR {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1f5ma_ d.110.2.1 (A:) Hypothetical protein ykl069wp {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2veaa3 d.110.3.9 (A:4-130) Phytochrome-like protein Cph1 {Synechocystis sp. pcc 6803 [TaxId: 1148]} Back     information, alignment and structure
>d1ll8a_ d.110.3.5 (A:) N-terminal PAS domain of Pas kinase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1mzua_ d.110.3.1 (A:) PYP domain of sensor histidine kinase Ppr {Rhodospirillum centenum [TaxId: 34018]} Back     information, alignment and structure
>d2o9ca2 d.110.3.9 (A:4-130) Bacteriophytochrome BphP {Deinococcus radiodurans [TaxId: 1299]} Back     information, alignment and structure
>d1nwza_ d.110.3.1 (A:) Photoactive yellow protein, PYP {Ectothiorhodospira halophila [TaxId: 1053]} Back     information, alignment and structure
>d1n9la_ d.110.3.6 (A:) Putative blue light receptor, phot-lov1 domain {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Back     information, alignment and structure