Citrus Sinensis ID: 005531

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--
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAM
cccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccEEEEEccccccccHHHHHHHHHHHHHccccccccccEEEEEccHHHHHHHHHccccEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccEEEEEHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHHcccccccccEEEEcccHHHHHHHHHHHHHHccccccccccEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccHHHHHHHHccccccccccccccccccccccccccccEEccccccHHHHHHHHHHHHccccHHHHHHccccccEEEEccccccHHHHHHHHcccccccccccccEEEccccccccEEEEEccccccccccccccccccccccccccc
cccHHHHHHHHHHcccEEEEEEEcccccccccEEEEcccccccccccccccEEEccccEEccccccccccccccHHHHHHHHHHHHHHHHHHHcHcHEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccEEEEEEccccccccHHHHHHHHHHHHccccccccccEEEEcccHHHHHHHHHcccccEEEEEEEEEcccccccccccccccccHHHccccccccccccccccccccccccEEEEEHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHHcccEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccccEEccccccccHHHHccHccccEEEcccccccHHHHHHHHccHHcHHcccHHHHHHcccccccHHHccccccEEccccccccEEEEEEcccccHHHHHHHHHHHcccccHHHHHHccccccEEEEccccccHHHHHHHHHHcccccccccccEEccccccccccEEEEccccccccccccccccccccccccccc
MGVPAFYRWladryplsivdvveedpqvdgegvarpvdvskpnpngmefdnlyldmngiihpcfhpdgkpaptsydDVFKSIFDYIDHIFLLVRPRKLLYLAIdgvaprakmnQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLlsakekpetcdsnvitpgTQFMAVLSAALQYFIQARLnqipgwqftkvilsdanvpgegeHKIMSYIRLQrnlpgfdpntrhclyGLDADLIMLSLATHEIHFSILREVitlpgqqekcfvcgqvghlaaechgkpgdnpadwngvddtpihkkkyqFLNIWVLREYLQYeldipnppfpinferIVDDFVFLCFfvgndflphmptleIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPvavadtvklgepgykeryyadkfeisnpeeidkVKKDVVLKYVEGLCWVCRYYYQdvcswqwfypyhyapfasdlkdlsdleitfflgepfrpfdqlmgtlpaasssalpekyrnlmtdpsspiykfyppdfqidmngkrfawqgvvklpfidEKLLLRQTKKLEVFLTEEELFRNSVMLDLlyvhpqhplyQQITLYCQLyhqlppqdrfaweidvnasggmngYIWLCErnglrsiipspvkglpdiernqam
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEgvarpvdvskpnpnGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDgvaprakmnqqrTRRFRAAKDAAEAEAEEERLRKEFEEAgkllsakekpetcdsNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPvavadtvklgepgykeryyadkfeisnpeeidkvkkdvVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLrsiipspvkglpdiernqam
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTrrfraakdaaeaeaeeerlrkefeeaGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIdkvkkdvvlkyvEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAM
***PAFYRWLADRYPLSIVDVVE************************EFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVA***************************************************NVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEA*************LQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTL*********************PIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIP***************
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKM****T**************************************CDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQE****************************VDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQ*M
MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPR***************************RKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAM
*GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHL*AECH***************TPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMK********************TVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIE*****
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRxxxxxxxxxxxxxxxxxxxxxxxxxxxxLSAKEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVYEDQIFQKRTRIQQAYEYNEAMKLNARRESSEELLQAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKGLPDIERNQAM
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 ?
Query692 2.2.26 [Sep-21-2011]
Q9FQ04 947 5'-3' exoribonuclease 4 O yes no 0.989 0.723 0.771 0.0
Q9FQ02 1012 5'-3' exoribonuclease 2 O no no 0.995 0.680 0.527 0.0
Q9VM71 908 5'-3' exoribonuclease 2 h yes no 0.976 0.744 0.468 1e-179
Q9FQ03 1020 5'-3' exoribonuclease 3 O no no 0.634 0.430 0.654 1e-157
Q9H0D6 950 5'-3' exoribonuclease 2 O yes no 0.985 0.717 0.425 1e-156
Q5R4L5 950 5'-3' exoribonuclease 2 O yes no 0.982 0.715 0.425 1e-155
Q9DBR1 951 5'-3' exoribonuclease 2 O yes no 0.596 0.434 0.550 1e-129
Q5ZIP4 949 5'-3' exoribonuclease 2 O yes no 0.586 0.427 0.557 1e-129
Q9U299 975 5'-3' exoribonuclease 2 h yes no 0.604 0.428 0.542 1e-125
Q4P149 1233 5'-3' exoribonuclease 2 O N/A no 0.644 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 = 1101 bits (2848), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 534/692 (77%), Positives = 599/692 (86%), Gaps = 7/692 (1%)

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 NGYIWLCERNGLRSIIPSPVKGLPDIERNQAM 692
           NG++W  ERNG ++ + SPV GLP IE+N+A+
Sbjct: 654 NGFLWFSERNGFQTRVDSPVNGLPCIEQNRAL 685
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|Q9FQ03|XRN3_ARATH 5'-3' exoribonuclease 3 OS=Arabidopsis thaliana GN=XRN3 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|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 ?
Query692
255542378 964 5'->3' exoribonuclease, putative [Ricinu 0.995 0.714 0.807 0.0
224131346 948 predicted protein [Populus trichocarpa] 0.995 0.726 0.799 0.0
224123332 965 predicted protein [Populus trichocarpa] 0.995 0.713 0.789 0.0
359487905 950 PREDICTED: 5'-3' exoribonuclease 4-like 0.976 0.711 0.798 0.0
15221841 947 5'-3' exoribonuclease 4 [Arabidopsis tha 0.989 0.723 0.771 0.0
356505926 960 PREDICTED: 5'-3' exoribonuclease 4-like 0.989 0.713 0.787 0.0
356573066 957 PREDICTED: 5'-3' exoribonuclease 4-like 0.986 0.713 0.783 0.0
356576739 931 PREDICTED: 5'-3' exoribonuclease 4-like 0.986 0.733 0.767 0.0
4585991 965 Dhm1- and Dhm2-like protein [Arabidopsis 0.973 0.698 0.761 0.0
350537227 978 ethylene insensitive 5/7 [Solanum lycope 0.982 0.695 0.751 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 = 1157 bits (2992), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 559/692 (80%), Positives = 609/692 (88%), Gaps = 3/692 (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 NGYIWLCERNGLRSIIPSPVKGLPDIERNQAM 692
           NGY+WL ERN  RS I SPV G PDIE NQ +
Sbjct: 658 NGYLWLSERNMWRSTIASPVNGFPDIEHNQVL 689

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|4585991|gb|AAD25627.1|AC005287_29 Dhm1- and Dhm2-like protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|350537227|ref|NP_001233774.1| ethylene insensitive 5/7 [Solanum lycopersicum] gi|312063753|gb|ADQ27233.1| 5'-3' exoribonuclease 4 [Solanum lycopersicum] 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 ?
Query692
TAIR|locus:2020073 947 XRN4 "exoribonuclease 4" [Arab 0.989 0.723 0.728 1.5e-282
TAIR|locus:2005614 1020 XRN3 "5'-3' exoribonuclease 3" 0.635 0.431 0.617 5.8e-222
ZFIN|ZDB-GENE-040426-2874 952 xrn2 "5'-3' exoribonuclease 2" 0.618 0.449 0.510 6.5e-164
RGD|1310218 951 Xrn2 "5'-3' exoribonuclease 2" 0.640 0.465 0.495 1.1e-163
UNIPROTKB|E2RMS9 950 XRN2 "Uncharacterized protein" 0.606 0.442 0.513 1.7e-163
MGI|MGI:894687 951 Xrn2 "5'-3' exoribonuclease 2" 0.606 0.441 0.515 5.8e-163
UNIPROTKB|F1MKX7 951 XRN2 "Uncharacterized protein" 0.606 0.441 0.510 5.8e-163
UNIPROTKB|Q5ZIP4 949 XRN2 "5'-3' exoribonuclease 2" 0.586 0.427 0.530 9.5e-163
UNIPROTKB|F1SAU5 950 XRN2 "Uncharacterized protein" 0.606 0.442 0.513 9.5e-163
UNIPROTKB|Q9H0D6 950 XRN2 "5'-3' exoribonuclease 2" 0.606 0.442 0.510 9.5e-163
TAIR|locus:2020073 XRN4 "exoribonuclease 4" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 2715 (960.8 bits), Expect = 1.5e-282, P = 1.5e-282
 Identities = 504/692 (72%), Positives = 563/692 (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 NGYIWLCERNGLRSIIPSPVKGLPDIERNQAM 692
             NG++W  ERNG ++ + SPV GLP IE+N+A+
Sbjct:   654 NGFLWFSERNGFQTRVDSPVNGLPCIEQNRAL 685
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
MGI|MGI:894687 Xrn2 "5'-3' exoribonuclease 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1MKX7 XRN2 "Uncharacterized protein" [Bos taurus (taxid:9913)] 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, ., -0.77160.98980.7233yesno

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 ?
Query692
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, 5e-70
pfam0009818 pfam00098, zf-CCHC, Zinc knuckle 0.002
smart0034317 smart00343, ZnF_C2HC, zinc finger 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 =  450 bits (1160), 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 692
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 98.74
PTZ00217393 flap endonuclease-1; Provisional 98.41
TIGR03674338 fen_arch flap structure-specific endonuclease. End 97.66
PRK03980292 flap endonuclease-1; Provisional 97.61
smart00475259 53EXOc 5'-3' exonuclease. 95.99
cd00008240 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonucleas 95.73
PF00752101 XPG_N: XPG N-terminal domain; InterPro: IPR006085 95.11
smart0048599 XPGN Xeroderma pigmentosum G N-region. domain in n 94.88
PRK14976281 5'-3' exonuclease; Provisional 94.1
PF0086794 XPG_I: XPG I-region; InterPro: IPR006086 This entr 94.06
PF0009818 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi 92.57
KOG2519449 consensus 5'-3' exonuclease [Replication, recombin 90.7
KOG2518556 consensus 5'-3' exonuclease [Replication, recombin 89.83
COG0258310 Exo 5'-3' exonuclease (including N-terminal domain 89.23
PRK05755 880 DNA polymerase I; Provisional 87.44
TIGR00593 887 pola DNA polymerase I. This family is based on the 81.71
>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=2.1e-250  Score=2051.24  Aligned_cols=681  Identities=59%  Similarity=1.025  Sum_probs=625.7

Q ss_pred             CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCCCCCCHHHHHH
Q 005531            1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFK   80 (692)
Q Consensus         1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~e~DnLYlDmNgIIH~c~h~~~~~~p~te~e~~~   80 (692)
                      ||||+|||||++|||++|++|+|++|.+. +|+.||+|.|+|||||+||||||||||||||||+||+++|+|+||+|||+
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 005531           81 SIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDSNV  160 (692)
Q Consensus        81 ~If~yid~lv~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~e~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~fDsN~  160 (692)
                      +||+||||||.||||||||||||||||||||||||||||||||||++++++++++++++++++|..++++.++++|||||
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 005531          161 ITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIML  240 (692)
Q Consensus       161 ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEhKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL  240 (692)
                      |||||+||++|+.+|+|||+.||++||+|+||+||+|||+||||||||||+|||+||++|+|||||+|||||+|||||||
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 005531          241 SLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDI  320 (692)
Q Consensus       241 ~Lathe~~f~ILRe~v~~~~~~~~c~~c~~~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~i~~LREyL~~e~~~  320 (692)
                      |||||||||+||||+++ |+++++|++|||+||.+++|.|+....  +.+.....+..+++|+||+||+|||||+.||.+
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 999999999999999999999986411  112222334678999999999999999999999


Q ss_pred             CCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCccccccchHHHHHHHHHHHhhhcCCccccCCeechHHHHHHHHHHHHh
Q 005531          321 PNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAVY  400 (692)
Q Consensus       321 ~~~~f~~d~eriIDDfVfLcf~~GNDFLPhlpsl~I~egaid~Li~~Yk~~l~~~~gYLt~~g~inl~~l~~~l~~l~~~  400 (692)
                      |++||+||+||+||||||||||||||||||||||+|||||||+|+++||+.+++|+||||++|.+||.||+.||+.||..
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 005531          401 EDQIFQKRTRIQQAYEYNEAMKLNARRES-----------------------------------------SEELL-----  434 (692)
Q Consensus       401 E~~if~~r~~~~~~~~~~~~~~~~~r~~~-----------------------------------------~~~~~-----  434 (692)
                      |++||++|.+.+.+++.....+.+.+++.                                         .++.+     
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            99999999766655553322111111000                                         00000     


Q ss_pred             ----------cCccccccccccCCcchHHhHHHHhhCCCChhhHHHHHHHHHHHHHHHHHHHhhhhccCcCccccccCCC
Q 005531          435 ----------QAPVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYH  504 (692)
Q Consensus       435 ----------~~~~~~~d~v~l~e~~~k~rYY~~Kf~~~~~~~~~~~~~~~~~~Y~eGl~Wvl~YYy~G~~SW~WyYPyH  504 (692)
                                .+..+..|+|+|+|+|||+|||++||++++++  +++|++||.+|||||||||+||||||+||+||||||
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             CCcchhchhcccCccccccCCCCCChHHHhhhcCCCCCCCCchHHhhhccCCCCCcccccCCCcccccCCCCccceeeee
Q 005531          505 YAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVV  584 (692)
Q Consensus       505 YAPfasDl~~l~~~~i~F~~g~P~~P~eQLm~VlP~~S~~~LP~~~~~Lm~~~~SpI~dfYP~df~iD~nGk~~~WqgV~  584 (692)
                      ||||||||.+|++++|+|++|+||+||||||+||||+|+|+||+.||.||+||+|||+||||+||+||||||+|+|||||
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             cccCCChHHHHHHHhhhccCCCHHHHhhccCCCcEEEEcCCCccHHHHHHHhhhccCCCCCCCcceeccCCccCCcceeE
Q 005531          585 KLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYI  664 (692)
Q Consensus       585 lLPFID~~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~g~~  664 (692)
                      |||||||+|||+|+++++++||+||++||+.|.|+||++++||+++.|.++|++..+ ++...  +++-...+.|++|.+
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 LLPFIDERRLLSAVAKVYPTLTDEEKRRNSRGPDLLFISDKHPLFEFILQLYSKKKK-SNEKN--VKLAHGVDPGLNGAI  711 (931)
T ss_pred             cccccchhhHHHHHHhhccccCHHHHhccccCCceEEecCCCchHHHHHHHHHhhcc-Ccccc--cccccccCcccceee
Confidence            999999999999999999999999999999999999999999999999999998654 22222  244556667999999


Q ss_pred             ecccCCCCCcccCCCCCCCCCCccCC
Q 005531          665 WLCERNGLRSIIPSPVKGLPDIERNQ  690 (692)
Q Consensus       665 ~~~~~~~~~~~~~~p~~~~~~~~~~~  690 (692)
                      .+++.......+.||..++-+...+.
T Consensus       712 ~~~~~~~~~~i~~~p~~~~~~~~~~~  737 (931)
T KOG2044|consen  712 SKDPEGLESGISKSPPGGLSDYNTNT  737 (931)
T ss_pred             ccCccccccccccCChhhcccCCccc
Confidence            99887766667888887766655543

>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
>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
>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
>TIGR00593 pola DNA polymerase I 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 ?
Query692
2y35_A 1140 Crystal Structure Of Xrn1-Substrate Complex Length 1e-108
3fqd_A 899 Crystal Structure Of The S. Pombe Rat1-Rai1 Complex 8e-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 =  390 bits (1003), Expect = e-108,   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 ?
Query692
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 2e-73
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 1e-106
3pie_A 1155 5'->3' exoribonuclease (XRN1); beta berrel, tudor 7e-63
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 9e-10
2cqf_A63 RNA-binding protein LIN-28; CCHC zinc-finger, stru 4e-05
2li8_A74 Protein LIN-28 homolog A; zinc finger, micro RNA, 6e-05
2ihx_A61 Nucleocapsid (NC) protein; protein-RNA complex, vi 2e-04
1cl4_A60 Protein (GAG polyprotein); nucleocapsid protein, R 9e-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 =  496 bits (1277), 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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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 692
d2exfa142 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunod 0.001
>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 = 34.8 bits (80), Expect = 0.001
 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 ?
Query692
d1ul1x2216 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 97.77
d1rxwa2217 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Arc 97.27
d1b43a2219 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Pyr 96.68
d1a77a2207 Flap endonuclease-1 (Fen-1 nuclease) {Archaeon Met 94.78
d1ul1x1140 Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo 84.74
>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=97.77  E-value=2.9e-05  Score=50.68  Aligned_cols=180  Identities=14%  Similarity=0.120  Sum_probs=93.9

Q ss_pred             CCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCC---CCCCCCCH---
Q ss_conf             611488999953898621244579855899964477888999998656807862234323321578---99999999---
Q 005531            2 GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPD---GKPAPTSY---   75 (692)
Q Consensus         2 GVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~~~pnpn~~e~DnLYlDmNgIIH~c~h~~---~~~~p~te---   75 (692)
                      ||.++..+|.+.-|.+++++.=+   .                  ..---+=||.+..+|.+....   ..+.....   
T Consensus         1 GIkgL~~~l~~~~~~~i~~~~l~---~------------------l~gk~vaIDas~~l~~~l~~~~~~~~~l~~~~~~~   59 (216)
T d1ul1x2           1 GIQGLAKLIADVAPSAIRENDIK---S------------------YFGRKVAIDASMSIYQFLIAVRQGGDVLQNEEGET   59 (216)
T ss_dssp             CCTTHHHHHHTTCTTSCCEECGG---G------------------GTTCCEEEEHHHHHHHHHSCC-------------C
T ss_pred             CCCHHHHHHHHHCCCCEEEECHH---H------------------CCCCEEEEEEHHHHHHHHHHHCCCCCHHHCCCCCC
T ss_conf             93327999887586736883689---9------------------39988999808999999987265665112058997


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             99999999999998744054306887632888414557988744434998999999999999999980765687888887
Q 005531           76 DDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPET  155 (692)
Q Consensus        76 ~e~~~~if~yid~lv~~vrPrklLyiAiDGVAPrAKmnQQRsRRfrsa~e~~~~~~~~~~l~~~~~~eg~~~~~~~~~~~  155 (692)
                      ...+..+|..+..|.   +=.=..++.+||-+|-.|..+...||-+..........        ....+.    ......
T Consensus        60 ~~~l~~~~~~~~~l~---~~~I~pifVFDG~~~~~K~~~~~~R~~~r~~~~~~~~~--------~~~~~~----~~~~~~  124 (216)
T d1ul1x2          60 TSHLMGMFYRTIRMM---ENGIKPVYVFDGKPPQLKSGELAKRSERRAEAEKQLQQ--------AQAAGA----EQEVEK  124 (216)
T ss_dssp             CHHHHHHHHHHHHHH---HTTCCEEEEECCSCCSCCCCCCCCC-------------------------------------
T ss_pred             CHHHHHHHHHHHHHH---HCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHH--------HHHCCH----HHHHHH
T ss_conf             189999999999999---76986999976888852433124445667776655776--------531005----999998


Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCEEEEECCH
Q ss_conf             87753135518999999999999999982199986418999299999971468999999853199999998289980681
Q 005531          156 CDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDA  235 (692)
Q Consensus       156 fDsN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEhKIm~fIR~qr~~p~ydpn~~H~IyG~DA  235 (692)
                      +....++..+.....+...|+.            .++.+|.    .|||||.-+..+.++         +....|+|.|+
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
T ss_conf             6135713468899999999874------------0721673----640589999999864---------93699982651


Q ss_pred             HHHHHHH
Q ss_conf             3899773
Q 005531          236 DLIMLSL  242 (692)
Q Consensus       236 DLImL~L  242 (692)
                      |+++.|-
T Consensus       180 D~l~fG~  186 (216)
T d1ul1x2         180 DCLTFGS  186 (216)
T ss_dssp             HHHHTTC
T ss_pred             CEECCCC
T ss_conf             0111188
>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
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease) {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure