Citrus Sinensis ID: 004706

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----
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTIVGASKAGRGHKCLEP
ccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccEEEEcccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccEEEEEccccccccHHHHHHHHHHHHHccccccccccEEEEEccHHHHHHHHHccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccEEEEEHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHcccccccccEEEEcccHHHHHHHHHHHHHHHcccccccccEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEccccccccccccccccccccccccccccccHHHHHHHccccccccccHHHHHHHHccccccccccccccccccccccccccccEEEcccccHHHHHHHHHHHHccccHHHHHHccccccEEEEcccccccHHHHHHHcccccccccccccEEEccccccccccEEEcccccccccccccccccccccccccEEEEEEEccccccccccccccccccccccccccccccccccccc
cccHHHHHHHHHHcccEEEEEEEcccccccccEEEEcccccccccccccccEEEccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHcHcHEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccEEEEEEccccccccHHHHHHHHHHHHccccccccccEEEEcccHHHHHHHHHcccccEEEEEEEEEcccccccccccccccccHHHccccccccccccccccccccccccEEEEEHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHcccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEccccccccHHHHccHccccEEEcccccccHHHHHHHHccHHcHHcccHHHHHHcccccccHHHccccccEEccccccccEEEEEEcccccHHHHHHHHHHHcccccHHHHHHccccccEEEEccccccHHHHHHHHHHcccccccccccccccccccccccEEEEcccccccccccccccccccccccccEEEEEEEcccccccccccccccEEccccccccccccccHccccc
MGVPAFYRWladryplsivdvveedpqvdgegvarpvdvskpnpngmefdnlyldmngiihpcfhpdgkpaptsydDVFKSIFDYIDHIFLLVRPRKLLYLAIdgvaprakmnQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLlsakekpetcdsnvitpgTQFMAVLSAALQYFIQARLnqipgwqftkvilsdanvpgegeHKIMSYIRLQrnlpgfdpntrhclyGLDADLIMLSLATHEIHFSILREVitlpgqqekcfvcgqvghlaaechgkpgdnpadwngvddtpihkkkyqFLNIWVLREYLQYeldipnppfpinferIVDDFVFLCFfvgndflphmptleIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPvavadtvklgepgykeryyadkfeisnpeeidkVKKDVVLKYVEGLCWVCRYYYQdvcswqwfypyhyapfasdlkdlsdleitfflgepfrpfdqlmgtlpaasssalpekyrnlmtdpsspiykfyppdfqidmngkrfawqgvvklpfidEKLLLRQTKKLEVFLTEEELFRNSVMLDLlyvhpqhplyQQITLYCQLyhqlppqdrfaweidvnasggmngYIWLCErnglrsiipspvkglpdiernqainvtylnpqkhrhipeppkgatipaktivgaskagrghkclep
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEgvarpvdvskpnpnGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDgvaprakmnqqrTRRFRAAKDAAEAEAEEERLRKEFEEAgkllsakekpetcdsNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPvavadtvklgepgykeryyadkfeisnpeeidkvkkdvVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRhipeppkgatipaktivgaskagrghkclep
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTrrfraakdaaeaeaeeerlrkefeeaGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIdkvkkdvvlkyvEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTIVGASKAGRGHKCLEP
***PAFYRWLADRYPLSIVDVVE************************EFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVA***************************************************NVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEA*************LQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTL*********************PIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYL*************************************
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKM*******************************************CDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQE******************************DTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTI*********H*****
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPR***************************RKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTIVG*************
*GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHL*AECH***************TPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMK********************TVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTIVGASKAGRGHKCL**
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRxxxxxxxxxxxxxxxxxxxxxxxxxxxxLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTIVGASKAGRGHKCLEP
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 ?
Query734 2.2.26 [Sep-21-2011]
Q9FQ04 947 5'-3' exoribonuclease 4 O yes no 0.971 0.752 0.766 0.0
Q9FQ02 1012 5'-3' exoribonuclease 2 O no no 0.975 0.707 0.516 0.0
Q9VM71 908 5'-3' exoribonuclease 2 h yes no 0.935 0.756 0.463 0.0
Q9H0D6 950 5'-3' exoribonuclease 2 O yes no 0.940 0.726 0.423 1e-158
Q5R4L5 950 5'-3' exoribonuclease 2 O yes no 0.937 0.724 0.424 1e-157
Q9FQ03 1020 5'-3' exoribonuclease 3 O no no 0.598 0.430 0.654 1e-157
Q9DBR1 951 5'-3' exoribonuclease 2 O yes no 0.562 0.434 0.550 1e-129
Q5ZIP4 949 5'-3' exoribonuclease 2 O yes no 0.553 0.427 0.557 1e-129
Q9U299 975 5'-3' exoribonuclease 2 h yes no 0.569 0.428 0.542 1e-125
Q4P149 1233 5'-3' exoribonuclease 2 O N/A no 0.607 0.361 0.496 1e-125
>sp|Q9FQ04|XRN4_ARATH 5'-3' exoribonuclease 4 OS=Arabidopsis thaliana GN=XRN4 PE=2 SV=1 Back     alignment and function desciption
 Score = 1139 bits (2945), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 552/720 (76%), Positives = 619/720 (85%), Gaps = 7/720 (0%)

Query: 1   MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGII 60
           MGVPAFYRWLADRYP SI DVVEE+P   G G   PVD+++PNPNG EFDNLYLDMNGII
Sbjct: 1   MGVPAFYRWLADRYPKSISDVVEEEPTDGGRGDLIPVDITRPNPNGFEFDNLYLDMNGII 60

Query: 61  HPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRF 120
           HPCFHP+GKPAP +YDDVFKS+F+YIDH+F LVRPRK+LYLAIDGVAPRAKMNQQR+RRF
Sbjct: 61  HPCFHPEGKPAPATYDDVFKSMFEYIDHLFTLVRPRKILYLAIDGVAPRAKMNQQRSRRF 120

Query: 121 RAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQ 180
           RAAKDAAEAEAEEERLRK+FE  G++LSAKEK ETCDSNVITPGT FMA+LS ALQY+IQ
Sbjct: 121 RAAKDAAEAEAEEERLRKDFEMEGQILSAKEKAETCDSNVITPGTPFMAILSVALQYYIQ 180

Query: 181 ARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML 240
           +RLN  PGW++ KVILSD+NVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML
Sbjct: 181 SRLNHNPGWRYVKVILSDSNVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML 240

Query: 241 SLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKK 300
           SLATHE+HFSILREVIT PGQQEKCFVCGQ GH A++C GK G N    N   D PIHKK
Sbjct: 241 SLATHEVHFSILREVITYPGQQEKCFVCGQTGHFASDCPGKSGSN----NAAADIPIHKK 296

Query: 301 KYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGA 360
           KYQFLNIWVLREYLQYEL IP+PPF INFERI+DDFVFLCFFVGNDFLPHMPTLEIREGA
Sbjct: 297 KYQFLNIWVLREYLQYELAIPDPPFMINFERIIDDFVFLCFFVGNDFLPHMPTLEIREGA 356

Query: 361 INLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEA 420
           INLLMHVYR+EFTAMGGYLTD+GEVLLDRVE FIQ+VAV ED+IFQKRTRI+Q+ + NE 
Sbjct: 357 INLLMHVYRKEFTAMGGYLTDSGEVLLDRVEHFIQAVAVNEDKIFQKRTRIKQSMDNNEE 416

Query: 421 MKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYV 480
           MK  +RR+ SE     P  + D +KLGEPGYKERYYA+KF  +NPEE +++K+D+VLKYV
Sbjct: 417 MKQRSRRDPSE---VPPEPIDDKIKLGEPGYKERYYAEKFSTTNPEETEQIKQDMVLKYV 473

Query: 481 EGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPA 540
           EGLCWVCRYYYQ VCSWQWFYPYHYAPFASDLK+L DLEITFF+GEPF+PFDQLMGTLPA
Sbjct: 474 EGLCWVCRYYYQGVCSWQWFYPYHYAPFASDLKNLPDLEITFFIGEPFKPFDQLMGTLPA 533

Query: 541 ASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKK 600
           ASS+ALP +YR LMTDPSSPI KFYP DF++DMNGKRFAWQG+ KLPFI+EKLLL  T+K
Sbjct: 534 ASSNALPGEYRKLMTDPSSPILKFYPADFELDMNGKRFAWQGIAKLPFIEEKLLLAATRK 593

Query: 601 LEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGM 660
           LE  LT EE  RNSVMLDLLYVHP HPL Q+I  Y   Y  +PP +   W ID N+S GM
Sbjct: 594 LEETLTVEEQQRNSVMLDLLYVHPAHPLGQRILQYYHFYQHMPPHECLPWMIDPNSSQGM 653

Query: 661 NGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTIV 720
           NG++W  ERNG ++ + SPV GLP IE+N+A+NVTYL P KH HI EPP+GA IP K + 
Sbjct: 654 NGFLWFSERNGFQTRVDSPVNGLPCIEQNRALNVTYLCPAKHSHISEPPRGAIIPDKILT 713
Possesses 5'->3' exoribonuclease activity. Acts as an endogenous post-transcriptional gene silencing (PTGS) suppressor. Degrades miRNA target cleavage products that lack a 5'-cap structure. Antagonizes the negative feedback regulation on EIN3 by promoting EBF1 and EBF2 mRNA decay, which consequently allows the accumulation of EIN3 protein to trigger the ethylene response.
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|Q9VM71|XRN2_DROME 5'-3' exoribonuclease 2 homolog OS=Drosophila melanogaster GN=Rat1 PE=1 SV=2 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|Q9FQ03|XRN3_ARATH 5'-3' exoribonuclease 3 OS=Arabidopsis thaliana GN=XRN3 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|Q9U299|XRN2_CAEEL 5'-3' exoribonuclease 2 homolog OS=Caenorhabditis elegans GN=xrn-2 PE=3 SV=2 Back     alignment and function description
>sp|Q4P149|XRN2_USTMA 5'-3' exoribonuclease 2 OS=Ustilago maydis (strain 521 / FGSC 9021) 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 ?
Query734
255542378 964 5'->3' exoribonuclease, putative [Ricinu 0.975 0.742 0.801 0.0
224131346 948 predicted protein [Populus trichocarpa] 0.975 0.755 0.791 0.0
224123332 965 predicted protein [Populus trichocarpa] 0.975 0.741 0.777 0.0
359487905 950 PREDICTED: 5'-3' exoribonuclease 4-like 0.959 0.741 0.789 0.0
15221841 947 5'-3' exoribonuclease 4 [Arabidopsis tha 0.971 0.752 0.766 0.0
356505926 960 PREDICTED: 5'-3' exoribonuclease 4-like 0.970 0.741 0.781 0.0
356573066 957 PREDICTED: 5'-3' exoribonuclease 4-like 0.967 0.741 0.776 0.0
356576739 931 PREDICTED: 5'-3' exoribonuclease 4-like 0.967 0.762 0.759 0.0
307136058 934 5'-3' exoribonuclease [Cucumis melo subs 0.933 0.733 0.759 0.0
357512203 956 5'-3' exoribonuclease [Medicago truncatu 0.971 0.745 0.766 0.0
>gi|255542378|ref|XP_002512252.1| 5'->3' exoribonuclease, putative [Ricinus communis] gi|223548213|gb|EEF49704.1| 5'->3' exoribonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
 Score = 1197 bits (3097), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 576/719 (80%), Positives = 629/719 (87%), Gaps = 3/719 (0%)

Query: 1   MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGII 60
           MGVPAFYRWLADRYPL+IVDVVEE+P+ D  GV  P+D+SKPNPNG+EFDNLYLDMNGII
Sbjct: 1   MGVPAFYRWLADRYPLAIVDVVEEEPKEDSNGVIGPIDISKPNPNGLEFDNLYLDMNGII 60

Query: 61  HPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRF 120
           HPCFHPDGKP P +YDDVFKSIFDYIDH+F LVRPRKLL++AIDGVAPRAKMNQQR+RRF
Sbjct: 61  HPCFHPDGKPPPPTYDDVFKSIFDYIDHLFTLVRPRKLLFMAIDGVAPRAKMNQQRSRRF 120

Query: 121 RAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQ 180
           RAAKDAAEAEAEEERLRKEFE  GKLLS KEKPET DSNVITPGTQFMAVLS  LQY++Q
Sbjct: 121 RAAKDAAEAEAEEERLRKEFEAEGKLLSPKEKPETSDSNVITPGTQFMAVLSTGLQYYVQ 180

Query: 181 ARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML 240
            RLN  PGW++TKVILSDANVPGEGEHK+MSYIRLQRNL GF+PNTRHCLYGLDADLIML
Sbjct: 181 MRLNHNPGWKYTKVILSDANVPGEGEHKVMSYIRLQRNLSGFNPNTRHCLYGLDADLIML 240

Query: 241 SLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKK 300
           +LATHEIHFSILRE++T PGQQEKCF CGQ GHLAA+C GKPGDNP DWN  DD PIHKK
Sbjct: 241 ALATHEIHFSILREMVTFPGQQEKCFSCGQTGHLAADCRGKPGDNPLDWNVEDDVPIHKK 300

Query: 301 KYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGA 360
           KYQFLNIWVLREYLQYELD+PNPP  INFERI+DDFVFLCFFVGNDFLPHMPTLEIREGA
Sbjct: 301 KYQFLNIWVLREYLQYELDVPNPPLEINFERILDDFVFLCFFVGNDFLPHMPTLEIREGA 360

Query: 361 INLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEA 420
           INLLMHVYRREF+AMGGYLTDAGEV LDRVE FIQSVA+YE+QIFQKRTRIQQ  E NE 
Sbjct: 361 INLLMHVYRREFSAMGGYLTDAGEVNLDRVEHFIQSVAIYEEQIFQKRTRIQQFLENNEE 420

Query: 421 MKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYV 480
           M+L ARRESSEE +Q P    D VKLGEPGYKERYYA+KF ++ P+EIDKV+ DVVLKYV
Sbjct: 421 MRLKARRESSEE-IQTP--AVDKVKLGEPGYKERYYAEKFGLTTPDEIDKVRNDVVLKYV 477

Query: 481 EGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPA 540
           EGLCWVCRYYYQ VCSWQWFYPYHYAPFASDLK L+DLEITFFLGEPF+PFDQLMGTLPA
Sbjct: 478 EGLCWVCRYYYQGVCSWQWFYPYHYAPFASDLKGLADLEITFFLGEPFKPFDQLMGTLPA 537

Query: 541 ASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKK 600
           ASS+ALPE+YR LMTD SSPI +F+P DF+IDMNGKRFAWQG+ KLPFIDE+ LL QTKK
Sbjct: 538 ASSNALPEEYRKLMTDSSSPISRFFPLDFEIDMNGKRFAWQGIAKLPFIDERKLLAQTKK 597

Query: 601 LEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGM 660
           LE  LTEEE  RNSVMLDLLYVHP HP+  ++  + Q ++ LP   R  W ID NAS GM
Sbjct: 598 LESTLTEEERLRNSVMLDLLYVHPAHPMAAEVIAHYQGFNSLPQYQRKPWAIDTNASAGM 657

Query: 661 NGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTI 719
           NGY+WL ERN  RS I SPV G PDIE NQ +N+TYLNP  HRHIPEPP G  +P K +
Sbjct: 658 NGYLWLSERNMWRSTIASPVNGFPDIEHNQVLNITYLNPINHRHIPEPPNGVVMPEKIL 716

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|224131346|ref|XP_002328516.1| predicted protein [Populus trichocarpa] gi|222838231|gb|EEE76596.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|224123332|ref|XP_002319052.1| predicted protein [Populus trichocarpa] gi|222857428|gb|EEE94975.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|359487905|ref|XP_002271987.2| PREDICTED: 5'-3' exoribonuclease 4-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|15221841|ref|NP_175851.1| 5'-3' exoribonuclease 4 [Arabidopsis thaliana] gi|75262833|sp|Q9FQ04.1|XRN4_ARATH RecName: Full=5'-3' exoribonuclease 4; AltName: Full=Protein ACC INSENSITIVE 1; AltName: Full=Protein ETHYLENE INSENSITIVE 5; AltName: Full=Protein EXORIBONUCLEASE 4 gi|11875626|gb|AAG40731.1|AF286718_1 XRN4 [Arabidopsis thaliana] gi|17381112|gb|AAL36368.1| putative exonuclease [Arabidopsis thaliana] gi|20259665|gb|AAM14350.1| putative exonuclease [Arabidopsis thaliana] gi|109627646|gb|ABG34298.1| At1g54490 [Arabidopsis thaliana] gi|332194988|gb|AEE33109.1| 5'-3' exoribonuclease 4 [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356505926|ref|XP_003521740.1| PREDICTED: 5'-3' exoribonuclease 4-like [Glycine max] Back     alignment and taxonomy information
>gi|356573066|ref|XP_003554686.1| PREDICTED: 5'-3' exoribonuclease 4-like [Glycine max] Back     alignment and taxonomy information
>gi|356576739|ref|XP_003556487.1| PREDICTED: 5'-3' exoribonuclease 4-like [Glycine max] Back     alignment and taxonomy information
>gi|307136058|gb|ADN33909.1| 5'-3' exoribonuclease [Cucumis melo subsp. melo] Back     alignment and taxonomy information
>gi|357512203|ref|XP_003626390.1| 5'-3' exoribonuclease [Medicago truncatula] gi|355501405|gb|AES82608.1| 5'-3' exoribonuclease [Medicago truncatula] 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 ?
Query734
TAIR|locus:2020073 947 XRN4 "exoribonuclease 4" [Arab 0.970 0.751 0.726 7.7e-293
TAIR|locus:2005614 1020 XRN3 "5'-3' exoribonuclease 3" 0.599 0.431 0.617 1.3e-228
ZFIN|ZDB-GENE-040426-2874 952 xrn2 "5'-3' exoribonuclease 2" 0.583 0.449 0.510 6.4e-166
RGD|1310218 951 Xrn2 "5'-3' exoribonuclease 2" 0.603 0.465 0.495 6.4e-166
UNIPROTKB|E2RMS9 950 XRN2 "Uncharacterized protein" 0.572 0.442 0.513 1e-165
UNIPROTKB|F1MKX7 951 XRN2 "Uncharacterized protein" 0.572 0.441 0.510 3.5e-165
MGI|MGI:894687 951 Xrn2 "5'-3' exoribonuclease 2" 0.572 0.441 0.515 4.5e-165
UNIPROTKB|Q5ZIP4 949 XRN2 "5'-3' exoribonuclease 2" 0.553 0.427 0.530 5.7e-165
UNIPROTKB|F1SAU5 950 XRN2 "Uncharacterized protein" 0.572 0.442 0.513 7.3e-165
UNIPROTKB|Q9H0D6 950 XRN2 "5'-3' exoribonuclease 2" 0.572 0.442 0.510 7.3e-165
TAIR|locus:2020073 XRN4 "exoribonuclease 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2812 (994.9 bits), Expect = 7.7e-293, P = 7.7e-293
 Identities = 522/719 (72%), Positives = 583/719 (81%)

Query:     1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGII 60
             MGVPAFYRWLADRYP SI DVVEE+P   G G   PVD+++PNPNG EFDNLYLDMNGII
Sbjct:     1 MGVPAFYRWLADRYPKSISDVVEEEPTDGGRGDLIPVDITRPNPNGFEFDNLYLDMNGII 60

Query:    61 HPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTXXX 120
             HPCFHP+GKPAP +YDDVFKS+F+YIDH+F LVRPRK+LYLAIDGVAPRAKMNQQR+   
Sbjct:    61 HPCFHPEGKPAPATYDDVFKSMFEYIDHLFTLVRPRKILYLAIDGVAPRAKMNQQRSRRF 120

Query:   121 XXXXXXXXXXXXXXXXXXXXXXXGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQ 180
                                    G++LSAKEK ETCDSNVITPGT FMA+LS ALQY+IQ
Sbjct:   121 RAAKDAAEAEAEEERLRKDFEMEGQILSAKEKAETCDSNVITPGTPFMAILSVALQYYIQ 180

Query:   181 ARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML 240
             +RLN  PGW++ KVILSD+NVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML
Sbjct:   181 SRLNHNPGWRYVKVILSDSNVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML 240

Query:   241 SLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKK 300
             SLATHE+HFSILREVIT PGQQEKCFVCGQ GH A++C GK G N    N   D PIHKK
Sbjct:   241 SLATHEVHFSILREVITYPGQQEKCFVCGQTGHFASDCPGKSGSN----NAAADIPIHKK 296

Query:   301 KYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGA 360
             KYQFLNIWVLREYLQYEL IP+PPF INFERI+DDFVFLCFFVGNDFLPHMPTLEIREGA
Sbjct:   297 KYQFLNIWVLREYLQYELAIPDPPFMINFERIIDDFVFLCFFVGNDFLPHMPTLEIREGA 356

Query:   361 INLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEA 420
             INLLMHVYR+EFTAMGGYLTD+GEVLLDRVE FIQ+VAV ED+IFQKRTRI+Q+ + NE 
Sbjct:   357 INLLMHVYRKEFTAMGGYLTDSGEVLLDRVEHFIQAVAVNEDKIFQKRTRIKQSMDNNEE 416

Query:   421 MKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIXXXXXXXXXXXX 480
             MK  +RR+ SE     P  + D +KLGEPGYKERYYA+KF  +NPEE             
Sbjct:   417 MKQRSRRDPSEV---PPEPIDDKIKLGEPGYKERYYAEKFSTTNPEETEQIKQDMVLKYV 473

Query:   481 EGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPA 540
             EGLCWVCRYYYQ VCSWQWFYPYHYAPFASDLK+L DLEITFF+GEPF+PFDQLMGTLPA
Sbjct:   474 EGLCWVCRYYYQGVCSWQWFYPYHYAPFASDLKNLPDLEITFFIGEPFKPFDQLMGTLPA 533

Query:   541 ASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKK 600
             ASS+ALP +YR LMTDPSSPI KFYP DF++DMNGKRFAWQG+ KLPFI+EKLLL  T+K
Sbjct:   534 ASSNALPGEYRKLMTDPSSPILKFYPADFELDMNGKRFAWQGIAKLPFIEEKLLLAATRK 593

Query:   601 LEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGM 660
             LE  LT EE  RNSVMLDLLYVHP HPL Q+I  Y   Y  +PP +   W ID N+S GM
Sbjct:   594 LEETLTVEEQQRNSVMLDLLYVHPAHPLGQRILQYYHFYQHMPPHECLPWMIDPNSSQGM 653

Query:   661 NGYIWLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRHIPEPPKGATIPAKTI 719
             NG++W  ERNG ++ + SPV GLP IE+N+A+NVTYL P KH HI EPP+GA IP K +
Sbjct:   654 NGFLWFSERNGFQTRVDSPVNGLPCIEQNRALNVTYLCPAKHSHISEPPRGAIIPDKIL 712
GO:0003676 "nucleic acid binding" evidence=IEA;ISS
GO:0004527 "exonuclease activity" evidence=IEA
GO:0004534 "5'-3' exoribonuclease activity" evidence=IEA;IGI;IMP
GO:0005622 "intracellular" evidence=IEA
GO:0005634 "nucleus" evidence=ISM;IEA;IDA
GO:0006139 "nucleobase-containing compound metabolic process" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0008409 "5'-3' exonuclease activity" evidence=ISS
GO:0009630 "gravitropism" evidence=RCA;IMP
GO:0009723 "response to ethylene stimulus" evidence=IMP
GO:0009873 "ethylene mediated signaling pathway" evidence=IGI;IMP
GO:0009961 "response to 1-aminocyclopropane-1-carboxylic acid" evidence=IMP
GO:0009826 "unidimensional cell growth" evidence=IMP
GO:0000291 "nuclear-transcribed mRNA catabolic process, exonucleolytic" evidence=IMP
GO:0031087 "deadenylation-independent decapping of nuclear-transcribed mRNA" evidence=IMP
GO:0040029 "regulation of gene expression, epigenetic" evidence=IMP
GO:0010587 "miRNA catabolic process" evidence=IMP
GO:0005829 "cytosol" evidence=IDA
GO:0000003 "reproduction" evidence=RCA
GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA
GO:0006306 "DNA methylation" evidence=RCA
GO:0006325 "chromatin organization" evidence=RCA
GO:0006342 "chromatin silencing" evidence=RCA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA
GO:0006486 "protein glycosylation" evidence=RCA
GO:0006487 "protein N-linked glycosylation" evidence=RCA
GO:0007131 "reciprocal meiotic recombination" evidence=RCA
GO:0007155 "cell adhesion" evidence=RCA
GO:0007267 "cell-cell signaling" evidence=RCA
GO:0008284 "positive regulation of cell proliferation" evidence=RCA
GO:0009616 "virus induced gene silencing" evidence=RCA
GO:0010014 "meristem initiation" evidence=RCA
GO:0010090 "trichome morphogenesis" evidence=RCA
GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA
GO:0010413 "glucuronoxylan metabolic process" evidence=RCA
GO:0010638 "positive regulation of organelle organization" evidence=RCA
GO:0016049 "cell growth" evidence=RCA
GO:0033044 "regulation of chromosome organization" evidence=RCA
GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA
GO:0043687 "post-translational protein modification" evidence=RCA
GO:0045010 "actin nucleation" evidence=RCA
GO:0045492 "xylan biosynthetic process" evidence=RCA
GO:0045595 "regulation of cell differentiation" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA
GO:0048589 "developmental growth" evidence=RCA
TAIR|locus:2005614 XRN3 "5'-3' exoribonuclease 3" [Arabidopsis thaliana (taxid:3702)] 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
RGD|1310218 Xrn2 "5'-3' exoribonuclease 2" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|E2RMS9 XRN2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] 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|F1SAU5 XRN2 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q9H0D6 XRN2 "5'-3' exoribonuclease 2" [Homo sapiens (taxid:9606)] 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) ?
Q9FQ04XRN4_ARATH3, ., 1, ., 1, 3, ., -0.76660.97130.7529yesno

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:
eugene3.00700106
hypothetical protein (948 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 ?
Query734
COG5049 953 COG5049, XRN1, 5'-3' exonuclease [DNA replication, 1e-146
pfam03159237 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus 1e-144
COG5049 953 COG5049, XRN1, 5'-3' exonuclease [DNA replication, 8e-70
pfam0009818 pfam00098, zf-CCHC, Zinc knuckle 0.002
smart0034317 smart00343, ZnF_C2HC, zinc finger 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 =  451 bits (1162), Expect = e-146
 Identities = 206/486 (42%), Positives = 282/486 (58%), Gaps = 51/486 (10%)

Query: 1   MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGII 60
           MGVP+F+RWL++RYP  I  + E                 K  P    FDNLYLDMNGI+
Sbjct: 1   MGVPSFFRWLSERYPKIIQLIEE-----------------KQIPE---FDNLYLDMNGIL 40

Query: 61  HPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRF 120
           H C HP+    P + ++++K++F+YIDHI L +RPRKLLY+A+DGVAPRAKMNQQR RRF
Sbjct: 41  HNCTHPNDGSPPETEEEMYKAVFEYIDHILLKIRPRKLLYMAVDGVAPRAKMNQQRARRF 100

Query: 121 RAAKDAAEAEAEEERLRKEFEEAGK-----LLSAKEKPETCDSNVITPGTQFMAVLSAAL 175
           R+AKDA+ A  + E   +E  E        + +   + +  DSN ITPGT FM  L+  L
Sbjct: 101 RSAKDASAAALKAEPNGEEIPEEKDEIGNEIDTIDVEKKKFDSNCITPGTPFMERLAKVL 160

Query: 176 QYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDA 235
           +Y+I  +L+  P W+  ++I S   VPGEGEHKIM++IR Q+  P ++PNTRHC+YGLDA
Sbjct: 161 RYYIHCKLSSDPEWRNLRIIFSGHLVPGEGEHKIMNFIRSQKAQPSYNPNTRHCIYGLDA 220

Query: 236 DLIMLSLATHEIHFSILREVITLPG---QQEKCFVCGQVGHLAAECHGKPGDNPADWNGV 292
           DLIML L+THE HF ILRE +       ++ KC  CG+ GH   EC              
Sbjct: 221 DLIMLGLSTHEPHFLILREDVFFGSKSRRKRKCTKCGRTGHSDEEC-------------- 266

Query: 293 DDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMP 352
                H+  Y  L+I +LREYL+ E   P  PF  + ERI+DD++FLCFFVGNDFLPH+P
Sbjct: 267 -KVLTHQPFY-LLHISLLREYLEREFREPTLPFTFDLERILDDWIFLCFFVGNDFLPHLP 324

Query: 353 TLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQ 412
            L+IREGAI  L  ++++    M GY+T  G + L R+E  +  +  +ED IF+K     
Sbjct: 325 CLDIREGAIETLTEIWKKSLPHMKGYITCDGVINLARLEVILAILGSFEDDIFKK--DHI 382

Query: 413 QAYEYNEAM-KLNARRESSEELLQAPVAVADTVKLGEPGYKERY----YADKFEISNPEE 467
           Q    NE++ + + R+E  E L   P  V +  KL                  ++ + E 
Sbjct: 383 QEERKNESLERFSLRKERKEGLKGMPRVVYEQKKLIGSIKPTLMDQLQEKKSPDLPDEEF 442

Query: 468 IDKVKK 473
           ID +  
Sbjct: 443 IDTLAL 448

Length = 953
>gnl|CDD|202558 pfam03159, XRN_N, XRN 5'-3' exonuclease N-terminus Back     alignment and domain information
>gnl|CDD|227382 COG5049, XRN1, 5'-3' exonuclease [DNA replication, recombination, and repair / Cell division and chromosome partitioning / Translation] Back     alignment and domain information
>gnl|CDD|189387 pfam00098, zf-CCHC, Zinc knuckle Back     alignment and domain information
>gnl|CDD|197667 smart00343, ZnF_C2HC, zinc finger Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 734
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 98.69
PTZ00217393 flap endonuclease-1; Provisional 98.35
TIGR03674338 fen_arch flap structure-specific endonuclease. End 97.62
PRK03980292 flap endonuclease-1; Provisional 97.53
smart00475259 53EXOc 5'-3' exonuclease. 95.76
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 95.44
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 95.08
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 94.81
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 93.76
PRK14976281 5'-3' exonuclease; Provisional 93.53
KOG2519449 consensus 5'-3' exonuclease [Replication, recombin 89.57
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 89.36
KOG2518556 consensus 5'-3' exonuclease [Replication, recombin 88.76
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 87.72
PRK05755 880 DNA polymerase I; Provisional 85.62
>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=1.3e-249  Score=2056.91  Aligned_cols=713  Identities=58%  Similarity=0.990  Sum_probs=655.5

Q ss_pred             CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCCCCCCHHHHHH
Q 004706            1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFK   80 (734)
Q Consensus         1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~~~~p~te~e~~~   80 (734)
                      ||||+|||||++|||++|++|+|++|.+. ||+.+|+|.|+|||||+||||||||||||||||+||+++|+|+||+|||.
T Consensus         1 MGVPaffRWLs~kyp~~I~~viEe~p~~~-~g~~ip~D~s~pNPNg~E~DNLYLDMNGIIHPC~HPEdkPaP~tedEm~~   79 (931)
T KOG2044|consen    1 MGVPAFFRWLSRKYPKTISPVIEEEPVDV-DGVKIPVDYSKPNPNGVEFDNLYLDMNGIIHPCTHPEDKPAPETEDEMFV   79 (931)
T ss_pred             CCchHHHHHHHHhcchhhhhhhhcCcccC-CCcccccccCCCCCCcccccceeeecCcccccCCCCCCCCCCccHHHHHH
Confidence            99999999999999999999999999887 88999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCCCCCcc
Q 004706           81 SIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNV  160 (734)
Q Consensus        81 ~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~fDsN~  160 (734)
                      .||+||||||.||||||||||||||||||||||||||||||||+|++++++++++++++++++|..++++.++++|||||
T Consensus        80 avFeyiDrlf~mvRPRkLLymAIDGVAPRAKMNQQRsRRFRaaKeaae~~~e~e~~ree~~~~G~~lpp~~~~e~fDSNc  159 (931)
T KOG2044|consen   80 AVFEYIDRLFSMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRAAKEAAEKEAEIERLREEFEAEGKFLPPKVKKETFDSNC  159 (931)
T ss_pred             HHHHHHHHHHHhccchheeEEeecccCchhhhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcCCcCCchhhccccccCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHHH
Q 004706          161 ITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML  240 (734)
Q Consensus       161 ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL  240 (734)
                      |||||+||++|+.+|+|||+.||++||+|+||+||+|||+||||||||||+|||+||++|+|||||+|||||+|||||||
T Consensus       160 ITPGTpFM~~La~aLrYyI~~rLn~DPgWkNikvIlSDAnVPGEGEHKIM~yIR~QR~~P~~dPNT~HclyGlDADLImL  239 (931)
T KOG2044|consen  160 ITPGTPFMDRLAKALRYYIHDRLNSDPGWKNIKVILSDANVPGEGEHKIMSYIRSQRAQPGYDPNTHHCLYGLDADLIML  239 (931)
T ss_pred             cCCCChHHHHHHHHHHHHHHHhhcCCccccceEEEEecCCCCCcchhHHHHHHHHccCCCCCCCCceeeeecCCccceee
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhCC
Q 004706          241 SLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDI  320 (734)
Q Consensus       241 ~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~~  320 (734)
                      ||||||+||+||||+++ |+++++|++|||+||++++|.|+....  +.+.....+..+++|+||+||+|||||+.||.+
T Consensus       240 gLATHE~hF~IlRE~~~-P~~~~~C~~cgq~gh~~~dc~g~~~~~--~~~~~~~~~~~ek~fifl~I~vLREYLe~El~~  316 (931)
T KOG2044|consen  240 GLATHEPHFSILREEFF-PNKPRRCFLCGQTGHEAKDCEGKPRLG--ETNELADVPGVEKPFIFLNISVLREYLERELRM  316 (931)
T ss_pred             eccccCCceEEeeeeec-CCCcccchhhcccCCcHhhcCCcCCcc--cccccccCcccccceEEEEHHHHHHHHHHHhcC
Confidence            99999999999999977 999999999999999999999985411  111122234678999999999999999999999


Q ss_pred             CCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCcccccchhHHHHHHHHHHHhhhcCCccccCCeechHHHHHHHHHHHHh
Q 004706          321 PNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVY  400 (734)
Q Consensus       321 ~~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~I~egaid~Li~~Yk~~l~~~~gYLt~~g~inl~~l~~fl~~l~~~  400 (734)
                      |++||+||+||+||||||||||||||||||||||+|||||||+|+++||+.+++|+||||++|.+||.||+.||+.||..
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             HHHHHHHHHHHHHHHHHHHHHHHhhhhcc-----------------------------------------hhhhh-----
Q 004706          401 EDQIFQKRTRIQQAYEYNEAMKLNARRES-----------------------------------------SEELL-----  434 (734)
Q Consensus       401 E~~if~~r~~~~~~~~~~~~~~~~~r~~~-----------------------------------------~~~~~-----  434 (734)
                      |++||++|.+.+++++.....+.+.+++.                                         ..+.+     
T Consensus       397 Ed~IFkkR~r~~e~frrrk~~rk~~~~~~~~sg~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~  476 (931)
T KOG2044|consen  397 EDDIFKKRQRREERFRRRKAARKRQDRNAQDSGTNFSLAGSRELEASEPAQKALKVSLEKNESAANVERDNTEDLKTKLK  476 (931)
T ss_pred             cchHHHHhHhHHHHHHHhhhhhhhhhhhcccccccccccccccccccchhhhhhhhccccccchhhhcccchhhcccccc
Confidence            99999999766555543221111100000                                         00000     


Q ss_pred             ----------cCccccccccccCCcchHHhHHHHhhCCCChhhHhHHHHHHHHHHHHHHHHHhhhhccCccccccccCCC
Q 004706          435 ----------QAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYH  504 (734)
Q Consensus       435 ----------~~~~~~~d~v~l~e~~~k~rYY~~Kf~~~~~~~~~~~~~~v~~~Y~eGl~Wvl~YYy~G~pSW~WyYPyh  504 (734)
                                .+..+..|+|+|+|+|||+|||++||++++++  +++|++||.+|+|||||||+||||||+||+||||||
T Consensus       477 ~~~~~k~~~~~~~~~~~D~VkL~e~G~keRYY~~KF~v~~~e--eq~R~~vv~~YveGLcWVl~YYyqGc~SW~WyYPYH  554 (931)
T KOG2044|consen  477 HGQRRKSEDSESEEENTDKVKLYEPGWKERYYEEKFDVTPDE--EQIRKDVVLKYVEGLCWVLRYYYQGCASWNWYYPYH  554 (931)
T ss_pred             ccccccCccccCCCCCCcceeecCCchhhhhhhhhcCCCCHH--HHHHHHHHHHHhcchhhhhhhhhccccccccccccc
Confidence                      11235678999999999999999999998775  789999999999999999999999999999999999


Q ss_pred             CCccccchhcccCccccccCCCCCChHHHhhhcCCCCCCCCCchhhhhhcCCCCCcccccCCCcccccCCCCccceeeee
Q 004706          505 YAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVV  584 (734)
Q Consensus       505 YAP~asDl~~l~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~LP~~~~~Lm~d~~SpI~dfYP~~f~iD~nGk~~~WqgV~  584 (734)
                      ||||||||.+|++++|+|++|+||+||||||+||||+|+|+||+.||.||+||+|||+||||+||+||||||+|+||||+
T Consensus       555 YAPfAsDf~~l~~ldikFe~g~PFkP~eQLmgVlPAAS~~~LPe~~r~LMsdpdSpIiDFYPedF~iDmNGKk~aWQGIa  634 (931)
T KOG2044|consen  555 YAPFASDFKGLSDLDIKFELGKPFKPLEQLMGVLPAASSHALPEEWRKLMSDPDSPIIDFYPEDFEIDMNGKKYAWQGIA  634 (931)
T ss_pred             cchhhhhhhcccccccccccCCCCCcHHHHhhhcchhhcCCCcHHHHhhhcCCCCcccccccccceeeccCceeeccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCChHHHHHHHhhhhcCCCHHHHhhccCCCcEEEEcCCCccHHHHHHHhhhccCCCCCCCccccccccccCCcccce
Q 004706          585 KLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYI  664 (734)
Q Consensus       585 lLPFIDe~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~g~~  664 (734)
                      |||||||+|||+|+++++++||+||++||+.|.|+||++.+||++..+.++|++..+. .  .....+-..++.|++|.+
T Consensus       635 lLPFiDe~rLl~a~~~~y~~Lt~EE~~RN~rg~d~Lfi~~~hp~~e~i~~lysk~k~~-~--~~~v~~~~~~~p~~~~~~  711 (931)
T KOG2044|consen  635 LLPFIDERRLLSAVAKVYPTLTDEEKRRNSRGPDLLFISDKHPLFEFILQLYSKKKKS-N--EKNVKLAHGVDPGLNGAI  711 (931)
T ss_pred             cccccchhhHHHHHHhhccccCHHHHhccccCCceEEecCCCchHHHHHHHHHhhccC-c--ccccccccccCcccceee
Confidence            9999999999999999999999999999999999999999999999999999976541 1  122355556778999999


Q ss_pred             ecccCCCCCcccCCCCCCCCCCCCCcEEEEEecCCCCCCC---CCCCCCCCCCCCCccccc
Q 004706          665 WLCERNGLRSIIPSPVKGLPDIERNQAINVTYLNPQKHRH---IPEPPKGATIPAKTIVGA  722 (734)
Q Consensus       665 ~~~~~~~~~~~~~~p~~~~~~i~~~~~~~~~y~~p~~~~~---~~~ll~g~~~p~~~l~~~  722 (734)
                      ..++.......+.||..++-+...+..+++.|..|.++..   .++.|+|++.|.++|++.
T Consensus       712 ~~~~~~~~~~i~~~p~~~~~~~~~~~~v~~~~~~~~~~ed~~~~a~~l~G~~~p~~~lkP~  772 (931)
T KOG2044|consen  712 SKDPEGLESGISKSPPGGLSDYNTNTGVCLKYVDPEYPEDYIFPAIRLDGAKEPEKVLKPD  772 (931)
T ss_pred             ccCccccccccccCChhhcccCCccceeeecccCccccccccchhhhcCCCCCCccccCcc
Confidence            9887665556788899999999999999999999987643   489999999999999854

>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
>TIGR03674 fen_arch flap structure-specific endonuclease Back     alignment and domain information
>PRK03980 flap endonuclease-1; Provisional Back     alignment and domain information
>smart00475 53EXOc 5'-3' exonuclease 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
>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
>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
>PRK14976 5'-3' exonuclease; Provisional Back     alignment and domain information
>KOG2519 consensus 5'-3' exonuclease [Replication, recombination and repair] 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
>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
>PRK05755 DNA polymerase I; Provisional 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 ?
Query734
2y35_A 1140 Crystal Structure Of Xrn1-Substrate Complex Length 1e-109
3fqd_A 899 Crystal Structure Of The S. Pombe Rat1-Rai1 Complex 9e-97
3fqd_A899 Crystal Structure Of The S. Pombe Rat1-Rai1 Complex 2e-53
3pie_A 1155 Crystal Structure Of The 5'->3' Exoribonuclease Xrn 3e-72
3pie_A 1155 Crystal Structure Of The 5'->3' Exoribonuclease Xrn 1e-31
>pdb|2Y35|A Chain A, Crystal Structure Of Xrn1-Substrate Complex Length = 1140 Back     alignment and structure 
Iteration: 1

 Score =  391 bits (1004), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 231/637 (36%), Positives = 334/637 (52%), Gaps = 88/637 (13%)
Query: 1   MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGII 60
           MGVP F+R++++RYP                 +AR   +        EFDNLYLDMNGI+
Sbjct: 1   MGVPKFFRYISERYPCL-------------SELAREHCIP-------EFDNLYLDMNGIV 40
Query: 61  HPCFHPDGKPAPTSYDD--VFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTX 118
           H C HPD        ++  +F+ IF+Y+D +F L++P++L +L++DGVAPRAKMNQQR+ 
Sbjct: 41  HNCSHPDDNNIHFHLEEEQIFQEIFNYVDKLFYLIKPQRLFFLSVDGVAPRAKMNQQRSR 100
Query: 119 XXXXXXXXXXXXXXXXXXXXXXXXXGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYF 178
                                    G+L     + E  DSN ITPGT+FM  L   L+ F
Sbjct: 101 RFRTAREAEQQEAKAAQR-------GEL----REHERFDSNCITPGTEFMVRLQEGLRAF 149
Query: 179 IQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLI 238
           ++ +++  P WQ   VILS    PGEGEHKIM YIR  +  P +DPNTRHCLYGLDA LI
Sbjct: 150 LKTKISTDPLWQRCTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALI 209
Query: 239 MLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIH 298
           +L L THE+HF +LRE +                        K G N      V  T + 
Sbjct: 210 ILGLCTHELHFVVLREEV------------------------KFGRN------VKRTSVE 239
Query: 299 KKKYQFLNIWVLREYLQYELD-IPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIR 357
           + ++  L++ +LREYL+ E D +      ++  +++DD+V + F VGNDF+PH+P L I 
Sbjct: 240 ETRFFLLHLGLLREYLELEFDALRTDEHKLDIAQLIDDWVLMGFLVGNDFIPHLPCLHIS 299
Query: 358 EGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYE-DQIFQKRTRIQQAYE 416
             A+ LL   Y   +  +GG + + G++ L R++ FI ++   E D   +    ++    
Sbjct: 300 SNALPLLYRTYIGIYPTLGGNINENGKLNLRRLQIFISALTEVELDHFKEHADDLKYMNN 359
Query: 417 YNEAMKLNARRESSEELLQAPVAV-------------------ADTVKLGE-PGYKERYY 456
            +EA  ++    +  + L + +                      + V L E   YK  +Y
Sbjct: 360 KSEAFDMDVGEITESQNLDSDLGALINKSMLLYDDDSEEDCSDENAVLLKEFQNYKRNFY 419
Query: 457 ADKFEISNPEEIXXXXXXXXXXXXEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLS 516
            +KF+    +E+              L WV  YYY+ V SW W+YP+HY PF SDLK++ 
Sbjct: 420 RNKFKRDPNDELIEELCHHYV---NALQWVLDYYYRGVQSWDWYYPFHYTPFISDLKNIE 476
Query: 517 DLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGK 576
            +EI F +G PF PF QL+  LPAAS+  LP  Y +LM  P+SP+ +FYP +F+ D+NGK
Sbjct: 477 QVEIAFHMGTPFLPFQQLLAVLPAASAKLLPVAYHDLMLLPTSPLAEFYPLEFESDLNGK 536
Query: 577 RFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRN 613
           +  W+ VV +PFIDE  LL      E  L+ EE  RN
Sbjct: 537 KHDWEAVVLIPFIDEGRLLAAMLPCEAQLSLEERERN 573
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex Length = 899 Back     alignment and structure
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex Length = 899 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|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q Mutant Length = 1155 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 ?
Query734
2y35_A 1140 LD22664P; hydrolase-DNA complex, RNA degradation, 1e-162
3fqd_A 899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 1e-125
3fqd_A899 Protein DHP1, 5'-3' exoribonuclease 2; protein-pro 3e-82
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 1e-106
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 9e-63
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-10
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 7e-05
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 1e-04
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 4e-04
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster} Length = 1140 Back     alignment and structure
 Score =  497 bits (1281), Expect = e-162
 Identities = 241/703 (34%), Positives = 349/703 (49%), Gaps = 90/703 (12%)

Query: 1   MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGII 60
           MGVP F+R++++RYP       E                        EFDNLYLDMNGI+
Sbjct: 1   MGVPKFFRYISERYPCLSELAREHCIP--------------------EFDNLYLDMNGIV 40

Query: 61  HPCFHPDGK--PAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTR 118
           H C HPD          + +F+ IF+Y+D +F L++P++L +L++DGVAPRAKMNQQR+R
Sbjct: 41  HNCSHPDDNNIHFHLEEEQIFQEIFNYVDKLFYLIKPQRLFFLSVDGVAPRAKMNQQRSR 100

Query: 119 RFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYF 178
           RFR A++A + EA+  +  +             + E  DSN ITPGT+FM  L   L+ F
Sbjct: 101 RFRTAREAEQQEAKAAQRGE-----------LREHERFDSNCITPGTEFMVRLQEGLRAF 149

Query: 179 IQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLI 238
           ++ +++  P WQ   VILS    PGEGEHKIM YIR  +  P +DPNTRHCLYGLDA LI
Sbjct: 150 LKTKISTDPLWQRCTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALI 209

Query: 239 MLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIH 298
           +L L THE+HF +LRE +      ++  V                               
Sbjct: 210 ILGLCTHELHFVVLREEVKFGRNVKRTSVE------------------------------ 239

Query: 299 KKKYQFLNIWVLREYLQYELD-IPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIR 357
           + ++  L++ +LREYL+ E D +      ++  +++DD+V + F VGNDF+PH+P L I 
Sbjct: 240 ETRFFLLHLGLLREYLELEFDALRTDEHKLDIAQLIDDWVLMGFLVGNDFIPHLPCLHIS 299

Query: 358 EGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEY 417
             A+ LL   Y   +  +GG + + G++ L R++ FI ++   E   F++     +    
Sbjct: 300 SNALPLLYRTYIGIYPTLGGNINENGKLNLRRLQIFISALTEVELDHFKEHADDLKYMNN 359

Query: 418 NEAMKLNARRESSEELLQAPVAVA--------------------DTVKLGE-PGYKERYY 456
                     E +E         A                    + V L E   YK  +Y
Sbjct: 360 KSEAFDMDVGEITESQNLDSDLGALINKSMLLYDDDSEEDCSDENAVLLKEFQNYKRNFY 419

Query: 457 ADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLS 516
            +KF+    +E+    +++   YV  L WV  YYY+ V SW W+YP+HY PF SDLK++ 
Sbjct: 420 RNKFKRDPNDEL---IEELCHHYVNALQWVLDYYYRGVQSWDWYYPFHYTPFISDLKNIE 476

Query: 517 DLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGK 576
            +EI F +G PF PF QL+  LPAAS+  LP  Y +LM  P+SP+ +FYP +F+ D+NGK
Sbjct: 477 QVEIAFHMGTPFLPFQQLLAVLPAASAKLLPVAYHDLMLLPTSPLAEFYPLEFESDLNGK 536

Query: 577 RFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYC 636
           +  W+ VV +PFIDE  LL      E  L+ EE  RN      +Y +    + Q      
Sbjct: 537 KHDWEAVVLIPFIDEGRLLAAMLPCEAQLSLEERERNRHGPMYVYKY--STVAQGPMPAY 594

Query: 637 QLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSP 679
                LP           +       Y    E       +  P
Sbjct: 595 PPLRALPVLYCTEVAKWSHEIAVNLPYSVCIELPNAARTVFFP 637
>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
>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
>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
>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
>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
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} Length = 74 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 ?
Query734
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
1rxw_A336 Flap structure-specific endonuclease; helical clam 98.45
1b43_A340 Protein (FEN-1); nuclease, DNA repair, DNA replica 98.45
1a76_A326 Flap endonuclease-1 protein; 5'-3' EXO/endo nuclea 98.32
3qe9_Y352 Exonuclease 1; exonuclease, hydrolase-DNA complex; 98.14
3ory_A363 Flap endonuclease 1; hydrolase; 2.00A {Desulfuroco 97.95
3q8k_A341 Flap endonuclease 1; helix-3 turn-helix, hydrophob 97.68
1ul1_X379 Flap endonuclease-1; protein complex, DNA-binding 97.59
2izo_A346 FEN1, flap structure-specific endonuclease; hydrol 97.55
1exn_A290 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Ent 96.22
1dsq_A26 Nucleic acid binding protein P14; CCHC type zinc f 88.2
1nc8_A29 Nucleocapsid protein; HIV-2, RNA recognition, zinc 85.01
1a6b_B40 Momulv, zinc finger protein NCP10; nucleocapsid pr 80.73
>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=1.5e-227  Score=1947.10  Aligned_cols=707  Identities=44%  Similarity=0.779  Sum_probs=626.7

Q ss_pred             CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCCCCCCHHHHHH
Q 004706            1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFK   80 (734)
Q Consensus         1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~~~~p~te~e~~~   80 (734)
                      ||||+|||||++|||+|+++|+|+.|..+.||..+|+|.++|||||.+|||||||||||||+|+|+++.+.|.||++||.
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            99999999999999999999999998888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCC-CCCCCCCCCc
Q 004706           81 SIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSA-KEKPETCDSN  159 (734)
Q Consensus        81 ~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~-~~~~~~fDsN  159 (734)
                      +||+|||+||++|||||+||||||||||||||||||+||||+|++++++.++.+++++++.++|...+. ......||||
T Consensus        84 ~If~yid~l~~~vrPrklly~AiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~fDsN  163 (899)
T 3fqd_A           84 AVFEYTDRILAMVRPRQLLFIAIDGVAPRAKMNQQRSRRFRSSREAALKEEELQAFIEEAKQQGIPIDENATKKKSWDSN  163 (899)
T ss_dssp             HHHHHHHHHHHHHCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCBCHHHHSCCCCCGG
T ss_pred             HHHHHHHHHHHHcCcceeEEEeecCCCCchHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCCccccccccCCCcC
Confidence            999999999999999999999999999999999999999999999998888788888888888843211 1256899999


Q ss_pred             ccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHH
Q 004706          160 VITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIM  239 (734)
Q Consensus       160 ~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLIm  239 (734)
                      ||||||+||.+|+.+|+|||+.||++||+|++++|||||++||||||||||+|||+||++|+|||||+|||||+||||||
T Consensus       164 ~ITPGT~FM~~L~~~L~~~i~~kl~~dp~W~~~~VIlSd~~vPGEGEHKIm~fIR~~r~~p~ydpN~~HcIyGlDADLIm  243 (899)
T 3fqd_A          164 CITPGTPFMDTLAKSLRYYIINKLNSDPCWRNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLIM  243 (899)
T ss_dssp             GSSTTSHHHHHHHHHHHHHHHHHHTSCGGGTTCEEEEECTTSCSCHHHHHHHHHHHHHTSTTSCTTCCEEEECCCTTHHH
T ss_pred             ccCCccHHHHHHHHHHHHHHHHHhhcCcccccceEEEeCCCCCCccHHHHHHHHHHHhcCCCCCCCCeEEEEccCccHhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhC
Q 004706          240 LSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELD  319 (734)
Q Consensus       240 L~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~  319 (734)
                      |||+||||||+||||+|+++.        +|.||.+.+|.++......+  .. ......++|+||||++|||||..||.
T Consensus       244 L~LatHep~f~ILRE~v~~~~--------~q~~~~~~~~~~~~k~~~~~--~~-~~~~~~~~f~~l~i~iLREYL~~E~~  312 (899)
T 3fqd_A          244 LGLATHEPHFRVLREDVFFQQ--------GSTKKTKEERLGIKRLDDVS--ET-NKVPVKKPFIWLNVSILREYLEVELY  312 (899)
T ss_dssp             HHHHTTCSSEEEEEECCC-----------------CTTTTTCCBTTC-------------CCEEEEEHHHHHHHHHHHHC
T ss_pred             HhhhccCCceEEEeeecccCc--------Cccccchhhhcccccccccc--cc-ccccccCceEEEeHHHHHHHHHHHhc
Confidence            999999999999999998754        67899999998865321111  00 12345678999999999999999999


Q ss_pred             CCCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCcccccchhHHHHHHHHHHHhhhcCCccccCCeechHHHHHHHHHHHH
Q 004706          320 IPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAV  399 (734)
Q Consensus       320 ~~~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~I~egaid~Li~~Yk~~l~~~~gYLt~~g~inl~~l~~fl~~l~~  399 (734)
                      +++.+|++|+||+||||||||||||||||||||+|+|++|||+.|+++||+.++++|||||++|+||++||+.||+.||+
T Consensus       313 ~~~~~f~~d~ERiIDDfVfmcFfvGNDFLPhlP~l~I~egaid~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~L~~  392 (899)
T 3fqd_A          313 VPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRDGAVERLTEIWRASLPHMGGYLTLDGSVNLARAEVILSAVGN  392 (899)
T ss_dssp             CTTCSSCCCHHHHHHHHHHHGGGGCCSSSCCCTTCCGGGTHHHHHHHHHHHHHHHHSSCSEETTEECHHHHHHHHHHHHT
T ss_pred             ccCCCCCchhhhhhhhhhhhhHhhCcccCCCCCccCcCCChHHHHHHHHHHHHHHcCCeeecCCEEcHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHHH-----------H------------------------------HH---Hh-----------
Q 004706          400 YEDQIFQKRTRIQQAYEYNE-----------A------------------------------MK---LN-----------  424 (734)
Q Consensus       400 ~E~~if~~r~~~~~~~~~~~-----------~------------------------------~~---~~-----------  424 (734)
                      .|++||++|.+.+++...+.           .                              .+   ..           
T Consensus       393 ~E~~iF~~r~~~e~~~~~~~krr~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  472 (899)
T 3fqd_A          393 QEDDIFKRLKQQEDRRNENYRRRQQRESNQESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPVDL  472 (899)
T ss_dssp             THHHHHHHHHHHHTTTC---------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccccccccccccccccccccccccccccCcccccc
Confidence            99999999876442100000           0                              00   00           


Q ss_pred             ---------------------hhh--c---c-----------h------------------------hhh----------
Q 004706          425 ---------------------ARR--E---S-----------S------------------------EEL----------  433 (734)
Q Consensus       425 ---------------------~r~--~---~-----------~------------------------~~~----------  433 (734)
                                           +|.  .   +           +                        +.+          
T Consensus       473 ~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~n~~~a~~lk~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~  552 (899)
T 3fqd_A          473 VNLSEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQNVPLEDSIASSSAYEDTDSIE  552 (899)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccchhhhhhhhhhcchhhhhhhhhhhhhhcccchhHHHHHHHHhhccccccccccccccccccccccccccc
Confidence                                 000  0   0           0                        000          


Q ss_pred             ---------------------hcC---ccccccccccCCcchHHhHHHHhhCCCChhhHhHHHHHHHHHHHHHHHHHhhh
Q 004706          434 ---------------------LQA---PVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRY  489 (734)
Q Consensus       434 ---------------------~~~---~~~~~d~v~l~e~~~k~rYY~~Kf~~~~~~~~~~~~~~v~~~Y~eGl~Wvl~Y  489 (734)
                                           ...   ..+..|.+++|++|||+|||++|||++..+  ++++++||++|||||||||+|
T Consensus       553 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~l~e~g~K~rYY~~KF~~~~~d--~e~~~~v~~~YvEGL~WVL~Y  630 (899)
T 3fqd_A          553 SSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYEPGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWVLLY  630 (899)
T ss_dssp             --------------------------------CCSCTTSTTHHHHHHHHTSCCCTTC--THHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccchhhhhccccccccccccccccccccchhhhhhcccchHHHHHHHhcCCCCCC--HHHHHHHHHHHHHHHHHHHHH
Confidence                                 000   001347789999999999999999997653  478899999999999999999


Q ss_pred             hccCccccccccCCCCCccccchhcccCccccccCCCCCChHHHhhhcCCCCCCCCCchhhhhhcCCCCCcccccCCCcc
Q 004706          490 YYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDF  569 (734)
Q Consensus       490 Yy~G~pSW~WyYPyhYAP~asDl~~l~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~LP~~~~~Lm~d~~SpI~dfYP~~f  569 (734)
                      ||+|||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++|++||++|+|||+||||++|
T Consensus       631 YYqGc~SW~WyYPYHYAPfaSD~~~~~~~~i~Fe~G~PF~PfEQLMaVLPaaS~~~LP~~y~~LMtdp~SpIiDFYP~dF  710 (899)
T 3fqd_A          631 YYQGCPSWTWYYPYHYAPFAADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYPENF  710 (899)
T ss_dssp             HHTCCSCSSCCCCCSSCCCGGGCCSCTTCCCCCCCCCCCCHHHHHHHHCCGGGGGGSCHHHHHHHHCTTCTTGGGCCSCC
T ss_pred             HhCCCCCCcccCcccccchHHHHhhcccCceecCCCCCCChHHHHHhhcCHhhhCcccHHHHHHhcCCCCcchhhCcccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cccCCCCccceeeeecccCCChHHHHHHHhhhhcCCCHHHHhhccCCCcEEEEcCCCccHHHHH-HHhhhccCCCCCCCc
Q 004706          570 QIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQIT-LYCQLYHQLPPQDRF  648 (734)
Q Consensus       570 ~iD~nGk~~~WqgV~lLPFIDe~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~~~~~~~~~-~~~~~~~~~~~~~~~  648 (734)
                      +||||||+++||||||||||||+|||+||+++++.||+||++||++|.++||++++||+++.+. .+|++..     ...
T Consensus       711 eiDmNGKk~~WqgVvlLPFIDE~RLL~A~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~~~~~~y~~~~-----~~~  785 (899)
T 3fqd_A          711 TIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSELVKQLYSKKR-----QGK  785 (899)
T ss_dssp             CEECSSSSCTTSSEECCCCCCHHHHHHHHHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHHHHHHHTSSSC-----SSS
T ss_pred             cccCCCCccccceEEecCccCHHHHHHHHHHhhccCCHHHHHhccCCCcEEEEeCCCchHHHHHHHhccccc-----cCc
Confidence            9999999999999999999999999999999999999999999999999999999999999995 6776432     234


Q ss_pred             cccccccccCCcccceecccCCCCCcccCCCCC--CCCC------CCCCcEEEEEecCCC-CCCCCCCCCCCCCCCCCcc
Q 004706          649 AWEIDVNASGGMNGYIWLCERNGLRSIIPSPVK--GLPD------IERNQAINVTYLNPQ-KHRHIPEPPKGATIPAKTI  719 (734)
Q Consensus       649 ~~~~~~~~~~g~~g~~~~~~~~~~~~~~~~p~~--~~~~------i~~~~~~~~~y~~p~-~~~~~~~ll~g~~~p~~~l  719 (734)
                      +++|||++|+||+|+|+.++.+.+++++.||+.  +|||      |.+|+++|+.|++|+ .+.|+|+||+||++|+++|
T Consensus       786 ~~~~~~~~s~gl~G~v~~~~~~~p~~~~~sP~~~~~~~~~~~~~~i~~n~~~~~~y~~P~~~~~~~s~lL~g~~~p~~~l  865 (899)
T 3fqd_A          786 PLKLSGKMAHGLFGKVNTNDSVIPNVSVQCPIDVTSADALQKYGSIDDNQSISLVFEVPKSHFVHKSMLLRGVKMPNRVL  865 (899)
T ss_dssp             CEECCGGGGTTCCSEEEECTTSCSCCCBCCSSCCCSHHHHHHSCCBSSCCEEEEEEECCCCSSCCCCSCCTTCCCCCCCC
T ss_pred             ccccCcccccCcceEEEeCCCcCCCCeecCCCCccCCCCccccccccCCcEEEEEEeCCCCCCCcCCcCCCCCCCCCCCC
Confidence            578999999999999999999999999999997  8999      999999999999998 8899999999999999999


Q ss_pred             cccccc
Q 004706          720 VGASKA  725 (734)
Q Consensus       720 ~~~~~~  725 (734)
                      |.+|+.
T Consensus       866 ~~~D~~  871 (899)
T 3fqd_A          866 TPEDIN  871 (899)
T ss_dssp             CHHHHH
T ss_pred             CHHHHH
Confidence            998753
>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
>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
>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
>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
>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
>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
>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 734
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 0.002
>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

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 1, different isolates [TaxId: 11676]

 Score = 34.5 bits (79), Expect = 0.002
 Identities = 9/21 (42%), Positives = 10/21 (47%)

Query: 264 KCFVCGQVGHLAAECHGKPGD 284
           KCF CG+ GH A  C      
Sbjct: 3   KCFNCGKEGHTARNCRAPRKK 23

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query734
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 97.42
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 96.6
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 95.67
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 93.92
d1nc8a_29 HIV nucleocapsid {Human immunodeficiency virus typ 91.69
d1dsqa_26 Nucleic acid binding protein p14 {Mouse mammary tu 80.52
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 80.41
>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=97.42  E-value=7.4e-05  Score=72.62  Aligned_cols=179  Identities=15%  Similarity=0.140  Sum_probs=88.0

Q ss_pred             ccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCC---CCCCCCCH---
Q 004706            2 GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPD---GKPAPTSY---   75 (734)
Q Consensus         2 GVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~---~~~~p~te---   75 (734)
                      ||.++..+|.+.-|.+++.+-=+   .. .|                 --|=||.+..+|.+....   ..+.....   
T Consensus         1 GIkgL~~~l~~~~~~~i~~~~l~---~l-~g-----------------k~vaIDas~~l~~~l~~~~~~~~~l~~~~~~~   59 (216)
T d1ul1x2           1 GIQGLAKLIADVAPSAIRENDIK---SY-FG-----------------RKVAIDASMSIYQFLIAVRQGGDVLQNEEGET   59 (216)
T ss_dssp             CCTTHHHHHHTTCTTSCCEECGG---GG-TT-----------------CCEEEEHHHHHHHHHSCC-------------C
T ss_pred             CcchHHHHHHHhCcCceEEecHH---Hc-CC-----------------CEEEEEeHHHHHHHHHHhccccchhhccCCCC
Confidence            89999999999988877643100   00 11                 247899999998753321   11100000   


Q ss_pred             HHHHHHHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCC
Q 004706           76 DDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPET  155 (734)
Q Consensus        76 ~e~~~~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~  155 (734)
                      ..-+..+|..+..|..   =.=..++.+||-+|-.|..+..+||-+.....+...    ..+    ..+.    ......
T Consensus        60 ~~~l~~~~~~~~~l~~---~~I~pifVFDG~~~~~K~~~~~~R~~~r~~~~~~~~----~~~----~~~~----~~~~~~  124 (216)
T d1ul1x2          60 TSHLMGMFYRTIRMME---NGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQ----QAQ----AAGA----EQEVEK  124 (216)
T ss_dssp             CHHHHHHHHHHHHHHH---TTCCEEEEECCSCCSCCCCCCCCC-------------------------------------
T ss_pred             cHHHHHHHHHHHHHHH---cCCeEEEEEcCCCCccccchhhhhhhhHHHhhhhHH----hhh----hcch----HHHHHH
Confidence            1222333333334332   122347889999998887666555533211100000    000    0000    011112


Q ss_pred             CCCcccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecCh
Q 004706          156 CDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDA  235 (734)
Q Consensus       156 fDsN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DA  235 (734)
                      +....++..+.....+.+.|+.            .++.+|.    .|||||.-+-.+.++         +.-..|+|.|+
T Consensus       125 ~~~~~~~i~~~~~~~~~~ll~~------------~gv~~i~----Ap~EAdaq~A~L~~~---------g~vd~v~S~Ds  179 (216)
T d1ul1x2         125 FTKRLVKVTKQHNDECKHLLSL------------MGIPYLD----APSEAEASCAALVKA---------GKVYAAATEDM  179 (216)
T ss_dssp             ----CCCCCCSCHHHHHHHHHH------------HTCCEEE----CSSCHHHHHHHHHHH---------TSSSEEECSCT
T ss_pred             hhccCeeccHHHHHHHHHHHHh------------cCeeeEe----ccchHHHHHHHHHhc---------CceEEEEcccc
Confidence            2233333333334444443331            1466776    499999877766553         34467899999


Q ss_pred             hHHHHH
Q 004706          236 DLIMLS  241 (734)
Q Consensus       236 DLImL~  241 (734)
                      |+++.|
T Consensus       180 D~l~fG  185 (216)
T d1ul1x2         180 DCLTFG  185 (216)
T ss_dssp             HHHHTT
T ss_pred             ceeccC
Confidence            999998
>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
>d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]} Back     information, alignment and structure
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure