Citrus Sinensis ID: 003880

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-------79
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVL
ccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEEcccccHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccEEEEEccccccccHHHHHHHHHHHHHccccccccccEEEEEccHHHHHHHHHcccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccEEEHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccHHHHHHHHHHHHHHHHccccccccHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccHHHHHHHcccccccccccccccEEcccccccccccEEEcccccHHHHHHHHHHHHccccHHHHHHccccccEEEEEcccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccc
ccHHHHHHHHHHHcccEEEEcHcccccccccEEEEcccccccccccEEccEEEcccccEccccccccccccccHHHHHHHHHHHHHHHHHHccccHEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccccccEEEEEccccccccHHHHHHHHHHHHccccccccccEEEEcccHHHHHHHHHccccccEEEEEEHccccccccccccccccccHHHcccccccccccccccccccccccccEEEEEHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHcHHcccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccHHHEEccccccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHcHccccEEEcccccccHHHHHHHHccHHHcccccHHHHHHcccccccEEEccccccEEccccccccEEEEEEcccccHHHHHHHHHHHcccccHHHHHHccccccEEEEcccccccccHHHHHHHccccccccccccEEEccccccccccEEEEccccccccccccccccccccccccccc
MGVPAFYRWLAEKYPlvvadvieeepvvidgvkipvdtskpnpngleydnlyldmngiihpcfhpedrpapttfDEVFQCMFDYIDRLFVMVRPRKLLYMAIDgvaprakmnqQRSRRFRASKDAADSAAEEERLRQEFERegrklppksdsqvfdsnvitpgtEFMAVLSIALQYYIHLRLNNDPGWEKIKVILsdanvpgegehKIMSYVRLQrnlpgydpntrhclyGLDADLIMLALATHEVHFSILREvvftpgqqdkcflcgqpghlaancegkakrkagefdekgdevvvpkkpyqfLHIWTLREYLdyefripnppfeidlecIVDDFIFMCFfvgndflphmptleIREGAINLLMAVYKKEFRALggyltdgskpslRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKaqarrgddveplaqpdslvpvsrfhgsrlasgpspspyqqsecvgrldngkgtsgrphkvprlssgaTIGAAIVEaensfetdpqeNKEEFKAKLKELLRDKsdafnsdnpeedkvklgepgwkeryyeekfnaktpeereeTRKDVVLRYTEGLCWVMHYYYEGvcswqwfypyhyapfasdlkdldqfnisfelghpfkpfnqllgvfpsasshalpehyrklmtdpnspisdfyptdfevdmngkryswqgiaklpfideARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLShplsasiyTLDEHCKQLKIKERVEVKErlnpelsdgmngyispcagdphppvfrspvasmedimgnqvl
MGVPAFYRWLAEKYPLVVADVIEeepvvidgvkipvdtskpnpNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIdgvaprakmnqqrsrrfraskdaadsaaEEERLRQEferegrklppksdsqvfdSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSdanvpgegEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEfdekgdevvvpkkpyQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGyltdgskpslrRVEHFIQAVGSYEDRIFQKRARLHQRhaerikrekaqarrgddveplaqpdslvPVSRFHGSrlasgpspspyqqsECVGRLDngkgtsgrphkvprlssGATIGAAIVEAensfetdpqenKEEFKAKLKELLRDksdafnsdnpeedkvklgepgwkeryyeekfnaktpeereetrkdVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVL
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQrsrrfraskdaadsaaeeerlrqeferegrKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQenkeefkaklkellRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVL
***PAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVA*************************************************DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCE**************DEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQK*****************************************************************************************************************************************************************DVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSA********Y**********ISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEV********************************************
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPED***PTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADS**********************DSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQD*************************FDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQ**************************************LA*GPS***YQQSECVGRLDNGKGTSGRP***********************ETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQ**
MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPR********************************************QVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEG**************EVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAE***************EPLAQPDSLVPVSRFHG**************SECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENS*********EEFKAKLKELLRDKSDAF***********LGEPGWKERYYEEKFNA**********KDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVL
*GVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCE****************VVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKRE******************************************E*VGRL****GTSGRPHKV************************************************DNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIM*****
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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAxxxxxxxxxxxxxxxxxxxxxGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDxxxxxxxxxxxxxxxxxxxxxRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQVL
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 ?
Query789 2.2.26 [Sep-21-2011]
Q9FQ03 1020 5'-3' exoribonuclease 3 O yes no 0.987 0.763 0.780 0.0
Q9FQ02 1012 5'-3' exoribonuclease 2 O no no 0.970 0.756 0.653 0.0
Q9H0D6 950 5'-3' exoribonuclease 2 O yes no 0.942 0.783 0.482 0.0
Q5R4L5 950 5'-3' exoribonuclease 2 O yes no 0.941 0.782 0.480 0.0
Q9DBR1 951 5'-3' exoribonuclease 2 O yes no 0.908 0.753 0.488 0.0
Q5ZIP4 949 5'-3' exoribonuclease 2 O yes no 0.942 0.783 0.472 0.0
Q2GNZ6 1039 5'-3' exoribonuclease 2 O N/A no 0.942 0.716 0.451 0.0
Q5BFH3 1032 5'-3' exoribonuclease 2 O yes no 0.945 0.722 0.440 0.0
Q4HWE2 980 5'-3' exoribonuclease 2 O yes no 0.946 0.762 0.451 0.0
Q60SG7 976 5'-3' exoribonuclease 2 h N/A no 0.961 0.777 0.459 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 = 1229 bits (3180), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 617/791 (78%), Positives = 693/791 (87%), Gaps = 12/791 (1%)

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 SMEDIMGNQVL 789
            MEDI+ NQV+
Sbjct: 771 GMEDILTNQVI 781
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|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
>sp|Q60SG7|XRN2_CAEBR 5'-3' exoribonuclease 2 homolog OS=Caenorhabditis briggsae GN=xrn-2 PE=3 SV=2 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 ?
Query789
255538898 1113 5'->3' exoribonuclease, putative [Ricinu 1.0 0.708 0.835 0.0
224082986 998 predicted protein [Populus trichocarpa] 1.0 0.790 0.851 0.0
302142638870 unnamed protein product [Vitis vinifera] 0.997 0.904 0.839 0.0
359492219 1065 PREDICTED: 5'-3' exoribonuclease 3-like 0.997 0.738 0.839 0.0
449452066 1101 PREDICTED: 5'-3' exoribonuclease 3-like 0.996 0.713 0.808 0.0
356562399 1065 PREDICTED: 5'-3' exoribonuclease 3-like 0.996 0.738 0.801 0.0
356553393 1075 PREDICTED: 5'-3' exoribonuclease 3-like 0.996 0.731 0.796 0.0
224065931851 predicted protein [Populus trichocarpa] 0.986 0.914 0.820 0.0
242056911 1066 hypothetical protein SORBIDRAFT_03g01004 0.994 0.736 0.803 0.0
414876883 1066 TPA: hypothetical protein ZEAMMB73_40276 0.994 0.736 0.793 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 = 1386 bits (3588), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 668/800 (83%), Positives = 725/800 (90%), Gaps = 11/800 (1%)

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 PPVFRSPVASMEDIMGNQVL 789
           PP+FRSPVA MEDI+ N V+
Sbjct: 781 PPIFRSPVAGMEDILDNGVI 800

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>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|359492219|ref|XP_002280236.2| PREDICTED: 5'-3' exoribonuclease 3-like [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|224065931|ref|XP_002301985.1| predicted protein [Populus trichocarpa] gi|222843711|gb|EEE81258.1| predicted protein [Populus trichocarpa] 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|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 ?
Query789
TAIR|locus:2005614 1020 XRN3 "5'-3' exoribonuclease 3" 0.986 0.762 0.736 0.0
TAIR|locus:2020073 947 XRN4 "exoribonuclease 4" [Arab 0.541 0.450 0.631 1.4e-227
UNIPROTKB|Q9H0D6 950 XRN2 "5'-3' exoribonuclease 2" 0.631 0.524 0.486 2.6e-184
UNIPROTKB|E2RMS9 950 XRN2 "Uncharacterized protein" 0.631 0.524 0.490 3.3e-184
UNIPROTKB|Q5R4L5 950 XRN2 "5'-3' exoribonuclease 2" 0.666 0.553 0.468 6.8e-184
UNIPROTKB|F1MKX7 951 XRN2 "Uncharacterized protein" 0.600 0.498 0.497 8.7e-184
UNIPROTKB|F1SAU5 950 XRN2 "Uncharacterized protein" 0.629 0.523 0.489 1.4e-183
RGD|1310218 951 Xrn2 "5'-3' exoribonuclease 2" 0.631 0.523 0.484 6.1e-183
MGI|MGI:894687 951 Xrn2 "5'-3' exoribonuclease 2" 0.631 0.523 0.484 9.9e-183
UNIPROTKB|Q5ZIP4 949 XRN2 "5'-3' exoribonuclease 2" 0.569 0.473 0.504 3e-181
TAIR|locus:2005614 XRN3 "5'-3' exoribonuclease 3" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 3125 (1105.1 bits), Expect = 0., P = 0.
 Identities = 583/792 (73%), Positives = 653/792 (82%)

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 ASMEDIMGNQVL 789
               MEDI+ NQV+
Sbjct:   770 EGMEDILTNQVI 781
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|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
UNIPROTKB|Q5R4L5 XRN2 "5'-3' exoribonuclease 2" [Pongo abelii (taxid:9601)] Back     alignment and assigned GO terms
UNIPROTKB|F1MKX7 XRN2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SAU5 XRN2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
RGD|1310218 Xrn2 "5'-3' exoribonuclease 2" [Rattus norvegicus (taxid:10116)] 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

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, ., -0.78000.98730.7637yesno

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

Fail to connect to STRING server

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 ?
Query789
COG5049 953 COG5049, XRN1, 5'-3' exonuclease [DNA replication, 0.0
pfam03159237 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus 1e-147
smart0034317 smart00343, ZnF_C2HC, zinc finger 0.002
pfam0009818 pfam00098, zf-CCHC, Zinc knuckle 0.003
>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 =  714 bits (1845), Expect = 0.0
 Identities = 322/763 (42%), Positives = 430/763 (56%), Gaps = 63/763 (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-LSASIYTLDEHCKQ 736
               TL+EEE +RN    D+LF       LS     L   CKQ
Sbjct: 685 VKYPTLSEEERKRNLRGLDLLFSSNKKSDLSELFKDLYSKCKQ 727

Length = 953
>gnl|CDD|202558 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus Back     alignment and domain information
>gnl|CDD|197667 smart00343, ZnF_C2HC, zinc finger Back     alignment and domain information
>gnl|CDD|189387 pfam00098, zf-CCHC, Zinc knuckle Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 789
KOG2044 931 consensus 5'-3' exonuclease HKE1/RAT1 [Replication 100.0
COG5049 953 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 98.59
PTZ00217393 flap endonuclease-1; Provisional 98.24
PRK03980292 flap endonuclease-1; Provisional 97.41
TIGR03674338 fen_arch flap structure-specific endonuclease. End 97.07
smart00475259 53EXOc 5'-3' exonuclease. 95.84
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 94.94
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 94.87
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 94.44
PRK14976281 5'-3' exonuclease; Provisional 93.74
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 92.44
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 92.34
KOG2519449 consensus 5'-3' exonuclease [Replication, recombin 89.88
PRK05755 880 DNA polymerase I; Provisional 88.7
KOG2518556 consensus 5'-3' exonuclease [Replication, recombin 88.6
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 86.51
PF1369632 zf-CCHC_2: Zinc knuckle 80.09
>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=2.4e-260  Score=2157.65  Aligned_cols=737  Identities=62%  Similarity=1.037  Sum_probs=663.7

Q ss_pred             CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHHH
Q 003880            1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQC   80 (789)
Q Consensus         1 MGVP~ffrWL~~ryP~ii~~~~e~~~~~~~g~~~p~d~s~pnpn~~e~DnLYlDmNgIIH~c~h~~~~~~p~t~~e~~~~   80 (789)
                      ||||+|||||++|||++|++|+|++|+++||+.||+|.|+|||||+||||||||||||||||+|||++|+|+||+|||.+
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             HHHHHHHHHhhccccceEEEeecCCCcchhhHHHhhhhccchhHHHhHHHHHHHHHHHHHHhCCCCCCCCCCCCCccCcc
Q 003880           81 MFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVI  160 (789)
Q Consensus        81 if~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~fDsn~I  160 (789)
                      ||+||||||.||||||||||||||||||||||||||||||||+|+.++++++++++++++++|..||++.++++||||||
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 003880          161 TPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA  240 (789)
Q Consensus       161 TPGT~FM~~L~~~L~~~i~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~~dpn~~H~IyG~DADLImL~  240 (789)
                      ||||+||++|+.+|+|||+.||++||+|+||+||+|||+||||||||||+|||+||++|+|||||+|||||+||||||||
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             hhcCCceEEEeecccccCCCCccccccCCCCCcccccccccccccCCCCcCCCccccCCCCceEeeHHHHHHHHHHHhcC
Q 003880          241 LATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRI  320 (789)
Q Consensus       241 Lathe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~k~k~~~~~~~~~~~~~~~~~f~~l~i~~LReyL~~e~~~  320 (789)
                      ||||||||+||||+|| |+++++|++|||.||.+.+|.|..+  .++.++..+.. ..+++|+|||||+|||||+.||.+
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  45555554433 678999999999999999999999


Q ss_pred             CCCCCccchhhhhhHHHHHhhhccCCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHHHhh
Q 003880          321 PNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSY  400 (789)
Q Consensus       321 ~~~~~~~d~eriIDDfVfLcf~vGNDFLPhlp~l~I~~g~id~L~~~Yk~~l~~~~gYLt~~G~inl~rl~~fl~~l~~~  400 (789)
                      |++||.||+||+||||||||||||||||||||||+||+||||+|+++||+.+++|+||||++|.+||.||+.||+.||.+
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 003880          401 EDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRP  480 (789)
Q Consensus       401 E~~iF~~r~~~~~r~~e~~k~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  480 (789)
                      ||+||++|.    |++|+++|+|+..++.+..+            +++| .+.+...+....             .+...
T Consensus       397 Ed~IFkkR~----r~~e~frrrk~~rk~~~~~~------------~~sg-~~~~~~~~~~~~-------------~~~p~  446 (931)
T KOG2044|consen  397 EDDIFKKRQ----RREERFRRRKAARKRQDRNA------------QDSG-TNFSLAGSRELE-------------ASEPA  446 (931)
T ss_pred             cchHHHHhH----hHHHHHHHhhhhhhhhhhhc------------cccc-cccccccccccc-------------ccchh
Confidence            999999994    45566665544322221111            1111 111111111000             12233


Q ss_pred             CCccccCCCcchhhHHHhhhcCCCCCCcccHHHHHHHHHHHHhhhcccCCCCCcchhhcccCCCchhHHHHHHhcCCCCh
Q 003880          481 HKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTP  560 (789)
Q Consensus       481 ~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~l~e~g~k~rYY~~Kf~~~~~  560 (789)
                      +++.+++...+.++++++         .++.++++.+++...+++++.+.++....|+|+|||+|||+|||++||++++.
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            445555555566666552         23456677777777788888888888999999999999999999999999876


Q ss_pred             hHHHHHHHHHHHHHHhHHHHHhhhhhcCcccccccccCCCCccccccccccCccccccCCCCCChhhhhhhcCCCCCCCC
Q 003880          561 EEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHA  640 (789)
Q Consensus       561 ~~~~~~~~~v~~~YveGL~WVL~YYy~Gc~SW~WyYPyHYAPfasDl~~l~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~  640 (789)
                      +  +++|++||.+|||||||||+||||||+||+||||||||||||||++|..++|+|++|+||+||||||+||||||+|+
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             CcHHHHhhhcCCCCCCcccCCCcccccCCCCccccceeeeccCCChHHHHHHHhhccCCCCHHHHhhccCCCceEEEecC
Q 003880          641 LPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLS  720 (789)
Q Consensus       641 LP~~~~~LM~d~~SpI~dfYP~~F~iD~nGkk~~WqgV~lLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~  720 (789)
                      ||+.||.||+||+|||+||||+||+||||||||+||||||||||||+|||+|++++|++||+||++||+.|.|+|||+++
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             CCcchhhhhhhhhhhhhchhhhhhhccccCCCCCCCcceeeecCCCCCCCCccccCCCCCCCCCCCc
Q 003880          721 HPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVASMEDIMGNQ  787 (789)
Q Consensus       721 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~g~~g~v~~~~~~~~~~~~~~p~~~~~~i~~~~  787 (789)
                      ||+++++.+||..+++ ...++    +.+-..++.|++|.+++++.....+.+++|+.++.+...+.
T Consensus       676 hp~~e~i~~lysk~k~-~~~~~----v~~~~~~~p~~~~~~~~~~~~~~~~i~~~p~~~~~~~~~~~  737 (931)
T KOG2044|consen  676 HPLFEFILQLYSKKKK-SNEKN----VKLAHGVDPGLNGAISKDPEGLESGISKSPPGGLSDYNTNT  737 (931)
T ss_pred             CchHHHHHHHHHhhcc-Ccccc----cccccccCcccceeeccCccccccccccCChhhcccCCccc
Confidence            9999999999887765 22221    24555567799999999887766677888888777666554

>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
>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>TIGR03674 fen_arch flap structure-specific endonuclease 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
>smart00485 XPGN Xeroderma pigmentosum G N-region 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
>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
>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
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair] Back     alignment and domain information
>PRK05755 DNA polymerase I; Provisional Back     alignment and domain information
>KOG2518 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
>PF13696 zf-CCHC_2: Zinc knuckle 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 ?
Query789
3fqd_A899 Crystal Structure Of The S. Pombe Rat1-Rai1 Complex 1e-160
3pie_A 1155 Crystal Structure Of The 5'->3' Exoribonuclease Xrn 1e-73
3pie_A 1155 Crystal Structure Of The 5'->3' Exoribonuclease Xrn 3e-39
2y35_A 1140 Crystal Structure Of Xrn1-Substrate Complex Length 7e-73
2y35_A 1140 Crystal Structure Of Xrn1-Substrate Complex Length 3e-40
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex Length = 899 Back     alignment and structure 
Iteration: 1

 Score =  563 bits (1450), Expect = e-160,   Method: Compositional matrix adjust.
 Identities = 330/819 (40%), Positives = 444/819 (54%), Gaps = 79/819 (9%)
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 SASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYIS 762
                   E  KQL  K+R     +L+ + + G+ G ++
Sbjct: 769 -----XFSELVKQLYSKKRQGKPLKLSGKXAHGLFGKVN 802
>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 ?
Query789
3fqd_A899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 0.0
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 0.0
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 3e-94
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 2e-59
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-09
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 3e-05
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 2e-04
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 4e-04
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 7e-04
>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 =  630 bits (1624), Expect = 0.0
 Identities = 334/854 (39%), Positives = 464/854 (54%), Gaps = 85/854 (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 --ASMEDIMGNQVL 789
                  I  NQ +
Sbjct: 824 ALQKYGSIDDNQSI 837
>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
>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
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 63 Back     alignment and structure
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A Length = 60 Back     alignment and structure
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus} Length = 61 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query789
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 98.52
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 98.36
1rxw_A336 Flap structure-specific endonuclease; helical clam 98.24
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 98.08
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 97.97
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 97.67
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 97.53
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 97.46
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 96.37
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 88.87
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 88.8
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 87.92
1u6p_A56 GAG polyprotein; MLV, A-minor K-turn, stem loop, b 82.55
>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=4.9e-229  Score=1974.61  Aligned_cols=767  Identities=44%  Similarity=0.760  Sum_probs=602.3

Q ss_pred             CcchhHHHHHHhhCCcccccccccCcccc-CCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHH
Q 003880            1 MGVPAFYRWLAEKYPLVVADVIEEEPVVI-DGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQ   79 (789)
Q Consensus         1 MGVP~ffrWL~~ryP~ii~~~~e~~~~~~-~g~~~p~d~s~pnpn~~e~DnLYlDmNgIIH~c~h~~~~~~p~t~~e~~~   79 (789)
                      ||||+|||||++|||+|+++|+|+.|..+ ||..+|+|+++|||||.+|||||||||||||+|+|+++.+.+.|+++||.
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             HHHHHHHHHHhhccccceEEEeecCCCcchhhHHHhhhhccchhHHHhHHHHHHHHHHHHHHhCCCCCCC--CCCCCCcc
Q 003880           80 CMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPK--SDSQVFDS  157 (789)
Q Consensus        80 ~if~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~l~~~~~~~g~~~~~~--~~~~~fDs  157 (789)
                      +||+|||+||++|||||+||||||||||||||||||+||||+|++++++..+.+++++++.++| .+++.  ...+.|||
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            9999999999999999999999999999999999999999999999998877788888888888 33321  23578999


Q ss_pred             CcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHH
Q 003880          158 NVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLI  237 (789)
Q Consensus       158 n~ITPGT~FM~~L~~~L~~~i~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~~dpn~~H~IyG~DADLI  237 (789)
                      |||||||+||.+|+.+|+|||+.||++||+|++++|||||++||||||||||+|||+||++|+|||||+|||||+|||||
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             HHHhhcCCceEEEeecccccCCCCccccccCCCCCcccccccccccccCCCCcCCCccccCCCCceEeeHHHHHHHHHHH
Q 003880          238 MLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYE  317 (789)
Q Consensus       238 mL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~k~k~~~~~~~~~~~~~~~~~f~~l~i~~LReyL~~e  317 (789)
                      ||||+||||||+||||+|+++.        +|.||.+.+|.|..+.  ++++++.  .....++|+||||++|||||..|
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            9999999999999999998754        6889999999997665  4444432  23456889999999999999999


Q ss_pred             hcCCCCCCccchhhhhhHHHHHhhhccCCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHH
Q 003880          318 FRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAV  397 (789)
Q Consensus       318 ~~~~~~~~~~d~eriIDDfVfLcf~vGNDFLPhlp~l~I~~g~id~L~~~Yk~~l~~~~gYLt~~G~inl~rl~~fl~~l  397 (789)
                      |.++++||++|+||+||||||||||||||||||||+|+|++|||+.|+.+||+.|+++|||||++|+||++||+.||+.|
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 003880          398 GSYEDRIFQKRARLHQRHAERIKREKAQARRGDDV------EPL--AQPDSL---VP-------VSRFHGSRLASGPSPS  459 (789)
Q Consensus       398 ~~~E~~iF~~r~~~~~r~~e~~k~~k~~~~~~~~~------~~~--~~~~~~---~~-------~~~~~~~~l~~~~~~~  459 (789)
                      |++|++||++|.+.++++.++.||++.+.++....      ...  ..+...   .+       .....+......+...
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            99999999999998887777777665543221110      000  000000   00       0000000000000000


Q ss_pred             ccccccccccccCC----CCCCCCCCCc--cc-------cCCCcchhhHHHhhhc-------CCCCCCcccH--------
Q 003880          460 PYQQSECVGRLDNG----KGTSGRPHKV--PR-------LSSGATIGAAIVEAEN-------SFETDPQENK--------  511 (789)
Q Consensus       460 ~~~~~~~~~~~~~~----~~~~~~~~k~--~~-------~~~~~~~~~~~~~~~~-------~~~~~~~~~~--------  511 (789)
                      +.... ..+.....    .......+.+  +.       .+..+..+++.++...       ....++..+.        
T Consensus       471 ~~~~~-~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~n~~~a~~lk~~l~~~~~~~~~~~~~~~~~~~~~e~~~  549 (899)
T 3fqd_A          471 DLVNL-SEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQNVPLEDSIASSSAYEDTD  549 (899)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccc-cccccccchhhhhhhhhhcchhhhhhhhhhhhhhcccchhHHHHHHHHhhcccccccccccccccccccccccc
Confidence            00000 00000000    0000000000  00       0000001111111100       0000000000        


Q ss_pred             -HHHHHHHHHHHhh-------hcc--cCCCCCcchhhcccCCCchhHHHHHHhcCCCChhHHHHHHHHHHHHHHhHHHHH
Q 003880          512 -EEFKAKLKELLRD-------KSD--AFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWV  581 (789)
Q Consensus       512 -~~~~~~~~~~~~~-------~~~--~~~~~~~~~d~v~l~e~g~k~rYY~~Kf~~~~~~~~~~~~~~v~~~YveGL~WV  581 (789)
                       .+......+.+.+       .+.  ....+.+.+|.|+||++|||+|||++|||++..+  ++++++||++||||||||
T Consensus       550 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~l~e~g~K~rYY~~KF~~~~~d--~e~~~~v~~~YvEGL~WV  627 (899)
T 3fqd_A          550 SIESSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYEPGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWV  627 (899)
T ss_dssp             -----------------------------------CCSCTTSTTHHHHHHHHTSCCCTTC--THHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhhhccccccccccccccccccccchhhhhhcccchHHHHHHHhcCCCCCC--HHHHHHHHHHHHHHHHHH
Confidence             0000000000000       000  0001122568899999999999999999997544  478999999999999999


Q ss_pred             hhhhhcCcccccccccCCCCccccccccccCccccccCCCCCChhhhhhhcCCCCCCCCCcHHHHhhhcCCCCCCcccCC
Q 003880          582 MHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYP  661 (789)
Q Consensus       582 L~YYy~Gc~SW~WyYPyHYAPfasDl~~l~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~LP~~~~~LM~d~~SpI~dfYP  661 (789)
                      |+|||||||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++||+||+||+|||+||||
T Consensus       628 L~YYYqGc~SW~WyYPYHYAPfaSD~~~~~~~~i~Fe~G~PF~PfEQLMaVLPaaS~~~LP~~y~~LMtdp~SpIiDFYP  707 (899)
T 3fqd_A          628 LLYYYQGCPSWTWYYPYHYAPFAADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYP  707 (899)
T ss_dssp             HHHHHTCCSCSSCCCCCSSCCCGGGCCSCTTCCCCCCCCCCCCHHHHHHHHCCGGGGGGSCHHHHHHHHCTTCTTGGGCC
T ss_pred             HHHHhCCCCCCcccCcccccchHHHHhhcccCceecCCCCCCChHHHHHhhcCHhhhCcccHHHHHHhcCCCCcchhhCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcccccCCCCccccceeeeccCCChHHHHHHHhhccCCCCHHHHhhccCCCceEEEecCCCcchhhhhhhhhhhhhchhh
Q 003880          662 TDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKE  741 (789)
Q Consensus       662 ~~F~iD~nGkk~~WqgV~lLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~~~l~~~~~~l~~~~~~~~~~~  741 (789)
                      ++|+|||||||++||||||||||||+|||+||++++++||+||++||++|.++||++++||+++.      .++.+|+++
T Consensus       708 ~dFeiDmNGKk~~WqgVvlLPFIDE~RLL~A~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~------~~~~~y~~~  781 (899)
T 3fqd_A          708 ENFTIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSE------LVKQLYSKK  781 (899)
T ss_dssp             SCCCEECSSSSCTTSSEECCCCCCHHHHHHHHHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHH------HHHHHTSSS
T ss_pred             ccccccCCCCccccceEEecCccCHHHHHHHHHHhhccCCHHHHHhccCCCcEEEEeCCCchHHH------HHHHhcccc
Confidence            99999999999999999999999999999999999999999999999999999999999999864      445667666


Q ss_pred             hhhhccccCCCCCCCcceeeecCCCCCCCCccccCCC--CCCC------CCCCccC
Q 003880          742 RVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVA--SMED------IMGNQVL  789 (789)
Q Consensus       742 ~~~~~~~~~~~~~~g~~g~v~~~~~~~~~~~~~~p~~--~~~~------i~~~~~~  789 (789)
                      +...+++|||++|+||+|+|++++.+++++++.|||.  +|||      |.+|++|
T Consensus       782 ~~~~~~~~~~~~s~gl~G~v~~~~~~~p~~~~~sP~~~~~~~~~~~~~~i~~n~~~  837 (899)
T 3fqd_A          782 RQGKPLKLSGKMAHGLFGKVNTNDSVIPNVSVQCPIDVTSADALQKYGSIDDNQSI  837 (899)
T ss_dssp             CSSSCEECCGGGGTTCCSEEEECTTSCSCCCBCCSSCCCSHHHHHHSCCBSSCCEE
T ss_pred             ccCcccccCcccccCcceEEEeCCCcCCCCeecCCCCccCCCCccccccccCCcEE
Confidence            6666788999999999999999999999999999998  9999      9999975
>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
>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
>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
>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
>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
>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
>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
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A 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 789
d1nc8a_29 g.40.1.1 (A:) HIV nucleocapsid {Human immunodefici 4e-04
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 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 = 35.9 bits (83), Expect = 4e-04
 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
>d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} Length = 42 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 ?
Query789
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 97.39
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 96.32
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 95.91
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 94.23
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 92.88
>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=97.39  E-value=9.1e-05  Score=72.68  Aligned_cols=179  Identities=14%  Similarity=0.134  Sum_probs=88.6

Q ss_pred             cchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCC---CCCCCCCH---H
Q 003880            2 GVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPE---DRPAPTTF---D   75 (789)
Q Consensus         2 GVP~ffrWL~~ryP~ii~~~~e~~~~~~~g~~~p~d~s~pnpn~~e~DnLYlDmNgIIH~c~h~~---~~~~p~t~---~   75 (789)
                      ||.++..+|.+.-|.+++.+-=   ....|                 --|=||.+..+|.+....   ..+-....   .
T Consensus         1 GIkgL~~~l~~~~~~~i~~~~l---~~l~g-----------------k~vaIDas~~l~~~l~~~~~~~~~l~~~~~~~~   60 (216)
T d1ul1x2           1 GIQGLAKLIADVAPSAIRENDI---KSYFG-----------------RKVAIDASMSIYQFLIAVRQGGDVLQNEEGETT   60 (216)
T ss_dssp             CCTTHHHHHHTTCTTSCCEECG---GGGTT-----------------CCEEEEHHHHHHHHHSCC-------------CC
T ss_pred             CcchHHHHHHHhCcCceEEecH---HHcCC-----------------CEEEEEeHHHHHHHHHHhccccchhhccCCCCc
Confidence            9999999999999988764310   01111                 267889999998743221   10100000   1


Q ss_pred             HHHHHHHHHHHHHHhhccccceEEEeecCCCcchhhHHHhhhhccchhHHHhHHHHHHHHHHHHHHhCCCCCCCCCCCCC
Q 003880           76 EVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVF  155 (789)
Q Consensus        76 e~~~~if~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~f  155 (789)
                      .-+..+|..+..|..   =.=..++.+||-+|-.|..+...||-+.....+...    ..+    ..+.    ......+
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   122346889999998888776655543221110000    000    0000    0011122


Q ss_pred             ccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChh
Q 003880          156 DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDAD  235 (789)
Q Consensus       156 Dsn~ITPGT~FM~~L~~~L~~~i~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~~dpn~~H~IyG~DAD  235 (789)
                      ....++..+.....+.+.|+.+            ++.+|.    .|||||.-+-.+.+.         +.-..|+|.|+|
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            3333333333344444434322            456665    399999887766653         345678999999


Q ss_pred             HHHHH
Q 003880          236 LIMLA  240 (789)
Q Consensus       236 LImL~  240 (789)
                      +++.|
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