Citrus Sinensis ID: 001223

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-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPLPYAAAPYVPPVPSYQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYASNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPAAGSFNQWGGANQSMPRGYGQGQHHQRRDGGYQQYHDQQRNYSHLQGNHQQRGNQGQHQPRGNQGQYVRDNQHRGNYGHHQQNNQQRNNQFTALDRRPKRPPPGGDGH
ccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEccccccccHHHHHHHHHHHHHccccccccccEEEEEccHHHHHHHHHcccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccEEEHHHHHHHHHHHHcccccccccccHHHHHHHHHEEHHcccccccccccccccccHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHccccccccccccccccccccccccccHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccHHHccccccccHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHccccccccccccccccHHHHHHHcccccccccccHHHHHHHcccccccccccccccEEcccccccEEEEEEccccccHHHHHHHHHHHHccccHHHHHHccccccEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccHHHHHHHHHHHcccEEEEcHcccccccccEEEEcccccccccccEEccEEEcccccEccccccccccccccHHHHHHHHHHHHHHHHHHccccHEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccEEEEEccccccccHHHHHHHHHHHHccccccccccEEEEcccHHHHHHHHHccccccEEEEHHHccccccccccccccccccHHHcccccccccccccccccccccccccEEEEEHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHcHHcccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccHHHEEccccccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHccccccEEEcccccccHHHHHHHHccHHHcccccHHHHHHcccccccEEEccccccEEccccccccEEEEEEcccccHHHHHHHHHHHcccccHHHHHHccccccEEEEEcccccccccccHHcHccccccccccccEEEccccccccccEEEEcccccccccccccccccccccccccEEEEEEEcccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
MGVPAFYRWLAEKYPlvvadvieeepvvidgvkipvdtskpnpngleydnlyldmngiihpcfhpedrpapttfDEVFQCMFDYIDRLFVMVRPRKLLYMAIDgvaprakmnqQRSRRFRASKDAADSAAEEERLRQEFERegrklppksdsqvfdsnvitpgtEFMAVLSIALQYYIHLRLNNDPGWEKIKVILsdanvpgegehKIMSYVRLQrnlpgydpntrhclyGLDADLIMLALATHEVHFSILREvvftpgqqdkcflcgqpghlaancegkakrkagefdekgdevvvpkkpyqfLHIWTLREYLdyefripnppfeidlecIVDDFIFMCFfvgndflphmptleIREGAINLLMAVYKKEFRALggyltdgskpslRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKaqarrgddveplaqpdslvpvsrfhgsrlasgpspspyqqsecvgrldngkgtsgrphkvprlssgaTIGAAIVEaensfetdpqeNKEEFKAKLKELLRDKsdafnsdnpeedkvklgepgwkeryyeekfnaktpeereeTRKDVVLRYTEGLCWVMHYYYEGvcswqwfypyhyapfasdlkdldqfnisfelghpfkpfnqllgvfpsasshalpehyrklmtdpnspisdfyptdfevdmngkryswqgiaklpfideARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLShplsasiyTLDEHCKQLKIKERVEVKErlnpelsdgmngyispcagdphppvfrspvasmediMGNQVLCAIyklpdahkhvtrppagvifpkkivqledlkpapvlwhedsgrrphengrhnphgtisgrQLGEAAHRLVANSLQHMkvdrngygdrmhgsplpyaaapyvppvpsyqeygvydqgynrfsqprtdsypaghsqssisaaqppydggysqhyasntshhpnrryhpqydrnssgehpthlynpsgihqnggprypprpmgstssganlyppqggysgyqspaagsfnqwgganqsmprgygqgqhhqrrdggyqqyhdqqrnyshlqgnhqqrgnqgqhqprgnqgqyvrdnqhrgnyghhqqnnqqrnnqftaldrrpkrpppggdgh
MGVPAFYRWLAEKYPLVVADVIEeepvvidgvkipvdtskpnpNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIdgvaprakmnqqrsrrfraskdaadsaaEEERLRQEferegrklppksdsqvfdSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSdanvpgegEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEfdekgdevvvpkkpyQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGyltdgskpslrRVEHFIQAVGSYEDRIFQKRARLHQRhaerikrekaqarrgddveplaqpdslvPVSRFHGSrlasgpspspyqqsECVGRLDngkgtsgrphkvprlssGATIGAAIVEAensfetdpqenKEEFKAKLKELLRDksdafnsdnpeedkvklgepgwkeryyeekfnaktpeereetrkdVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPLPYAAAPYVPPVPSYQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYASNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPAAGSFNQWGGANQSMPRGYGQGQHHQRRDGGYQQYHDQQRNYSHLQGNHQQRgnqgqhqprgNQGQYVRDNQHRGNyghhqqnnqqrnnqftaldrrpkrpppggdgh
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQrsrrfraskdaadsaaeeerlrqeferegrKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQenkeefkaklkellRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGsplpyaaapyvppvpsyQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYASNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPAAGSFNQWGGANQSMPrgygqgqhhqrrdggyqqYHDQQRNYSHLqgnhqqrgnqgqhqprgnqgqYVRDnqhrgnyghhqqnnqqrnnqFTALdrrpkrpppggdgH
***PAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVA*************************************************DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCE**************DEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQK*****************************************************************************************************************************************************************DVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSA********Y**********ISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEV*************GYISPC********FR*PVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLW*******************************************************LPYAAAPYVPPVPSYQEYGVYDQGYN*******************************************************************************************************************************************************************************************************************
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR*********************************VFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQD****************************KGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLH****************************LVPVSRFHGSRLAS*******************************************************************************PEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPP**************************************************************************************************************************************************************************************************************************************************************************************************************************
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPR********************************************QVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEG**************EVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAE***************EPLAQPDSLVPVSRFHG**************SECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENS*********EEFKAKLKELLRDKSDAF***********LGEPGWKERYYEEKFNA**********KDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPLPYAAAPYVPPVPSYQEYGVYDQGYNRFSQPRT************SAAQPPYDGGYSQHYASNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPAAGSFNQWGGANQSM******************QYHDQQRNYSHL*********************YVRDNQHRGNYGHHQQNNQQRNNQFTALDRR***********
*GVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCE****************VVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKRE*****************************************SE**G******GTSGRPH**************************************************DNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRR***NGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPLPYAAAPYVPPVPSYQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYASNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPAAGSFNQWGGANQSMPRGYGQGQHHQRRDGGYQQYHDQQRN***************QH****NQGQYV****************************************
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MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAxxxxxxxxxxxxxxxxxxxxxGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDxxxxxxxxxxxxxxxxxxxxxRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPLPYAAAPYVPPVPSYQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYASNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGYSGYQSPAAGSFNQWGGANQSMPRGYGQGQHHQRRDGGYQQYHDQQRNYSHLQGNHQQRGNQGQHQPRGNQGQYVRDNQHRGNYGHHQQNNQQRNNQFTALDRRPKRPPPGGDGH
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 ?
Query1120 2.2.26 [Sep-21-2011]
Q9FQ031020 5'-3' exoribonuclease 3 O yes no 0.884 0.971 0.667 0.0
Q9FQ021012 5'-3' exoribonuclease 2 O no no 0.751 0.832 0.631 0.0
Q9H0D6950 5'-3' exoribonuclease 2 O yes no 0.684 0.807 0.473 0.0
Q5R4L5950 5'-3' exoribonuclease 2 O yes no 0.683 0.806 0.471 0.0
Q9DBR1951 5'-3' exoribonuclease 2 O yes no 0.684 0.806 0.471 0.0
Q5ZIP4949 5'-3' exoribonuclease 2 O yes no 0.755 0.891 0.442 0.0
Q2GNZ61039 5'-3' exoribonuclease 2 O N/A no 0.713 0.769 0.435 0.0
Q60SG7976 5'-3' exoribonuclease 2 h N/A no 0.724 0.830 0.448 0.0
Q5BFH31032 5'-3' exoribonuclease 2 O yes no 0.702 0.762 0.429 0.0
Q4HWE2980 5'-3' exoribonuclease 2 O yes no 0.716 0.819 0.436 0.0
>sp|Q9FQ03|XRN3_ARATH 5'-3' exoribonuclease 3 OS=Arabidopsis thaliana GN=XRN3 PE=2 SV=1 Back     alignment and function desciption
 Score = 1352 bits (3498), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 723/1083 (66%), Positives = 820/1083 (75%), Gaps = 92/1083 (8%)

Query: 1    MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIH 60
            MGVP+FYRWLAEKYPL+VADVIEEEPV I+G+KIPVDTSKPNPN LEYDNLYLDMNGIIH
Sbjct: 1    MGVPSFYRWLAEKYPLLVADVIEEEPVEIEGIKIPVDTSKPNPNNLEYDNLYLDMNGIIH 60

Query: 61   PCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120
            PCFHPEDRP+PTTF+EVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR
Sbjct: 61   PCFHPEDRPSPTTFEEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120

Query: 121  ASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHL 180
            ++KDA+D+AAEEERLR+EFEREGR+LPPK DSQVFDSNVITPGTEFM VLSIALQYY+HL
Sbjct: 121  SAKDASDAAAEEERLREEFEREGRRLPPKVDSQVFDSNVITPGTEFMGVLSIALQYYVHL 180

Query: 181  RLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA 240
            RLN+D GW+ IKVILSDANVPGEGEHKIMSY+RLQRNLPG+DPNTRHCLYGLDADLIML 
Sbjct: 181  RLNHDVGWKNIKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLG 240

Query: 241  LATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKK 300
            LATHEVHFSILREVV+TPGQQ++CFLCGQ GH A+NCEGK K++AGE DEKGD     KK
Sbjct: 241  LATHEVHFSILREVVYTPGQQERCFLCGQMGHFASNCEGKPKKRAGESDEKGDGNDFVKK 300

Query: 301  PYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGA 360
            PYQFLHIW LREYL+ E RIPNPPFEIDLE IVDDFIF+CFFVGNDFLPHMPTLEIREGA
Sbjct: 301  PYQFLHIWVLREYLELEMRIPNPPFEIDLERIVDDFIFICFFVGNDFLPHMPTLEIREGA 360

Query: 361  INLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIK 420
            INLLMAVYKKEFR+  GYLTDG KP+L+RVE FIQAVGS+ED+IFQKRA  HQR AER+K
Sbjct: 361  INLLMAVYKKEFRSFDGYLTDGCKPNLKRVEQFIQAVGSFEDKIFQKRAMQHQRQAERVK 420

Query: 421  REKA--QARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSG 478
            R+KA    +R DD  P  QPD LVPV+RF GSRLAS P+PSP+Q ++         G S 
Sbjct: 421  RDKAGKATKRMDDEAPTVQPD-LVPVARFSGSRLASAPTPSPFQSND---------GRSA 470

Query: 479  RPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDK 538
               KV RLS G+++GAAIV+ ENS E+D +ENKEE K KLKEL+R+KSDAFNSD  EEDK
Sbjct: 471  PHQKVRRLSPGSSVGAAIVDVENSLESDERENKEELKTKLKELIREKSDAFNSDTTEEDK 530

Query: 539  VKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPY 598
            VKLG+PGW+ERYYEEKF+  TPEE E  RKDVVL+YTEGLCWVMHYY EGVCSWQWFYPY
Sbjct: 531  VKLGQPGWRERYYEEKFSVVTPEEMERVRKDVVLKYTEGLCWVMHYYMEGVCSWQWFYPY 590

Query: 599  HYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISD 658
            HYAPFASDLKDL + +I FELG PFKPFNQLLGVFP+ASSHALPE YR LMTDPNSPI D
Sbjct: 591  HYAPFASDLKDLGEMDIKFELGTPFKPFNQLLGVFPAASSHALPERYRTLMTDPNSPIID 650

Query: 659  FYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVL 718
            FYPTDFEVDMNGKR+SWQGIAKLPFIDE RLL+ V ++E TLT+EE RRNS M DMLF+ 
Sbjct: 651  FYPTDFEVDMNGKRFSWQGIAKLPFIDERRLLEAVSEVEFTLTDEEKRRNSRMCDMLFIA 710

Query: 719  LSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVA 778
             SH L+  +++LD HC+QL  +ERV+ K ++ P+LSDGMNGY++PC+G+ HPPVFRSP+ 
Sbjct: 711  TSHRLAELVFSLDNHCRQLSARERVDFKVKIKPKLSDGMNGYLTPCSGETHPPVFRSPME 770

Query: 779  SMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRP-- 836
             MEDI+ NQV+C IY+LPDAH+H+TRPP GVIFPKK V + DLKP P LWHED+GRRP  
Sbjct: 771  GMEDILTNQVICCIYRLPDAHEHITRPPPGVIFPKKTVDIGDLKPPPALWHEDNGRRPMH 830

Query: 837  ------------HENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPL 884
                        +  GR NP G++SGR LG AAHRLV+NSLQ M  DR      +     
Sbjct: 831  NNHGMHNNHGMHNNQGRQNPPGSVSGRHLGNAAHRLVSNSLQ-MGTDRYQTPTDVPAPGY 889

Query: 885  PYAAAPYVPPVPSYQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYA 944
             Y    YVPP+P YQ  G                              PP   GY+Q   
Sbjct: 890  GYNPPQYVPPIP-YQHGGY---------------------------MAPPGAQGYAQ--- 918

Query: 945  SNTSHHPNRRYHPQYDRNSSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQG 1004
                        P   +N  G  P     PSG       R+P  P  S S         G
Sbjct: 919  ------------PAPYQNRGGYQPR---GPSG-------RFPSEPYQSQSREGQHASRGG 956

Query: 1005 GYS--GYQSPAAGSFNQWGGANQSMPRGYGQGQHHQRRDG---------GYQQYHDQQRN 1053
            GYS           ++  GG+ Q+ PRGY  GQHH ++ G         G   +HDQ  N
Sbjct: 957  GYSGNHQNQHQQQQWHGQGGSEQNNPRGY-NGQHHHQQGGDHDRRGRGRGSHHHHDQGGN 1015

Query: 1054 YSH 1056
              H
Sbjct: 1016 PRH 1018
Possesses 5'->3' exoribonuclease activity. Acts as an endogenous post-transcriptional gene silencing (PTGS) suppressor. Degrades MIRNA-derived loops excised during miRNA maturation in the nucleus. Required for proper development.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 1EC: 3EC: .EC: -
>sp|Q9FQ02|XRN2_ARATH 5'-3' exoribonuclease 2 OS=Arabidopsis thaliana GN=XRN2 PE=2 SV=1 Back     alignment and function description
>sp|Q9H0D6|XRN2_HUMAN 5'-3' exoribonuclease 2 OS=Homo sapiens GN=XRN2 PE=1 SV=1 Back     alignment and function description
>sp|Q5R4L5|XRN2_PONAB 5'-3' exoribonuclease 2 OS=Pongo abelii GN=XRN2 PE=2 SV=1 Back     alignment and function description
>sp|Q9DBR1|XRN2_MOUSE 5'-3' exoribonuclease 2 OS=Mus musculus GN=Xrn2 PE=1 SV=1 Back     alignment and function description
>sp|Q5ZIP4|XRN2_CHICK 5'-3' exoribonuclease 2 OS=Gallus gallus GN=XRN2 PE=2 SV=1 Back     alignment and function description
>sp|Q2GNZ6|XRN2_CHAGB 5'-3' exoribonuclease 2 OS=Chaetomium globosum (strain ATCC 6205 / CBS 148.51 / DSM 1962 / NBRC 6347 / NRRL 1970) GN=RAT1 PE=3 SV=3 Back     alignment and function description
>sp|Q60SG7|XRN2_CAEBR 5'-3' exoribonuclease 2 homolog OS=Caenorhabditis briggsae GN=xrn-2 PE=3 SV=2 Back     alignment and function description
>sp|Q5BFH3|XRN2_EMENI 5'-3' exoribonuclease 2 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) GN=rat1 PE=3 SV=3 Back     alignment and function description
>sp|Q4HWE2|XRN2_GIBZE 5'-3' exoribonuclease 2 OS=Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084) GN=RAT1 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 ?
Query1120
2555388981113 5'->3' exoribonuclease, putative [Ricinu 0.920 0.926 0.756 0.0
3594922191065 PREDICTED: 5'-3' exoribonuclease 3-like 0.935 0.984 0.723 0.0
224082986998 predicted protein [Populus trichocarpa] 0.868 0.974 0.784 0.0
302142638870 unnamed protein product [Vitis vinifera] 0.771 0.993 0.837 0.0
4494520661101 PREDICTED: 5'-3' exoribonuclease 3-like 0.916 0.931 0.709 0.0
3565623991065 PREDICTED: 5'-3' exoribonuclease 3-like 0.893 0.939 0.687 0.0
3565533931075 PREDICTED: 5'-3' exoribonuclease 3-like 0.935 0.974 0.672 0.0
2420569111066 hypothetical protein SORBIDRAFT_03g01004 0.882 0.926 0.717 0.0
224065931851 predicted protein [Populus trichocarpa] 0.739 0.972 0.816 0.0
4148768831066 TPA: hypothetical protein ZEAMMB73_40276 0.882 0.926 0.710 0.0
>gi|255538898|ref|XP_002510514.1| 5'->3' exoribonuclease, putative [Ricinus communis] gi|223551215|gb|EEF52701.1| 5'->3' exoribonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
 Score = 1594 bits (4127), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 803/1062 (75%), Positives = 880/1062 (82%), Gaps = 31/1062 (2%)

Query: 1    MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIH 60
            MGVPAFYRWLAEKYPLVV D IEEEPVVIDGVKIPVD S+PNPN +EYDNLYLDMNGIIH
Sbjct: 1    MGVPAFYRWLAEKYPLVVVDAIEEEPVVIDGVKIPVDASRPNPNNIEYDNLYLDMNGIIH 60

Query: 61   PCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120
            PCFHPEDRP+PT+F+EVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR
Sbjct: 61   PCFHPEDRPSPTSFEEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120

Query: 121  ASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHL 180
            A+KD  ++AAEEERLRQEFEREGRKLPPK  SQVFDSN+ITPGTEFMAVLSIALQYYIHL
Sbjct: 121  AAKDREEAAAEEERLRQEFEREGRKLPPKESSQVFDSNIITPGTEFMAVLSIALQYYIHL 180

Query: 181  RLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA 240
            RLNNDPGW+K+KVILSDANVPGEGEHK+MSY+RLQRNLPGYDPNTRHCLYGLDADLIMLA
Sbjct: 181  RLNNDPGWKKVKVILSDANVPGEGEHKVMSYIRLQRNLPGYDPNTRHCLYGLDADLIMLA 240

Query: 241  LATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKK 300
            LATHE+HFSILRE+VFTPGQQDKCFLCGQ GHLAA+CEGKAKRKAGEFDEKGDE  V KK
Sbjct: 241  LATHEIHFSILREIVFTPGQQDKCFLCGQMGHLAADCEGKAKRKAGEFDEKGDEGAVAKK 300

Query: 301  PYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGA 360
            PYQFL+IWTLREYL+ E RIPNPPF+ID ECIVDDFIFMCFFVGNDFLPHMPTLEIREGA
Sbjct: 301  PYQFLNIWTLREYLELEMRIPNPPFKIDFECIVDDFIFMCFFVGNDFLPHMPTLEIREGA 360

Query: 361  INLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIK 420
            INLL+AVYKKEF A+GGYLTDG KP+L +VEHFIQAVGSYED+IFQKRARLHQR +ERIK
Sbjct: 361  INLLLAVYKKEFTAMGGYLTDGCKPNLSKVEHFIQAVGSYEDKIFQKRARLHQRQSERIK 420

Query: 421  REKAQ--ARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLD------- 471
            REKAQ  +RRGDD +P  QP+SLVPV+RFHGSRLAS PSPSP+Q S     LD       
Sbjct: 421  REKAQSRSRRGDDAQPQVQPESLVPVARFHGSRLASAPSPSPFQHSLEAADLDVRSAHFS 480

Query: 472  --NGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAF 529
              +GKG+S + HKV RLSS A++GAAIVEAENS E +  ENK+E KAKLKE+LR+KSDAF
Sbjct: 481  ALDGKGSSVQAHKVARLSSSASVGAAIVEAENSLEIEVHENKDELKAKLKEILREKSDAF 540

Query: 530  NSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGV 589
            NS NPEEDK++LG+PGWKERYYEEKF+ KTPEE E+ R+DVVLRYTEGLCWVMHYYYEGV
Sbjct: 541  NSKNPEEDKIRLGDPGWKERYYEEKFSGKTPEELEDIRRDVVLRYTEGLCWVMHYYYEGV 600

Query: 590  CSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLM 649
            CSWQWFYPYHYAPFASDLK L Q +I FELG PFKPFNQLLGVFP+ASSHALP HYRKLM
Sbjct: 601  CSWQWFYPYHYAPFASDLKHLGQLDIKFELGSPFKPFNQLLGVFPAASSHALPVHYRKLM 660

Query: 650  TDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNS 709
            +DPNSPI DFYPTDFEVDMNGKRY+WQGIAKLPFIDE RLL EVKKIEHTLTEEEARRNS
Sbjct: 661  SDPNSPIIDFYPTDFEVDMNGKRYAWQGIAKLPFIDEVRLLAEVKKIEHTLTEEEARRNS 720

Query: 710  IMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPH 769
             M DMLFVL SH L+ SIY LD +CKQL  +ERVEVKER+NPELSDGMNGYISPC+GD H
Sbjct: 721  AMFDMLFVLSSHSLAESIYLLDNNCKQLTDRERVEVKERINPELSDGMNGYISPCSGDTH 780

Query: 770  PPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWH 829
            PP+FRSPVA MEDI+ N V+CAIY+LPD HKHVTRPPAGVIFPKKIV + DLKP PVLWH
Sbjct: 781  PPIFRSPVAGMEDILDNGVICAIYRLPDPHKHVTRPPAGVIFPKKIVNVVDLKPDPVLWH 840

Query: 830  EDSGRRPHENGRHNPHGTISGRQLGEAAHRLVANSLQHMKVDRNGYGDRMHGSPLPYAAA 889
            EDSGR+P E+ R NP GTISGRQLGEA+HRLV NSLQ MKVD NGY + +H    PYAA 
Sbjct: 841  EDSGRKPWESDRRNPPGTISGRQLGEASHRLVVNSLQ-MKVDHNGYANHLHAPIPPYAAT 899

Query: 890  PYVPPVPSYQEYGVYDQGYNRFSQPRTDSYPAGHSQSSISAAQPPYDGGYSQHYAS-NTS 948
             +VP   SY   G +D   +R  QPR D   AG ++   +  Q   + GY Q YAS   +
Sbjct: 900  AHVPVHSSYAN-GSHDPRRDRTGQPRMDYSHAGQNR-FFNPTQYNNNHGYGQSYASPGNA 957

Query: 949  HHPNRRYHPQYDRN--SSGEHPTHLYNPSGIHQNGGPRYPPRPMGSTSSGANLYPPQGGY 1006
            H    R  PQY+R   S+G+H   +Y     HQN GPRY    M  TS     Y  Q  Y
Sbjct: 958  HFSGSR--PQYERENRSNGQHSRQVYLQPEFHQN-GPRYLHGSMAGTSES---YAYQDDY 1011

Query: 1007 SGYQS---PAAGSFNQWGG-----ANQSMPRGYGQGQHHQRR 1040
             GYQS   P   S  QWG       N + PRGY Q Q    R
Sbjct: 1012 DGYQSHQPPRDASHQQWGNGLPPPVNLNFPRGYDQSQQRGNR 1053

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359492219|ref|XP_002280236.2| PREDICTED: 5'-3' exoribonuclease 3-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|224082986|ref|XP_002306919.1| predicted protein [Populus trichocarpa] gi|222856368|gb|EEE93915.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|302142638|emb|CBI19841.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|449452066|ref|XP_004143781.1| PREDICTED: 5'-3' exoribonuclease 3-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356562399|ref|XP_003549459.1| PREDICTED: 5'-3' exoribonuclease 3-like [Glycine max] Back     alignment and taxonomy information
>gi|356553393|ref|XP_003545041.1| PREDICTED: 5'-3' exoribonuclease 3-like [Glycine max] Back     alignment and taxonomy information
>gi|242056911|ref|XP_002457601.1| hypothetical protein SORBIDRAFT_03g010040 [Sorghum bicolor] gi|241929576|gb|EES02721.1| hypothetical protein SORBIDRAFT_03g010040 [Sorghum bicolor] Back     alignment and taxonomy information
>gi|224065931|ref|XP_002301985.1| predicted protein [Populus trichocarpa] gi|222843711|gb|EEE81258.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|414876883|tpg|DAA54014.1| TPA: hypothetical protein ZEAMMB73_402768 [Zea mays] 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 ?
Query1120
TAIR|locus:20056141020 XRN3 "5'-3' exoribonuclease 3" 0.767 0.843 0.723 0.0
TAIR|locus:2020073947 XRN4 "exoribonuclease 4" [Arab 0.381 0.450 0.631 3.1e-251
UNIPROTKB|F1MKX7951 XRN2 "Uncharacterized protein" 0.423 0.498 0.497 3.7e-189
MGI|MGI:894687951 Xrn2 "5'-3' exoribonuclease 2" 0.444 0.523 0.484 4.7e-187
UNIPROTKB|Q5ZIP4949 XRN2 "5'-3' exoribonuclease 2" 0.400 0.473 0.504 2.6e-186
UNIPROTKB|Q9H0D6950 XRN2 "5'-3' exoribonuclease 2" 0.444 0.524 0.486 8.5e-186
UNIPROTKB|E2RMS9950 XRN2 "Uncharacterized protein" 0.444 0.524 0.490 1.1e-185
ZFIN|ZDB-GENE-040426-2874952 xrn2 "5'-3' exoribonuclease 2" 0.380 0.447 0.535 1.4e-185
UNIPROTKB|Q5R4L5950 XRN2 "5'-3' exoribonuclease 2" 0.469 0.553 0.468 2.3e-185
UNIPROTKB|F1SAU5950 XRN2 "Uncharacterized protein" 0.443 0.523 0.489 2.9e-185
TAIR|locus:2005614 XRN3 "5'-3' exoribonuclease 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 3420 (1209.0 bits), Expect = 0., Sum P(2) = 0.
 Identities = 643/889 (72%), Positives = 721/889 (81%)

Query:     1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIH 60
             MGVP+FYRWLAEKYPL+VADVIEEEPV I+G+KIPVDTSKPNPN LEYDNLYLDMNGIIH
Sbjct:     1 MGVPSFYRWLAEKYPLLVADVIEEEPVEIEGIKIPVDTSKPNPNNLEYDNLYLDMNGIIH 60

Query:    61 PCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQXXXXXX 120
             PCFHPEDRP+PTTF+EVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQ      
Sbjct:    61 PCFHPEDRPSPTTFEEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120

Query:   121 XXXXXXXXXXXXXXXXXXXXXXXXKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHL 180
                                     +LPPK DSQVFDSNVITPGTEFM VLSIALQYY+HL
Sbjct:   121 SAKDASDAAAEEERLREEFEREGRRLPPKVDSQVFDSNVITPGTEFMGVLSIALQYYVHL 180

Query:   181 RLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA 240
             RLN+D GW+ IKVILSDANVPGEGEHKIMSY+RLQRNLPG+DPNTRHCLYGLDADLIML 
Sbjct:   181 RLNHDVGWKNIKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLG 240

Query:   241 LATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKK 300
             LATHEVHFSILREVV+TPGQQ++CFLCGQ GH A+NCEGK K++AGE DEKGD     KK
Sbjct:   241 LATHEVHFSILREVVYTPGQQERCFLCGQMGHFASNCEGKPKKRAGESDEKGDGNDFVKK 300

Query:   301 PYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGA 360
             PYQFLHIW LREYL+ E RIPNPPFEIDLE IVDDFIF+CFFVGNDFLPHMPTLEIREGA
Sbjct:   301 PYQFLHIWVLREYLELEMRIPNPPFEIDLERIVDDFIFICFFVGNDFLPHMPTLEIREGA 360

Query:   361 INLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIK 420
             INLLMAVYKKEFR+  GYLTDG KP+L+RVE FIQAVGS+ED+IFQKRA  HQR AER+K
Sbjct:   361 INLLMAVYKKEFRSFDGYLTDGCKPNLKRVEQFIQAVGSFEDKIFQKRAMQHQRQAERVK 420

Query:   421 REKA--QARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSG 478
             R+KA    +R DD  P  QPD LVPV+RF GSRLAS P+PSP+Q ++  GR         
Sbjct:   421 RDKAGKATKRMDDEAPTVQPD-LVPVARFSGSRLASAPTPSPFQSND--GR--------S 469

Query:   479 RPH-KVPRLSSGATIGAAIVEAENSFETDPQXXXXXXXXXXXXXXRDKSDAFNSDNPEED 537
              PH KV RLS G+++GAAIV+ ENS E+D +              R+KSDAFNSD  EED
Sbjct:   470 APHQKVRRLSPGSSVGAAIVDVENSLESDERENKEELKTKLKELIREKSDAFNSDTTEED 529

Query:   538 KVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYP 597
             KVKLG+PGW+ERYYEEKF+  TPEE E  RKDVVL+YTEGLCWVMHYY EGVCSWQWFYP
Sbjct:   530 KVKLGQPGWRERYYEEKFSVVTPEEMERVRKDVVLKYTEGLCWVMHYYMEGVCSWQWFYP 589

Query:   598 YHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPIS 657
             YHYAPFASDLKDL + +I FELG PFKPFNQLLGVFP+ASSHALPE YR LMTDPNSPI 
Sbjct:   590 YHYAPFASDLKDLGEMDIKFELGTPFKPFNQLLGVFPAASSHALPERYRTLMTDPNSPII 649

Query:   658 DFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFV 717
             DFYPTDFEVDMNGKR+SWQGIAKLPFIDE RLL+ V ++E TLT+EE RRNS M DMLF+
Sbjct:   650 DFYPTDFEVDMNGKRFSWQGIAKLPFIDERRLLEAVSEVEFTLTDEEKRRNSRMCDMLFI 709

Query:   718 LLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPV 777
               SH L+  +++LD HC+QL  +ERV+ K ++ P+LSDGMNGY++PC+G+ HPPVFRSP+
Sbjct:   710 ATSHRLAELVFSLDNHCRQLSARERVDFKVKIKPKLSDGMNGYLTPCSGETHPPVFRSPM 769

Query:   778 ASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRP- 836
               MEDI+ NQV+C IY+LPDAH+H+TRPP GVIFPKK V + DLKP P LWHED+GRRP 
Sbjct:   770 EGMEDILTNQVICCIYRLPDAHEHITRPPPGVIFPKKTVDIGDLKPPPALWHEDNGRRPM 829

Query:   837 HEN-------------GRHNPHGTISGRQLGEAAHRLVANSLQHMKVDR 872
             H N             GR NP G++SGR LG AAHRLV+NSLQ M  DR
Sbjct:   830 HNNHGMHNNHGMHNNQGRQNPPGSVSGRHLGNAAHRLVSNSLQ-MGTDR 877
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0004527 "exonuclease activity" evidence=IEA
GO:0004534 "5'-3' exoribonuclease activity" evidence=IEA;IGI;ISS
GO:0005634 "nucleus" evidence=ISM;IDA
GO:0006139 "nucleobase-containing compound metabolic process" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0010587 "miRNA catabolic process" evidence=IMP
GO:0006310 "DNA recombination" evidence=RCA
GO:0006635 "fatty acid beta-oxidation" evidence=RCA
GO:0007062 "sister chromatid cohesion" evidence=RCA
GO:0007126 "meiosis" evidence=RCA
GO:0007131 "reciprocal meiotic recombination" evidence=RCA
GO:0009887 "organ morphogenesis" evidence=RCA
GO:0009888 "tissue development" evidence=RCA
GO:0010332 "response to gamma radiation" evidence=RCA
GO:0010638 "positive regulation of organelle organization" evidence=RCA
GO:0016558 "protein import into peroxisome matrix" evidence=RCA
GO:0031048 "chromatin silencing by small RNA" evidence=RCA
GO:0032204 "regulation of telomere maintenance" evidence=RCA
GO:0033044 "regulation of chromosome organization" evidence=RCA
GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA
GO:0043247 "telomere maintenance in response to DNA damage" evidence=RCA
GO:0045132 "meiotic chromosome segregation" evidence=RCA
TAIR|locus:2020073 XRN4 "exoribonuclease 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
UNIPROTKB|F1MKX7 XRN2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
MGI|MGI:894687 Xrn2 "5'-3' exoribonuclease 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|Q5ZIP4 XRN2 "5'-3' exoribonuclease 2" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q9H0D6 XRN2 "5'-3' exoribonuclease 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2RMS9 XRN2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-2874 xrn2 "5'-3' exoribonuclease 2" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|Q5R4L5 XRN2 "5'-3' exoribonuclease 2" [Pongo abelii (taxid:9601)] Back     alignment and assigned GO terms
UNIPROTKB|F1SAU5 XRN2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] 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) ?
Q9FQ03XRN3_ARATH3, ., 1, ., 1, 3, ., -0.66750.88480.9715yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.130.691

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
estExt_Genewise1_v1.C_LG_V1706
hypothetical protein (998 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query1120
COG5049953 COG5049, XRN1, 5'-3' exonuclease [DNA replication, 0.0
pfam03159237 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus 1e-144
smart00157218 smart00157, PRP, Major prion protein 6e-06
pfam09606 768 pfam09606, Med15, ARC105 or Med15 subunit of Media 0.004
>gnl|CDD|227382 COG5049, XRN1, 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation] Back     alignment and domain information 
 Score =  716 bits (1849), Expect = 0.0
 Identities = 340/860 (39%), Positives = 455/860 (52%), Gaps = 74/860 (8%)

Query: 1   MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIH 60
           MGVP+F+RWL+E+YP ++  + E                K  P     DNLYLDMNGI+H
Sbjct: 1   MGVPSFFRWLSERYPKIIQLIEE----------------KQIPEF---DNLYLDMNGILH 41

Query: 61  PCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFR 120
            C HP D   P T +E+++ +F+YID + + +RPRKLLYMA+DGVAPRAKMNQQR+RRFR
Sbjct: 42  NCTHPNDGSPPETEEEMYKAVFEYIDHILLKIRPRKLLYMAVDGVAPRAKMNQQRARRFR 101

Query: 121 ASKDAADSAAEEERLRQEFEREGRKLPPKSDSQV-----FDSNVITPGTEFMAVLSIALQ 175
           ++KDA+ +A + E   +E   E  ++  + D+       FDSN ITPGT FM  L+  L+
Sbjct: 102 SAKDASAAALKAEPNGEEIPEEKDEIGNEIDTIDVEKKKFDSNCITPGTPFMERLAKVLR 161

Query: 176 YYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDAD 235
           YYIH +L++DP W  +++I S   VPGEGEHKIM+++R Q+  P Y+PNTRHC+YGLDAD
Sbjct: 162 YYIHCKLSSDPEWRNLRIIFSGHLVPGEGEHKIMNFIRSQKAQPSYNPNTRHCIYGLDAD 221

Query: 236 LIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEV 295
           LIML L+THE HF ILRE VF                 + +   +   K G      +E 
Sbjct: 222 LIMLGLSTHEPHFLILREDVFFG---------------SKSRRKRKCTKCGRTGHSDEEC 266

Query: 296 VVP-KKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTL 354
            V   +P+  LHI  LREYL+ EFR P  PF  DLE I+DD+IF+CFFVGNDFLPH+P L
Sbjct: 267 KVLTHQPFYLLHISLLREYLEREFREPTLPFTFDLERILDDWIFLCFFVGNDFLPHLPCL 326

Query: 355 EIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQR 414
           +IREGAI  L  ++KK    + GY+T     +L R+E  +  +GS+ED IF+K     +R
Sbjct: 327 DIREGAIETLTEIWKKSLPHMKGYITCDGVINLARLEVILAILGSFEDDIFKKDHIQEER 386

Query: 415 HAE---RIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSE-CVGRL 470
             E   R    K +      +  +      +  S             SP    E  +  L
Sbjct: 387 KNESLERFSLRKERKEGLKGMPRVVYEQKKLIGSIKPTLMDQLQEKKSPDLPDEEFIDTL 446

Query: 471 DNGKGTSGRPHKVPRLSSGATIGAAIVEAENS----------FETDPQENKEEFKAKLKE 520
              K    + H++        +G +I +A  S              P E++EEF++++  
Sbjct: 447 ALPKDLDMKNHELFLKRFANDLGLSISKAIKSKGNYSLEMDIASDSPDEDEEEFESEVDS 506

Query: 521 LLR--DKSDAFNSDNPEE----DKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRY 574
           + +  DK      +  EE      V L  PGWKERYY  K +  T +  EE  +D+   Y
Sbjct: 507 IRKIPDKYVNIIVEEEEENETEKTVNLRFPGWKERYYTSKLHF-TTDS-EEKIRDMAKEY 564

Query: 575 TEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFP 634
            EGL WV+ YYY G  SW W+YPYHYAP A+DL  L   +I FELG PF+PF QL+ V P
Sbjct: 565 VEGLQWVLSYYYRGCPSWDWYYPYHYAPLAADLSKLSDNDIKFELGTPFRPFEQLMAVLP 624

Query: 635 SASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVK 694
           + S + +PE +R LM D  SPI DFYP +F++DMNGK  SWQ +  LPFIDE RLL  V 
Sbjct: 625 ARSKNLVPEGFRPLMDDEKSPIIDFYPEEFKLDMNGKTASWQAVVLLPFIDERRLLSAVA 684

Query: 695 KIEHTLTEEEARRNSIMADMLFVLLSHP-LSASIYTLDEHCKQLK--IKERVEVKERLNP 751
               TL+EEE +RN    D+LF       LS     L   CKQ +       E    L  
Sbjct: 685 VKYPTLSEEERKRNLRGLDLLFSSNKKSDLSELFKDLYSKCKQKEYITMCSKESPYGLFG 744

Query: 752 ELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHKHVTRPPAGVIF 811
            +  G  G                P   M  +  ++   A   + D    VT        
Sbjct: 745 TVKLGAEGLAPNLLSLCPISFLSYP-GLMVFLEYSKNQSARLVIEDPKSTVTN------- 796

Query: 812 PKKIVQLEDLKPAPVLWHED 831
            K IV    +KP  VLW   
Sbjct: 797 -KSIVLRGFIKPINVLWPYL 815

Length = 953
>gnl|CDD|202558 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus Back     alignment and domain information
>gnl|CDD|197548 smart00157, PRP, Major prion protein Back     alignment and domain information
>gnl|CDD|220309 pfam09606, Med15, ARC105 or Med15 subunit of Mediator complex non-fungal Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 1120
KOG2044931 consensus 5'-3' exonuclease HKE1/RAT1 [Replication 100.0
COG5049953 XRN1 5'-3' exonuclease [DNA replication, recombina 100.0
KOG2045 1493 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involve 100.0
PF03159237 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: 100.0
cd00128316 XPG Xeroderma pigmentosum G N- and I-regions (XPGN 98.49
PTZ00217393 flap endonuclease-1; Provisional 98.08
KOG2044931 consensus 5'-3' exonuclease HKE1/RAT1 [Replication 97.74
PRK03980292 flap endonuclease-1; Provisional 97.23
TIGR03674338 fen_arch flap structure-specific endonuclease. End 96.79
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 95.44
smart00475259 53EXOc 5'-3' exonuclease. 95.04
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 93.58
PRK14976281 5'-3' exonuclease; Provisional 93.05
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 91.55
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 90.83
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 89.62
PRK05755880 DNA polymerase I; Provisional 86.24
KOG2519449 consensus 5'-3' exonuclease [Replication, recombin 85.03
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 84.03
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-269  Score=2298.30  Aligned_cols=806  Identities=58%  Similarity=0.974  Sum_probs=721.9

Q ss_pred             CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHHH
Q 001223            1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQC   80 (1120)
Q Consensus         1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~~~~p~te~Emf~~   80 (1120)
                      ||||+|||||++|||++|++|+|++|+++||+.||+|.|+|||||+||||||||||||||||+|||++|+|+||+|||++
T Consensus         1 MGVPaffRWLs~kyp~~I~~viEe~p~~~~g~~ip~D~s~pNPNg~E~DNLYLDMNGIIHPC~HPEdkPaP~tedEm~~a   80 (931)
T KOG2044|consen    1 MGVPAFFRWLSRKYPKTISPVIEEEPVDVDGVKIPVDYSKPNPNGVEFDNLYLDMNGIIHPCTHPEDKPAPETEDEMFVA   80 (931)
T ss_pred             CCchHHHHHHHHhcchhhhhhhhcCcccCCCcccccccCCCCCCcccccceeeecCcccccCCCCCCCCCCccHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCccCcc
Q 001223           81 MFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVI  160 (1120)
Q Consensus        81 If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fDSN~I  160 (1120)
                      ||+||||||.||||||||||||||||||||||||||||||||||+.++++|++++++|++.+|..||++.++++||||||
T Consensus        81 vFeyiDrlf~mvRPRkLLymAIDGVAPRAKMNQQRsRRFRaaKeaae~~~e~e~~ree~~~~G~~lpp~~~~e~fDSNcI  160 (931)
T KOG2044|consen   81 VFEYIDRLFSMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAAKEAAEKEAEIERLREEFEAEGKFLPPKVKKETFDSNCI  160 (931)
T ss_pred             HHHHHHHHHHhccchheeEEeecccCchhhhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcCCcCCchhhccccccCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHH
Q 001223          161 TPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA  240 (1120)
Q Consensus       161 TPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImL~  240 (1120)
                      ||||+||++|+.+|+|||+.|||+||+|+||+||||||+||||||||||+|||+||++|+|||||+|||||+||||||||
T Consensus       161 TPGTpFM~~La~aLrYyI~~rLn~DPgWkNikvIlSDAnVPGEGEHKIM~yIR~QR~~P~~dPNT~HclyGlDADLImLg  240 (931)
T KOG2044|consen  161 TPGTPFMDRLAKALRYYIHDRLNSDPGWKNIKVILSDANVPGEGEHKIMSYIRSQRAQPGYDPNTHHCLYGLDADLIMLG  240 (931)
T ss_pred             CCCChHHHHHHHHHHHHHHHhhcCCccccceEEEEecCCCCCcchhHHHHHHHHccCCCCCCCCceeeeecCCccceeee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHhcC
Q 001223          241 LATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRI  320 (1120)
Q Consensus       241 LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~el~~  320 (1120)
                      |||||+||+||||+|| |+++++|++|||+||.+++|.|+.+  .++.++..+.. ..+++|+||+||||||||+.||.+
T Consensus       241 LATHE~hF~IlRE~~~-P~~~~~C~~cgq~gh~~~dc~g~~~--~~~~~~~~~~~-~~ek~fifl~I~vLREYLe~El~~  316 (931)
T KOG2044|consen  241 LATHEPHFSILREEFF-PNKPRRCFLCGQTGHEAKDCEGKPR--LGETNELADVP-GVEKPFIFLNISVLREYLERELRM  316 (931)
T ss_pred             ccccCCceEEeeeeec-CCCcccchhhcccCCcHhhcCCcCC--cccccccccCc-ccccceEEEEHHHHHHHHHHHhcC
Confidence            9999999999999976 9999999999999999999999866  56666666555 789999999999999999999999


Q ss_pred             CCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHHhhh
Q 001223          321 PNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSY  400 (1120)
Q Consensus       321 ~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~IreGaId~Li~~YKk~L~~~ggYLT~~G~INl~rl~~fl~~L~~~  400 (1120)
                      |++||.||+||+||||||||||||||||||||||+|||||||+|+++||+.|++|+||||++|.|||.||+.||+.||.+
T Consensus       317 p~lPf~fd~ER~iDDwVF~CFFvGNDFLPHlPsLeIRegAId~L~~iyk~~~~~~kgYLT~~g~vNL~rve~~~~avg~~  396 (931)
T KOG2044|consen  317 PNLPFTFDLERAIDDWVFLCFFVGNDFLPHLPSLEIREGAIDRLMEIYKKSFPKMKGYLTDSGKVNLDRVEMFMQAVGSV  396 (931)
T ss_pred             CCCCccccHHhhhcceEEEEeeecCccCCCCCchhhhhcHHHHHHHHHHHHHHhhcceeccCCcccHHHHHHHHHHHhhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCccccccccCCCCCCCCCCCCCccccccccccCCCCCCCCC
Q 001223          401 EDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRP  480 (1120)
Q Consensus       401 Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~~~~~~~~~p~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  480 (1120)
                      ||+||++|.    |++|+++|+|+..++.+..+            ++++ .+.++.....+             ..+...
T Consensus       397 Ed~IFkkR~----r~~e~frrrk~~rk~~~~~~------------~~sg-~~~~~~~~~~~-------------~~~~p~  446 (931)
T KOG2044|consen  397 EDDIFKKRQ----RREERFRRRKAARKRQDRNA------------QDSG-TNFSLAGSREL-------------EASEPA  446 (931)
T ss_pred             cchHHHHhH----hHHHHHHHhhhhhhhhhhhc------------cccc-ccccccccccc-------------cccchh
Confidence            999999994    45566666555433332211            1122 11111110000             012223


Q ss_pred             CcccccCCCcchhhHHHhhhccCCCCccccHHHHHHHHHHHHhhhcccCCCCCchhhhhccCCCchhHHHHHHhcCCCCh
Q 001223          481 HKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTP  560 (1120)
Q Consensus       481 ~k~~~~s~~~~~~~~~~~~e~~~~~~~~~~~eelk~~l~~~~~~k~d~~~~~~~~eD~VkL~e~gwK~rYY~~KF~v~~~  560 (1120)
                      +++.+++..++.++++++         .+++++++.+++..++++++.+++++..+|+|||||+|||+|||++||++++.
T Consensus       447 ~~~~~~~~~~~~~~~~~~---------~~~~e~~~~~~~~~~~~k~~~~~~~~~~~D~VkL~e~G~keRYY~~KF~v~~~  517 (931)
T KOG2044|consen  447 QKALKVSLEKNESAANVE---------RDNTEDLKTKLKHGQRRKSEDSESEEENTDKVKLYEPGWKERYYEEKFDVTPD  517 (931)
T ss_pred             hhhhhhccccccchhhhc---------ccchhhccccccccccccCccccCCCCCCcceeecCCchhhhhhhhhcCCCCH
Confidence            344556666666666653         24566777888888888998888999999999999999999999999999876


Q ss_pred             hHHHHHHHHHHHHHHhhHHHHhhhhccCcCcccccccCCCCcccccccccccccceecCCCCCChhhhhhhcCCCCCCCC
Q 001223          561 EEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHA  640 (1120)
Q Consensus       561 ~di~~~r~~vv~~YvEGL~WVL~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~  640 (1120)
                      +  ++||++||++|||||||||+||||||+||+||||||||||||||++|..++|+|++|+||+||||||+||||||+++
T Consensus       518 e--eq~R~~vv~~YveGLcWVl~YYyqGc~SW~WyYPYHYAPfAsDf~~l~~ldikFe~g~PFkP~eQLmgVlPAAS~~~  595 (931)
T KOG2044|consen  518 E--EQIRKDVVLKYVEGLCWVLRYYYQGCASWNWYYPYHYAPFASDFKGLSDLDIKFELGKPFKPLEQLMGVLPAASSHA  595 (931)
T ss_pred             H--HHHHHHHHHHHhcchhhhhhhhhccccccccccccccchhhhhhhcccccccccccCCCCCcHHHHhhhcchhhcCC
Confidence            6  78999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHhhhcCCCCCCcccCCCcccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHHHhhccCCCceEEeecC
Q 001223          641 LPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLS  720 (1120)
Q Consensus       641 LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~lfv~~~  720 (1120)
                      ||+.||+||+||+||||||||+||+||||||||+||||||||||||+|||+|+++++++||+||++||+.|.|+|||+.+
T Consensus       596 LPe~~r~LMsdpdSpIiDFYPedF~iDmNGKk~aWQGIalLPFiDe~rLl~a~~~~y~~Lt~EE~~RN~rg~d~Lfi~~~  675 (931)
T KOG2044|consen  596 LPEEWRKLMSDPDSPIIDFYPEDFEIDMNGKKYAWQGIALLPFIDERRLLSAVAKVYPTLTDEEKRRNSRGPDLLFISDK  675 (931)
T ss_pred             CcHHHHhhhcCCCCcccccccccceeeccCceeeccccccccccchhhHHHHHHhhccccCHHHHhccccCCceEEecCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcchhhhhhhhHhhhhhhhhhhhhhhcCCcCcCCCcceeeecCCCCCCCCcccCCCCCCcCCcCCceEEEEecCCCCCC
Q 001223          721 HPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVLCAIYKLPDAHK  800 (1120)
Q Consensus       721 ~~l~~~i~~l~~~~~~~~~~~~~~~~~~i~~~~s~g~~G~v~~~~~~~~~~~~~sPi~~l~dI~~n~~i~~~y~~P~~~~  800 (1120)
                      ||++++|.+||..+++ ...++    ..+-..++.|++|.+++++......+++||+..+-++..+..++++|..|..+.
T Consensus       676 hp~~e~i~~lysk~k~-~~~~~----v~~~~~~~p~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~~v~~~~~~~~~~e  750 (931)
T KOG2044|consen  676 HPLFEFILQLYSKKKK-SNEKN----VKLAHGVDPGLNGAISKDPEGLESGISKSPPGGLSDYNTNTGVCLKYVDPEYPE  750 (931)
T ss_pred             CchHHHHHHHHHhhcc-Ccccc----cccccccCcccceeeccCccccccccccCChhhcccCCccceeeecccCccccc
Confidence            9999999999887765 22221    234455667999999998866556788899999999999999999999998742


Q ss_pred             C---CCCCCCCCcccCCCCCcccCCCCCcccCCCCCCCCCCCC-CCCCCCCCCCCccchhHHHHHHhhhc
Q 001223          801 H---VTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGRRPHENG-RHNPHGTISGRQLGEAAHRLVANSLQ  866 (1120)
Q Consensus       801 h---~s~ll~gv~~P~~~l~~~d~~~~~~l~~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~~r~~~~~~~  866 (1120)
                      .   .++.|+|++.|.++|+       |-||...++ ..+.++ +|+..  ..+..+.+++||.|.+.+.
T Consensus       751 d~~~~a~~l~G~~~p~~~lk-------P~dwn~sR~-~~~~~~~~~~~~--~~~~~~~~~~~~~v~~~~~  810 (931)
T KOG2044|consen  751 DYIFPAIRLDGAKEPEKVLK-------PDDWNDRRD-GRYQPQAGFNRN--APRGSLPQSGHRQVHHYVR  810 (931)
T ss_pred             cccchhhhcCCCCCCccccC-------cchhhhhhh-hhcCcccccccC--CCCCcCCcccccccCcCCC
Confidence            2   4788888888888888       346765433 234444 66665  4478999999999888887

>COG5049 XRN1 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation] Back     alignment and domain information
>KOG2045 consensus 5'-3' exonuclease XRN1/KEM1/SEP1 involved in DNA strand exchange and mRNA turnover [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning] Back     alignment and domain information
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions Back     alignment and domain information
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases Back     alignment and domain information
>PTZ00217 flap endonuclease-1; Provisional Back     alignment and domain information
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification] Back     alignment and domain information
>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>TIGR03674 fen_arch flap structure-specific endonuclease Back     alignment and domain information
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes Back     alignment and domain information
>smart00475 53EXOc 5'-3' exonuclease Back     alignment and domain information
>PF00752 XPG_N: XPG N-terminal domain; InterPro: IPR006085 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer Back     alignment and domain information
>PRK14976 5'-3' exonuclease; Provisional Back     alignment and domain information
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment Back     alignment and domain information
>smart00485 XPGN Xeroderma pigmentosum G N-region Back     alignment and domain information
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule Back     alignment and domain information
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair] 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 ?
Query1120
3fqd_A899 Crystal Structure Of The S. Pombe Rat1-Rai1 Complex 1e-162
3pie_A1155 Crystal Structure Of The 5'->3' Exoribonuclease Xrn 4e-73
3pie_A1155 Crystal Structure Of The 5'->3' Exoribonuclease Xrn 5e-39
2y35_A1140 Crystal Structure Of Xrn1-Substrate Complex Length 2e-72
2y35_A 1140 Crystal Structure Of Xrn1-Substrate Complex Length 4e-40
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex Length = 899 Back     alignment and structure 
Iteration: 1

 Score =  568 bits (1464), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 344/890 (38%), Positives = 471/890 (52%), Gaps = 94/890 (10%)
Query: 2   GVPAFYRWLAEKYPLVVADVIEEEPVVI-DGVKIPVDTSKPNPNGLEYDNLYLDMNGIIH 60
           GVPA +R L+ K+  V+  VIE     + DG +I  D S PNPNG+E DNLYLD NGI+H
Sbjct: 5   GVPALFRLLSRKFAKVITPVIEAPTEKLPDGTEIEPDLSLPNPNGVECDNLYLDXNGIVH 64
Query: 61  PCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQXXXXXX 120
           PC HPEDRPAP T DE    +F+Y DR+   VRPR+LL++AIDGVAPRAK NQQ      
Sbjct: 65  PCSHPEDRPAPETEDEXXVAVFEYTDRILAXVRPRQLLFIAIDGVAPRAKXNQQRSRRFR 124
Query: 121 XXXXXXXXXXXXXXXXXXXXXXXXKLPPK-SDSQVFDSNVITPGTEFMAVLSIALQYYIH 179
                                    +    +  + +DSN ITPGT F   L+ +L+YYI 
Sbjct: 125 SSREAALKEEELQAFIEEAKQQGIPIDENATKKKSWDSNCITPGTPFXDTLAKSLRYYII 184
Query: 180 LRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIML 239
            +LN+DP W  ++ ILSDA+VPGEGEHKI  ++R QR  P YDPNT H +YGLDADLI L
Sbjct: 185 NKLNSDPCWRNVRFILSDASVPGEGEHKIXEFIRSQRVKPEYDPNTHHVVYGLDADLIXL 244
Query: 240 ALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVP- 298
            LATHE HF +LRE VF            Q G      E +   K    D+  +   VP 
Sbjct: 245 GLATHEPHFRVLREDVFF-----------QQGSTKKTKEERLGIK--RLDDVSETNKVPV 291
Query: 299 KKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIRE 358
           KKP+ +L++  LREYL+ E  +PN PF  DLE  +DD++F  FFVGNDFLPH+P+L+IR+
Sbjct: 292 KKPFIWLNVSILREYLEVELYVPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRD 351
Query: 359 GAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIF----QKRARLHQR 414
           GA+  L  +++      GGYLT     +L R E  + AVG+ ED IF    Q+  R ++ 
Sbjct: 352 GAVERLTEIWRASLPHXGGYLTLDGSVNLARAEVILSAVGNQEDDIFKRLKQQEDRRNEN 411
Query: 415 HAERIKREKAQARRG--DDV---------------------------EPLAQPDSLVPVS 445
           +  R +RE  Q      D+V                           +   + D+  PV 
Sbjct: 412 YRRRQQRESNQESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPVD 471
Query: 446 RFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLS--SGATIGAAIVEAE--- 500
             + S   S  S     +     R  N  G S     V  ++  + + + A +V  E   
Sbjct: 472 LVNLSEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQ 531
Query: 501 -----------------NSFETDPQXXXXXXXXXXXXXXRDKSDAFNSDNPEEDKVKLGE 543
                            +S E+                 + K+     +N   D V+L E
Sbjct: 532 NVPLEDSIASSSAYEDTDSIESSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYE 591
Query: 544 PGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPF 603
           PG++ERYYE+KF+  +P+E E+ R + V  Y  GLCWV+ YYY+G  SW W+YPYHYAPF
Sbjct: 592 PGYRERYYEQKFHI-SPDEPEKIR-EAVKHYVHGLCWVLLYYYQGCPSWTWYYPYHYAPF 649
Query: 604 ASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTD 663
           A+D KDL   ++ FEL  PFKP+ QLLGV P+AS + LPE  + L TD NS I DFYP +
Sbjct: 650 AADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLXTDENSEIIDFYPEN 709
Query: 664 FEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPL 723
           F +D+NGK++ WQG+A LPFIDE RLL+ V KI   LTEEE++RN   + +LF+   HP 
Sbjct: 710 FTIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHP- 768
Query: 724 SASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISP-----------CAGDPHPPV 772
                   E  KQL  K+R     +L+ + + G+ G ++            C  D     
Sbjct: 769 -----XFSELVKQLYSKKRQGKPLKLSGKXAHGLFGKVNTNDSVIPNVSVQCPIDVTSAD 823
Query: 773 FRSPVASMEDIMGNQVLCAIYKLPDAH-KHVTRPPAGVIFPKKIVQLEDL 821
                 S++D   NQ +  ++++P +H  H +    GV  P +++  ED+
Sbjct: 824 ALQKYGSIDD---NQSISLVFEVPKSHFVHKSXLLRGVKXPNRVLTPEDI 870
>pdb|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q Mutant Length = 1155 Back     alignment and structure
>pdb|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q Mutant Length = 1155 Back     alignment and structure
>pdb|2Y35|A Chain A, Crystal Structure Of Xrn1-Substrate Complex Length = 1140 Back     alignment and structure
>pdb|2Y35|A Chain A, Crystal Structure Of Xrn1-Substrate Complex Length = 1140 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 ?
Query1120
3fqd_A899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 0.0
3pie_A1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 0.0
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 1e-138
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 5e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 2e-06
1vt4_I1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-05
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 1e-07
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 2e-07
1m2v_B 926 SEC24, protein transport protein SEC24, SEC24P, SE 4e-05
1twf_A1733 B220, DNA-directed RNA polymerase II largest subun 5e-05
>3fqd_A Protein DHP1, 5'-3' exoribonuclease 2; protein-protein complex, exonuclease, hydrolase, mRNA proces nuclease, nucleus, rRNA processing, transcription; 2.20A {Schizosaccharomyces pombe} Length = 899 Back     alignment and structure
 Score =  669 bits (1725), Expect = 0.0
 Identities = 345/911 (37%), Positives = 485/911 (53%), Gaps = 87/911 (9%)

Query: 1   MGVPAFYRWLAEKYPLVVADVIEEEPVVI-DGVKIPVDTSKPNPNGLEYDNLYLDMNGII 59
           MGVPA +R L+ K+  V+  VIE     + DG +I  D S PNPNG+E DNLYLDMNGI+
Sbjct: 4   MGVPALFRLLSRKFAKVITPVIEAPTEKLPDGTEIEPDLSLPNPNGVECDNLYLDMNGIV 63

Query: 60  HPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRF 119
           HPC HPEDRPAP T DE+   +F+Y DR+  MVRPR+LL++AIDGVAPRAKMNQQRSRRF
Sbjct: 64  HPCSHPEDRPAPETEDEMMVAVFEYTDRILAMVRPRQLLFIAIDGVAPRAKMNQQRSRRF 123

Query: 120 RASKDAADSAAEEERLRQEFEREGRKLPPKS-DSQVFDSNVITPGTEFMAVLSIALQYYI 178
           R+S++AA    E +   +E +++G  +   +   + +DSN ITPGT FM  L+ +L+YYI
Sbjct: 124 RSSREAALKEEELQAFIEEAKQQGIPIDENATKKKSWDSNCITPGTPFMDTLAKSLRYYI 183

Query: 179 HLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIM 238
             +LN+DP W  ++ ILSDA+VPGEGEHKIM ++R QR  P YDPNT H +YGLDADLIM
Sbjct: 184 INKLNSDPCWRNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLIM 243

Query: 239 LALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVP 298
           L LATHE HF +LRE VF        F  G          G  +      D      V  
Sbjct: 244 LGLATHEPHFRVLREDVF--------FQQGSTKKTKEERLGIKR----LDDVSETNKVPV 291

Query: 299 KKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIRE 358
           KKP+ +L++  LREYL+ E  +PN PF  DLE  +DD++F  FFVGNDFLPH+P+L+IR+
Sbjct: 292 KKPFIWLNVSILREYLEVELYVPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRD 351

Query: 359 GAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAER 418
           GA+  L  +++     +GGYLT     +L R E  + AVG+ ED IF++  +   R  E 
Sbjct: 352 GAVERLTEIWRASLPHMGGYLTLDGSVNLARAEVILSAVGNQEDDIFKRLKQQEDRRNEN 411

Query: 419 IKREKAQARRGDD--------VEPLAQPDSLVPVSRFHGSRLASGPS------------- 457
            +R + +    +         ++   +  S   V+    + + + P              
Sbjct: 412 YRRRQQRESNQESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPVD 471

Query: 458 --PSPYQQSECVGRLDNGKGTSGRP-----------------------HKVPRLSSGATI 492
                 + S       N +  + R                         K   +S+    
Sbjct: 472 LVNLSEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQ 531

Query: 493 GAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEP-------- 544
              + ++  S       +  E    +   +  K           D  +  E         
Sbjct: 532 NVPLEDSIASSSAYEDTDSIESSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYE 591

Query: 545 -GWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPF 603
            G++ERYYE+KF+    E   E  ++ V  Y  GLCWV+ YYY+G  SW W+YPYHYAPF
Sbjct: 592 PGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWVLLYYYQGCPSWTWYYPYHYAPF 649

Query: 604 ASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTD 663
           A+D KDL   ++ FEL  PFKP+ QLLGV P+AS + LPE  + LMTD NS I DFYP +
Sbjct: 650 AADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYPEN 709

Query: 664 FEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPL 723
           F +D+NGK++ WQG+A LPFIDE RLL+ V KI   LTEEE++RN   + +LF+   HP+
Sbjct: 710 FTIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPM 769

Query: 724 SASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPV------ 777
            + +       KQL  K+R     +L+ +++ G+ G ++           + P+      
Sbjct: 770 FSEL------VKQLYSKKRQGKPLKLSGKMAHGLFGKVNTNDSVIPNVSVQCPIDVTSAD 823

Query: 778 --ASMEDIMGNQVLCAIYKLPD-AHKHVTRPPAGVIFPKKIVQLEDLKPAPVLWHEDSGR 834
                  I  NQ +  ++++P     H +    GV  P +++  ED+          S R
Sbjct: 824 ALQKYGSIDDNQSISLVFEVPKSHFVHKSMLLRGVKMPNRVLTPEDINQVR-AERSFSSR 882

Query: 835 RPHENGRHNPH 845
           R + N      
Sbjct: 883 RNNGNSAAALE 893
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo domain, mRNA turnover, RRN processing, RNA binding, DNA binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A Length = 1155 Back     alignment and structure
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster} Length = 1140 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
>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
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein, abnormal nuclear; zinc-finger, beta barrel, VWA domain, gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 Length = 926 Back     alignment and structure
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query1120
3fqd_A899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 100.0
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 100.0
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 100.0
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 98.45
1rxw_A336 Flap structure-specific endonuclease; helical clam 98.16
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 98.16
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 98.07
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 97.83
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 97.49
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 97.34
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 97.2
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 96.14
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 85.0
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 84.82
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 83.37
>3fqd_A Protein DHP1, 5'-3' exoribonuclease 2; protein-protein complex, exonuclease, hydrolase, mRNA proces nuclease, nucleus, rRNA processing, transcription; 2.20A {Schizosaccharomyces pombe} Back     alignment and structure
Probab=100.00  E-value=1.8e-233  Score=2066.42  Aligned_cols=802  Identities=43%  Similarity=0.760  Sum_probs=634.3

Q ss_pred             CcchhHHHHHHhhCCcccccccccCcccc-CCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHH
Q 001223            1 MGVPAFYRWLAEKYPLVVADVIEEEPVVI-DGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQ   79 (1120)
Q Consensus         1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~-dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~~~~p~te~Emf~   79 (1120)
                      ||||+|||||++|||+|+++|+|+.|.++ ||..||+|+++|||||.||||||||||||||+|+|+++.+.+.|++|||.
T Consensus         4 MGVP~ffRWLs~rYP~i~~~~~e~~~~~~~~g~~~p~d~~~pnpng~e~DnLYlDmNgIIH~c~h~~~~~~~~te~e~~~   83 (899)
T 3fqd_A            4 MGVPALFRLLSRKFAKVITPVIEAPTEKLPDGTEIEPDLSLPNPNGVECDNLYLDMNGIVHPCSHPEDRPAPETEDEMMV   83 (899)
T ss_dssp             CCHHHHHHHHHHHCGGGEEECCCCCCEECTTSCEECCCTTSCCTTSSCEEEEEEETHHHHHHHHSCSSSCCCCSHHHHHH
T ss_pred             cchHHHHHHHHHHCCccchhhcccccccccCCccccccccCCCCCCcccceEEEecchhhhhhcCCCCCCCCCCHHHHHH
Confidence            99999999999999999999999999888 89999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCC--CCCCCCcc
Q 001223           80 CMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPK--SDSQVFDS  157 (1120)
Q Consensus        80 ~If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~--~~~~~fDS  157 (1120)
                      +||+|||+||.+|||||+||||||||||||||||||+||||+|++++++.++.++++++++++| .+++.  ...+.|||
T Consensus        84 ~If~yid~l~~~vrPrklly~AiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~~~~fDs  162 (899)
T 3fqd_A           84 AVFEYTDRILAMVRPRQLLFIAIDGVAPRAKMNQQRSRRFRSSREAALKEEELQAFIEEAKQQG-IPIDENATKKKSWDS  162 (899)
T ss_dssp             HHHHHHHHHHHHHCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-CCBCHHHHSCCCCCG
T ss_pred             HHHHHHHHHHHHcCcceeEEEeecCCCCchHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhcC-CCCccccccccCCCc
Confidence            9999999999999999999999999999999999999999999999998888888888998888 33321  24578999


Q ss_pred             CcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHH
Q 001223          158 NVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLI  237 (1120)
Q Consensus       158 N~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLI  237 (1120)
                      |||||||+||++|+.+|+|||+.||++||+|++++|||||++||||||||||+|||+||++|+|||||+|||||+|||||
T Consensus       163 N~ITPGT~FM~~L~~~L~~~i~~kl~~dp~W~~~~VIlSd~~vPGEGEHKIm~fIR~~r~~p~ydpN~~HcIyGlDADLI  242 (899)
T 3fqd_A          163 NCITPGTPFMDTLAKSLRYYIINKLNSDPCWRNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLI  242 (899)
T ss_dssp             GGSSTTSHHHHHHHHHHHHHHHHHHTSCGGGTTCEEEEECTTSCSCHHHHHHHHHHHHHTSTTSCTTCCEEEECCCTTHH
T ss_pred             CccCCccHHHHHHHHHHHHHHHHHhhcCcccccceEEEeCCCCCCccHHHHHHHHHHHhcCCCCCCCCeEEEEccCccHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHH
Q 001223          238 MLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYE  317 (1120)
Q Consensus       238 mL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~e  317 (1120)
                      ||||+||||||+||||+|++..        +|.||.+.+|.|+.|.  ++++++.  .....++|+||||++|||||+.|
T Consensus       243 mL~LatHep~f~ILRE~v~~~~--------~q~~~~~~~~~~~~k~--~~~~~~~--~~~~~~~f~~l~i~iLREYL~~E  310 (899)
T 3fqd_A          243 MLGLATHEPHFRVLREDVFFQQ--------GSTKKTKEERLGIKRL--DDVSETN--KVPVKKPFIWLNVSILREYLEVE  310 (899)
T ss_dssp             HHHHHTTCSSEEEEEECCC-----------------CTTTTTCCBT--TC------------CCEEEEEHHHHHHHHHHH
T ss_pred             HHhhhccCCceEEEeeecccCc--------Cccccchhhhcccccc--ccccccc--cccccCceEEEeHHHHHHHHHHH
Confidence            9999999999999999998753        6889999999997665  4555432  23456899999999999999999


Q ss_pred             hcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHH
Q 001223          318 FRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAV  397 (1120)
Q Consensus       318 l~~~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~IreGaId~Li~~YKk~L~~~ggYLT~~G~INl~rl~~fl~~L  397 (1120)
                      |.++++||++|+|||||||||||||||||||||||+|+|++||||+|+.+||++|+++|||||++|+|||+||+.||+.|
T Consensus       311 ~~~~~~~f~~d~ERiIDDfVfmcFfvGNDFLPhlP~l~I~egaid~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~L  390 (899)
T 3fqd_A          311 LYVPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRDGAVERLTEIWRASLPHMGGYLTLDGSVNLARAEVILSAV  390 (899)
T ss_dssp             HCCTTCSSCCCHHHHHHHHHHHGGGGCCSSSCCCTTCCGGGTHHHHHHHHHHHHHHHHSSCSEETTEECHHHHHHHHHHH
T ss_pred             hcccCCCCCchhhhhhhhhhhhhHhhCcccCCCCCccCcCCChHHHHHHHHHHHHHHcCCeeecCCEEcHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC------CCC--CCCCCc---cc-------cccccCCCCCCCCCCC
Q 001223          398 GSYEDRIFQKRARLHQRHAERIKREKAQARRGDDV------EPL--AQPDSL---VP-------VSRFHGSRLASGPSPS  459 (1120)
Q Consensus       398 ~~~Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~~~~------~~~--~~p~~~---~p-------~~~~~~~~l~~~~~~~  459 (1120)
                      |++|++||++|.+.++++.++.+|++.+.+.....      ...  ..+...   .+       .....+......+...
T Consensus       391 ~~~E~~iF~~r~~~e~~~~~~~krr~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  470 (899)
T 3fqd_A          391 GNQEDDIFKRLKQQEDRRNENYRRRQQRESNQESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPV  470 (899)
T ss_dssp             HTTHHHHHHHHHHHHTTTC-------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccccccccccccccccccccccccccccCcccc
Confidence            99999999999998887777777665443211110      000  000000   00       0000000000000000


Q ss_pred             CCccc--c---------ccccccCCC-CCCCCCCcccccCCCcchhhHHHhhh-------ccCCCCcc-cc--------H
Q 001223          460 PYQQS--E---------CVGRLDNGK-GTSGRPHKVPRLSSGATIGAAIVEAE-------NSFETDPQ-EN--------K  511 (1120)
Q Consensus       460 ~~~~~--~---------~~~~~~~~~-~~~~~~~k~~~~s~~~~~~~~~~~~e-------~~~~~~~~-~~--------~  511 (1120)
                      ++...  .         ..+.+.+.. ......+.....+..+..+++.++..       .....++. +.        .
T Consensus       471 ~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~n~~~a~~lk~~l~~~~~~~~~~~~~~~~~~~~~e~~~~  550 (899)
T 3fqd_A          471 DLVNLSEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQNVPLEDSIASSSAYEDTDS  550 (899)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccchhhhhhhhhhcchhhhhhhhhhhhhhcccchhHHHHHHHHhhccccccccccccccccccccccccc
Confidence            00000  0         000000000 00000000000000000001111100       00000000 00        0


Q ss_pred             HHHHHHHHHHHhh-------hcc--cCCCCCchhhhhccCCCchhHHHHHHhcCCCChhHHHHHHHHHHHHHHhhHHHHh
Q 001223          512 EEFKAKLKELLRD-------KSD--AFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVM  582 (1120)
Q Consensus       512 eelk~~l~~~~~~-------k~d--~~~~~~~~eD~VkL~e~gwK~rYY~~KF~v~~~~di~~~r~~vv~~YvEGL~WVL  582 (1120)
                      .+......+.+++       ++.  ....+.+.+|.|+|||+|||+|||++||+++..+  ++++++||++|||||||||
T Consensus       551 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~l~e~g~K~rYY~~KF~~~~~d--~e~~~~v~~~YvEGL~WVL  628 (899)
T 3fqd_A          551 IESSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYEPGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWVL  628 (899)
T ss_dssp             ----------------------------------CCSCTTSTTHHHHHHHHTSCCCTTC--THHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhhhccccccccccccccccccccchhhhhhcccchHHHHHHHhcCCCCCC--HHHHHHHHHHHHHHHHHHH
Confidence            0000000000000       000  0011123568899999999999999999997644  4789999999999999999


Q ss_pred             hhhccCcCcccccccCCCCcccccccccccccceecCCCCCChhhhhhhcCCCCCCCCCcHHHHhhhcCCCCCCcccCCC
Q 001223          583 HYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPT  662 (1120)
Q Consensus       583 ~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~  662 (1120)
                      +|||||||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++||+||+||+|||+||||+
T Consensus       629 ~YYYqGc~SW~WyYPYHYAPfaSD~~~~~~~~i~Fe~G~PF~PfEQLMaVLPaaS~~~LP~~y~~LMtdp~SpIiDFYP~  708 (899)
T 3fqd_A          629 LYYYQGCPSWTWYYPYHYAPFAADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYPE  708 (899)
T ss_dssp             HHHHTCCSCSSCCCCCSSCCCGGGCCSCTTCCCCCCCCCCCCHHHHHHHHCCGGGGGGSCHHHHHHHHCTTCTTGGGCCS
T ss_pred             HHHhCCCCCCcccCcccccchHHHHhhcccCceecCCCCCCChHHHHHhhcCHhhhCcccHHHHHHhcCCCCcchhhCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHHHhhccCCCceEEeecCCCcchhhhhhhhHhhhhhhhhh
Q 001223          663 DFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKER  742 (1120)
Q Consensus       663 dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~lfv~~~~~l~~~i~~l~~~~~~~~~~~~  742 (1120)
                      +|+|||||||++||||||||||||+|||+||++++++||+||++||++|.++||++++||+++.+      ++.+|++++
T Consensus       709 dFeiDmNGKk~~WqgVvlLPFIDE~RLL~A~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~~------~~~~y~~~~  782 (899)
T 3fqd_A          709 NFTIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSEL------VKQLYSKKR  782 (899)
T ss_dssp             CCCEECSSSSCTTSSEECCCCCCHHHHHHHHHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHHH------HHHHTSSSC
T ss_pred             cccccCCCCccccceEEecCccCHHHHHHHHHHhhccCCHHHHHhccCCCcEEEEeCCCchHHHH------HHHhccccc
Confidence            99999999999999999999999999999999999999999999999999999999999998754      345565555


Q ss_pred             hhhhhcCCcCcCCCcceeeecCCCCCCCCcccCCCC--CCcC------CcCCceEEEEecCCC-CCCCCCCCCCCCcccC
Q 001223          743 VEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVA--SMED------IMGNQVLCAIYKLPD-AHKHVTRPPAGVIFPK  813 (1120)
Q Consensus       743 ~~~~~~i~~~~s~g~~G~v~~~~~~~~~~~~~sPi~--~l~d------I~~n~~i~~~y~~P~-~~~h~s~ll~gv~~P~  813 (1120)
                      ...+++|||++|+||+|+|++++.+.+.++|.|||.  +|||      |.+|++|||.|++|+ .+.|+|+||+||++|+
T Consensus       783 ~~~~~~~~~~~s~gl~G~v~~~~~~~p~~~~~sP~~~~~~~~~~~~~~i~~n~~~~~~y~~P~~~~~~~s~lL~g~~~p~  862 (899)
T 3fqd_A          783 QGKPLKLSGKMAHGLFGKVNTNDSVIPNVSVQCPIDVTSADALQKYGSIDDNQSISLVFEVPKSHFVHKSMLLRGVKMPN  862 (899)
T ss_dssp             SSSCEECCGGGGTTCCSEEEECTTSCSCCCBCCSSCCCSHHHHHHSCCBSSCCEEEEEEECCCCSSCCCCSCCTTCCCCC
T ss_pred             cCcccccCcccccCcceEEEeCCCcCCCCeecCCCCccCCCCccccccccCCcEEEEEEeCCCCCCCcCCcCCCCCCCCC
Confidence            555688999999999999999999888899999997  9999      999999999999999 6999999999999999


Q ss_pred             CCCCcccCCC
Q 001223          814 KIVQLEDLKP  823 (1120)
Q Consensus       814 ~~l~~~d~~~  823 (1120)
                      ++|++.|++.
T Consensus       863 ~~l~~~D~~~  872 (899)
T 3fqd_A          863 RVLTPEDINQ  872 (899)
T ss_dssp             CCCCHHHHHH
T ss_pred             CCCCHHHHHH
Confidence            9999999883
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo domain, mRNA turnover, RRN processing, RNA binding, DNA binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A Back     alignment and structure
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster} Back     alignment and structure
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A Back     alignment and structure
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' FLA site, hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A Back     alignment and structure
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A Back     alignment and structure
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z* Back     alignment and structure
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus} Back     alignment and structure
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2 Back     alignment and structure
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus} Back     alignment and structure
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase-DNA complex, DNA repair, replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A* 3q8m_A* Back     alignment and structure
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A Back     alignment and structure
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1 Back     alignment and structure
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A Back     alignment and structure
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1 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 1120
d1nc8a_29 g.40.1.1 (A:) HIV nucleocapsid {Human immunodefici 0.002
>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 29 Back     information, alignment and structure

class: Small proteins
fold: Retrovirus zinc finger-like domains
superfamily: Retrovirus zinc finger-like domains
family: Retrovirus zinc finger-like domains
domain: HIV nucleocapsid
species: Human immunodeficiency virus type 2 [TaxId: 11709]

 Score = 34.4 bits (79), Expect = 0.002
 Identities = 10/24 (41%), Positives = 15/24 (62%), Gaps = 2/24 (8%)

Query: 263 KCFLCGQPGHLAANCEGKAKRKAG 286
           +C+ CG+ GH A  C  +A R+ G
Sbjct: 8   RCWNCGKEGHSARQC--RAPRRQG 29

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query1120
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 97.1
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 96.01
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 95.35
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 92.91
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 89.85
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: PIN domain-like
superfamily: PIN domain-like
family: 5' to 3' exonuclease catalytic domain
domain: Flap endonuclease-1 (Fen-1 nuclease)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.10  E-value=0.00027  Score=71.39  Aligned_cols=179  Identities=14%  Similarity=0.133  Sum_probs=88.6

Q ss_pred             cchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCC---CCCCCCH---H
Q 001223            2 GVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPED---RPAPTTF---D   75 (1120)
Q Consensus         2 GVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~---~~~p~te---~   75 (1120)
                      ||.++..+|.+.-|.+++.+-   -.+..|                 --|=||.+..||.+.....   .+-....   .
T Consensus         1 GIkgL~~~l~~~~~~~i~~~~---l~~l~g-----------------k~vaIDas~~l~~~l~~~~~~~~~l~~~~~~~~   60 (216)
T d1ul1x2           1 GIQGLAKLIADVAPSAIREND---IKSYFG-----------------RKVAIDASMSIYQFLIAVRQGGDVLQNEEGETT   60 (216)
T ss_dssp             CCTTHHHHHHTTCTTSCCEEC---GGGGTT-----------------CCEEEEHHHHHHHHHSCC-------------CC
T ss_pred             CcchHHHHHHHhCcCceEEec---HHHcCC-----------------CEEEEEeHHHHHHHHHHhccccchhhccCCCCc
Confidence            899999999999988776431   011122                 2577899999987432211   0000000   1


Q ss_pred             HHHHHHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCC
Q 001223           76 EVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVF  155 (1120)
Q Consensus        76 Emf~~If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~f  155 (1120)
                      .-+..+|..+..|..   =.=..++.+||-+|-.|......||-+.....+...    ..+    ..+.    ......+
T Consensus        61 ~~l~~~~~~~~~l~~---~~I~pifVFDG~~~~~K~~~~~~R~~~r~~~~~~~~----~~~----~~~~----~~~~~~~  125 (216)
T d1ul1x2          61 SHLMGMFYRTIRMME---NGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQ----QAQ----AAGA----EQEVEKF  125 (216)
T ss_dssp             HHHHHHHHHHHHHHH---TTCCEEEEECCSCCSCCCCCCCCC--------------------------------------
T ss_pred             HHHHHHHHHHHHHHH---cCCeEEEEEcCCCCccccchhhhhhhhHHHhhhhHH----hhh----hcch----HHHHHHh
Confidence            122233333333322   222347889999998887766555543221110000    000    0000    0011122


Q ss_pred             ccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChh
Q 001223          156 DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDAD  235 (1120)
Q Consensus       156 DSN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDAD  235 (1120)
                      ...+++.-+.....+.+.|+.+            ++.+|.    .|||+|.-+-.+.+.         +.-..|++-|+|
T Consensus       126 ~~~~~~i~~~~~~~~~~ll~~~------------gv~~i~----Ap~EAdaq~A~L~~~---------g~vd~v~S~DsD  180 (216)
T d1ul1x2         126 TKRLVKVTKQHNDECKHLLSLM------------GIPYLD----APSEAEASCAALVKA---------GKVYAAATEDMD  180 (216)
T ss_dssp             ---CCCCCCSCHHHHHHHHHHH------------TCCEEE----CSSCHHHHHHHHHHH---------TSSSEEECSCTH
T ss_pred             hccCeeccHHHHHHHHHHHHhc------------CeeeEe----ccchHHHHHHHHHhc---------CceEEEEccccc
Confidence            3333433333444444434322            466776    399999887776653         344678999999


Q ss_pred             HHHHH
Q 001223          236 LIMLA  240 (1120)
Q Consensus       236 LImL~  240 (1120)
                      +++.|
T Consensus       181 ~l~fG  185 (216)
T d1ul1x2         181 CLTFG  185 (216)
T ss_dssp             HHHTT
T ss_pred             eeccC
Confidence            99998
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyrococcus furiosus [TaxId: 2261]} Back     information, alignment and structure
>d1a77a2 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d1nc8a_ g.40.1.1 (A:) HIV nucleocapsid {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure