Citrus Sinensis ID: 004927

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---
MLSILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSYEKLRKSYDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTSGEDASPASGKDSSVPEPVWDDEETRAFYECLPDLRAFVPAVLLGEAEHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAEVSADLGASPEGKSVEKGKDKEEKEKEKAKDPDKEKGKGKDKEEKDKEKAKDPDKEKGKEKDTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
ccHHHHHHHHHHHHHHHccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHccccccccccccccccHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHcccccccccccHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccHHHHHHHHccccccccccccccHHHHHccccccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHccccEEEEEcccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHcHHHcccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHcccccHHHHHHHHHccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHcccccccEEEEccccccc
cccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHcccHHccccccccHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccHHHHHHHHccHcHHHHccHHHcccccccccccccccccccccccHHHHHccccHHHHHHHHHHcccccccccHcccccHHHHHHHHcccccHHHcccccccccccHcccccccccccccccHHccHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccHcHHHHHHHHHHHcccEEccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHHHccccHHHHHHHHHHcccccHHHHHHHHHccccccccccHHHHHHHHHHHHHHcccHEEEEEccEEEcc
MLSILEVRYQLIMFILVsddctkfpfciknksncICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRykdfspclidgllkvffpgksgedldADRNLKAMKKRSTLKLLLELYFIGIIEDSSIFINIIKDLtsiehlkdrdttqTNLTLLASFARQGRiflglplsgpgqEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNakgelseenssSYEKLRKSYDHLYRNVSSLAealdmqppvmpedvhttrvtsgedaspasgkdssvpepvwddeetrAFYECLPDLRAFVPAVLLgeaehkanepsvkpleqptdpasepdqgqlaaQDTAEVSadlgaspegksvekgkDKEEKEkekakdpdkekgkgkdkeekdkekakdpdkekgkekdtERKVETEKEklkgvegtnLDALLQrlpgcvsrdlIDQLTVEFCYLNSKSNRKRLVRALFNvprtslellpYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCkfkiapaglVFSCLKACLDDFTHHNIDVACNLLETCgrflyrspeTSIRMANMLEILMRLknvknldprhvTLVENayylckppersarvskvrppLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKvhkgkygqIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
MLSILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKIlnakgelseenssSYEKLRKSYDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTsgedaspasgkdssvpepvwDDEETRAFYECLPDLRAFVPAVLLGEAEHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAEVSadlgaspegksvekgkdkeekekekakdpdkekgkgkdkeekdkekakdpdkekgkekdterkvetekeklkgvegtnldALLQRLPGCVSRDLIDQLTVEFCYlnsksnrkRLVRALFNvprtslellpYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAyylckppersarvskvrpPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
MLSILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKyianiyiytytlllglwltlvyflKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYfigiiedssifiniiKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSYEKLRKSYDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTSGEDASPASGKDSSVPEPVWDDEETRAFYECLPDLRAFVPAVLLGEAEHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAEVSADLGASPEGKSVekgkdkeekekekakdpdkekgkgkdkeekdkekakdpdkekgkekdTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
***ILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGK***************KRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQA*******************************************************************************************ETRAFYECLPDLRAFVPAVLLG******************************************************************************************************************TNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPP*****VSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFC*
*******RYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLK*********************KRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGP************NITADQKKIFKKAFHTYYNAVQELLQAEHTS*******************************SYDHLYRNVSSLAEALDM********************************************ECLPDLRAFVP*************************************************************************************************************************LDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKD**NIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEI**************VTLVENAYYL******************QYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
MLSILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAK************KLRKSYDHLYRNVSSLAEALDMQPPVMPEDV***********************PVWDDEETRAFYECLPDLRAFVPAVLLGEAEH*********************************************************************************************************KGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
*LSILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSYEKLRKSYDHLYRNVSSLAEALDMQPPV***************************EPVWDDEETRAFYECLPDLRAFVPAVLLGE************************************************************************************************************KGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MLSILEVRYQLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIGIIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxNSSSYEKLRKSYDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTSGEDASPASGKDSSVPEPVWDDEETRAFYECLPDLRAFVPAVLLGEAEHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAEVSADLGASPEGKSVEKGKDKEEKEKEKAKDPDKEKGKGKDKEEKDKEKAKDPDKEKGKEKDTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLxxxxxxxxxxxxxxxxxxxxxTKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFCY
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 ?
Query723 2.2.26 [Sep-21-2011]
Q9HAU5 1272 Regulator of nonsense tra yes no 0.854 0.485 0.392 1e-117
O13824 1049 Nonsense-mediated mRNA de yes no 0.506 0.348 0.295 1e-45
P38798 1089 Nonsense-mediated mRNA de yes no 0.406 0.269 0.279 8e-27
F1QBY1 2876 Nipped-B-like protein B O no no 0.087 0.021 0.432 0.0004
Q6BU84 637 Pre-mRNA-splicing factor no no 0.279 0.317 0.223 0.0007
>sp|Q9HAU5|RENT2_HUMAN Regulator of nonsense transcripts 2 OS=Homo sapiens GN=UPF2 PE=1 SV=1 Back     alignment and function desciption
 Score =  422 bits (1086), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 262/668 (39%), Positives = 377/668 (56%), Gaps = 50/668 (7%)

Query: 61  LKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIG 120
           + +CSL HQRY DF+P L+    K F      E    ++     K R+ L+ + EL  +G
Sbjct: 223 VHLCSLFHQRYADFAPSLLQVWKKHF------EARKEEKTPNITKLRTDLRFIAELTIVG 276

Query: 121 IIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQ-GRIFLGL---PLSGPGQEI 176
           I  D      I + L +I +  DR++  T+++++ SF R  G    GL    +    ++ 
Sbjct: 277 IFTDKEGLSLIYEQLKNIIN-ADRES-HTHVSVVISFCRHCGDDIAGLVPRKVKSAAEKF 334

Query: 177 YEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEE 236
              F     I+ ++++ F+     Y+ ++ + L+ +H  L+  E +N +IL++KGELSE+
Sbjct: 335 NLSFPPSEIISPEKQQPFQNLLKEYFTSLTKHLKRDHRELQNTERQNRRILHSKGELSED 394

Query: 237 NSSSYEKLRKSYDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTS-GEDA-SPASGKDSSV 294
               YE+   SY  L  N  SLA+ LD   P +P+D  T      G D  +P    +  +
Sbjct: 395 RHKQYEEFAMSYQKLLANSQSLADLLDENMPDLPQDKPTPEEHGPGIDIFTPGKPGEYDL 454

Query: 295 PEPVWDDEETRAFYECLPDLRAFVPAVLLGEAEHKANEPSVKPLEQPTDPASEPDQGQLA 354
              +W+DE+ R FYE L DL+AFVPA+L      K NE S +  E   D           
Sbjct: 455 EGGIWEDEDARNFYENLIDLKAFVPAILF-----KDNEKSCQNKESNKD----------- 498

Query: 355 AQDTAEVSADLGASPEGKSVEKGKDKEEKEKEKAKDPDKEKGKGKDKEEKDKEKAKDPDK 414
             DT E       S E K V    D E + +    + D  + +G D+       A+D  K
Sbjct: 499 --DTKEAKE----SKENKEVSSPDDLELELENLEINDDTLELEGGDE-------AEDLTK 545

Query: 415 EKGKEKDTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCY-LNSKSNR 473
           +   E++ E +  +    LK +    +DA LQ+LP CV+RDLID+  ++FC  +N+K+NR
Sbjct: 546 KLLDEQEQEDEEASTGSHLKLI----VDAFLQQLPNCVNRDLIDKAAMDFCMNMNTKANR 601

Query: 474 KRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIE 533
           K+LVRALF VPR  L+LLP+Y+R+VATL  CM DV+  L  ML  +F F + KKDQ+NIE
Sbjct: 602 KKLVRALFIVPRQRLDLLPFYARLVATLHPCMSDVAEDLCSMLRGDFRFHVRKKDQINIE 661

Query: 534 TKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETS 593
           TK + +RFIGEL KFK+        CLK  L DF+HH+I++AC LLETCGRFL+RSPE+ 
Sbjct: 662 TKNKTVRFIGELTKFKMFTKNDTLHCLKMLLSDFSHHHIEMACTLLETCGRFLFRSPESH 721

Query: 594 IRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFS 653
           +R + +LE +MR K   +LD R+VT+VENAYY C PP     V K RPPL +Y+RKLL+ 
Sbjct: 722 LRTSVLLEQMMRKKQAMHLDARYVTMVENAYYYCNPPPAEKTVKKKRPPLQEYVRKLLYK 781

Query: 654 DLDKSSIEHVLRQLRKLPWSDCE--SYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEF 711
           DL K + E VLRQ+RKLPW D E   Y++ C + +   KY  IH +A+L AGL  Y ++ 
Sbjct: 782 DLSKVTTEKVLRQMRKLPWQDQEVKDYVICCMINIWNVKYNSIHCVANLLAGLVLYQEDV 841

Query: 712 AVAVVDEV 719
            + VVD V
Sbjct: 842 GIHVVDGV 849
Involved in nonsense-mediated decay (NMD) of mRNAs containing premature stop codons by associating with the nuclear exon junction complex (EJC). Recruited by UPF3B associated with the EJC core at the cytoplasmic side of the nuclear envelope and the subsequent formation of an UPF1-UPF2-UPF3 surveillance complex (including UPF1 bound to release factors at the stalled ribosome) is believed to activate NMD. In cooperation with UPF3B stimulates both ATPase and RNA helicase activities of UPF1. Binds spliced mRNA.
Homo sapiens (taxid: 9606)
>sp|O13824|NMD2_SCHPO Nonsense-mediated mRNA decay protein 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=upf2 PE=1 SV=1 Back     alignment and function description
>sp|P38798|NMD2_YEAST Nonsense-mediated mRNA decay protein 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=NMD2 PE=1 SV=2 Back     alignment and function description
>sp|F1QBY1|NIPLB_DANRE Nipped-B-like protein B OS=Danio rerio GN=nipblb PE=2 SV=1 Back     alignment and function description
>sp|Q6BU84|CWC22_DEBHA Pre-mRNA-splicing factor CWC22 OS=Debaryomyces hansenii (strain ATCC 36239 / CBS 767 / JCM 1990 / NBRC 0083 / IGC 2968) GN=CWC22 PE=3 SV=2 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query723
296086085 1193 unnamed protein product [Vitis vinifera] 0.879 0.533 0.842 0.0
359486551 1222 PREDICTED: regulator of nonsense transcr 0.879 0.520 0.842 0.0
255565870 824 Regulator of nonsense transcripts, putat 0.865 0.759 0.840 0.0
224109654 1194 predicted protein [Populus trichocarpa] 0.878 0.531 0.836 0.0
449452126 1195 PREDICTED: regulator of nonsense transcr 0.878 0.531 0.819 0.0
449524126 1144 PREDICTED: LOW QUALITY PROTEIN: regulato 0.878 0.555 0.812 0.0
356556505 1187 PREDICTED: regulator of nonsense transcr 0.876 0.534 0.780 0.0
124359836 1212 Initiation factor eIF-4 gamma, middle; U 0.879 0.524 0.793 0.0
356530553 1188 PREDICTED: regulator of nonsense transcr 0.876 0.533 0.781 0.0
49389189 1190 putative hUPF2 [Oryza sativa Japonica Gr 0.869 0.528 0.752 0.0
>gi|296086085|emb|CBI31526.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score = 1110 bits (2871), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 555/659 (84%), Positives = 591/659 (89%), Gaps = 23/659 (3%)

Query: 61  LKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGEDLDADRNLKAMKKRSTLKLLLELYFIG 120
           ++ICSLLHQRYKDFSP LI GLLKVFFPGKSG++LD DRNLKAMKKRSTLKLLLELYF+G
Sbjct: 117 VQICSLLHQRYKDFSPSLIQGLLKVFFPGKSGDELDLDRNLKAMKKRSTLKLLLELYFVG 176

Query: 121 IIEDSSIFINIIKDLTSIEHLKDRDTTQTNLTLLASFARQGRIFLGLPLSGPGQEIYEEF 180
           ++EDS IFINIIKDLTSIEHLKDRDTTQTNL+LLASFARQGRIFLG PLSG  QEI+EEF
Sbjct: 177 VVEDSGIFINIIKDLTSIEHLKDRDTTQTNLSLLASFARQGRIFLGFPLSG--QEIHEEF 234

Query: 181 FKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSS 240
           FKGLNITAD KKIF+KAFHTYY+A  ELLQAEHTSLRQME+ENAKILNAKGELS+EN SS
Sbjct: 235 FKGLNITADHKKIFRKAFHTYYDAAAELLQAEHTSLRQMEHENAKILNAKGELSDENVSS 294

Query: 241 YEKLRKSYDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTSGEDASPASGKDSSVPEPVWD 300
           YEKLRKSYDHLYR VSSLAEALDMQPPVMPED HTTRVTSGED S  + K+SS  E VWD
Sbjct: 295 YEKLRKSYDHLYRGVSSLAEALDMQPPVMPEDGHTTRVTSGEDVSSPAAKESSALEAVWD 354

Query: 301 DEETRAFYECLPDLRAFVPAVLLGEAEHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAE 360
           DE+TRAFYECLPDLRAFVPAVLLGEAE K NE S K  EQPTD A E DQ Q   QD AE
Sbjct: 355 DEDTRAFYECLPDLRAFVPAVLLGEAEPKVNEQSAKTQEQPTDLAPEADQSQSVNQDAAE 414

Query: 361 VSADLGASPEGKSVEKGKDKEEKEKEKAKDPDKEKGKGKDKEEKDKEKAKDPDKEKGKEK 420
           +S D  +  EG+S                       KGKDKEEK+KEK+KDPDKEKGKE+
Sbjct: 415 ISVDSCSPREGRS---------------------NEKGKDKEEKEKEKSKDPDKEKGKER 453

Query: 421 DTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRAL 480
           D +RK E EKEKLKG+EGTNLD LLQRLPGCVSRDLIDQLTV+FCYLNSKSNRKRLVRAL
Sbjct: 454 DADRKGENEKEKLKGLEGTNLDGLLQRLPGCVSRDLIDQLTVDFCYLNSKSNRKRLVRAL 513

Query: 481 FNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIR 540
           FNVPRTSLELLPYYSRMVATLSTCMKDVSSML+Q+LEEEFNFLINKKDQMNIETKIRNIR
Sbjct: 514 FNVPRTSLELLPYYSRMVATLSTCMKDVSSMLLQLLEEEFNFLINKKDQMNIETKIRNIR 573

Query: 541 FIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANML 600
           F+GELCKF+IAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPET++RMANML
Sbjct: 574 FLGELCKFRIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETTVRMANML 633

Query: 601 EILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSI 660
           EILMRLKNVKNLDPRH TLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSI
Sbjct: 634 EILMRLKNVKNLDPRHSTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSI 693

Query: 661 EHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEV 719
           EHVLRQLRKLPWS+CE YLLKCFMKVH+GKYGQIHLIASLT+GLSRYHD+FAV+VVDEV
Sbjct: 694 EHVLRQLRKLPWSECEPYLLKCFMKVHRGKYGQIHLIASLTSGLSRYHDDFAVSVVDEV 752

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359486551|ref|XP_002275646.2| PREDICTED: regulator of nonsense transcripts 2-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|255565870|ref|XP_002523924.1| Regulator of nonsense transcripts, putative [Ricinus communis] gi|223536854|gb|EEF38493.1| Regulator of nonsense transcripts, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|224109654|ref|XP_002315268.1| predicted protein [Populus trichocarpa] gi|222864308|gb|EEF01439.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|449452126|ref|XP_004143811.1| PREDICTED: regulator of nonsense transcripts 2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449524126|ref|XP_004169074.1| PREDICTED: LOW QUALITY PROTEIN: regulator of nonsense transcripts 2-like, partial [Cucumis sativus] Back     alignment and taxonomy information
>gi|356556505|ref|XP_003546565.1| PREDICTED: regulator of nonsense transcripts 2-like [Glycine max] Back     alignment and taxonomy information
>gi|124359836|gb|ABD32424.2| Initiation factor eIF-4 gamma, middle; Up-frameshift suppressor 2 [Medicago truncatula] Back     alignment and taxonomy information
>gi|356530553|ref|XP_003533845.1| PREDICTED: regulator of nonsense transcripts 2-like [Glycine max] Back     alignment and taxonomy information
>gi|49389189|dbj|BAD26479.1| putative hUPF2 [Oryza sativa Japonica Group] gi|125582966|gb|EAZ23897.1| hypothetical protein OsJ_07617 [Oryza sativa Japonica Group] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query723
TAIR|locus:2056038 1181 AT2G39260 "AT2G39260" [Arabido 0.412 0.252 0.842 2.3e-249
ZFIN|ZDB-GENE-090715-1 1011 upf2 "UPF2 regulator of nonsen 0.405 0.289 0.52 5.5e-111
UNIPROTKB|E2RL95 1271 UPF2 "Uncharacterized protein" 0.405 0.230 0.523 3e-110
UNIPROTKB|E2RLB0 1271 UPF2 "Uncharacterized protein" 0.405 0.230 0.523 3e-110
UNIPROTKB|F1MQ83 1273 UPF2 "Uncharacterized protein" 0.405 0.230 0.523 8e-110
UNIPROTKB|E1C0M6 1263 UPF2 "Uncharacterized protein" 0.405 0.231 0.523 1.5e-109
UNIPROTKB|Q9HAU5 1272 UPF2 "Regulator of nonsense tr 0.405 0.230 0.523 2.7e-109
ASPGD|ASPL0000002256 1170 nmdA [Emericella nidulans (tax 0.410 0.253 0.412 3.1e-76
FB|FBgn0029992 1241 Upf2 "Upf2" [Drosophila melano 0.384 0.224 0.409 5e-72
DICTYBASE|DDB_G0281623 1395 upf2 "eukaryotic initiation fa 0.394 0.204 0.356 5.5e-63
TAIR|locus:2056038 AT2G39260 "AT2G39260" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1350 (480.3 bits), Expect = 2.3e-249, Sum P(2) = 2.3e-249
 Identities = 251/298 (84%), Positives = 280/298 (93%)

Query:   422 TERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALF 481
             +E+K+E EKEK K ++  N + LLQRLPGCVSRDLIDQLTVE+CYLNSK+NRK+LV+ALF
Sbjct:   448 SEKKMEHEKEKGKSLDVANFERLLQRLPGCVSRDLIDQLTVEYCYLNSKTNRKKLVKALF 507

Query:   482 NVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRF 541
             NVPRTSLELL YYSRMVATL++CMKD+ SML+QMLE+EFN L++KKDQMNIETKIRNIRF
Sbjct:   508 NVPRTSLELLAYYSRMVATLASCMKDIPSMLVQMLEDEFNSLVHKKDQMNIETKIRNIRF 567

Query:   542 IGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLE 601
             IGELCKFKI PAGLVFSCLKACLD+FTHHNIDVACNLLETCGRFLYRSPET++RM NML+
Sbjct:   568 IGELCKFKIVPAGLVFSCLKACLDEFTHHNIDVACNLLETCGRFLYRSPETTLRMTNMLD 627

Query:   602 ILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIE 661
             ILMRLKNVKNLDPR  TLVENAYYLCKPPERSAR+SKVRPPLHQY+RKLLFSDLDK SI 
Sbjct:   628 ILMRLKNVKNLDPRQSTLVENAYYLCKPPERSARISKVRPPLHQYVRKLLFSDLDKDSIA 687

Query:   662 HVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEV 719
             +VL+QLRKLPWS+CE Y+LKCFMKVHKGKYGQIHLIASLT+GLSR+HDEF VAVVDEV
Sbjct:   688 NVLKQLRKLPWSECEQYILKCFMKVHKGKYGQIHLIASLTSGLSRHHDEFVVAVVDEV 745
GO:0003723 "RNA binding" evidence=ISS
GO:0005737 "cytoplasm" evidence=ISM
GO:0006412 "translation" evidence=ISS
GO:0000278 "mitotic cell cycle" evidence=RCA
GO:0000956 "nuclear-transcribed mRNA catabolic process" evidence=RCA
GO:0006396 "RNA processing" evidence=RCA
GO:0009630 "gravitropism" evidence=RCA
GO:0019344 "cysteine biosynthetic process" evidence=RCA
ZFIN|ZDB-GENE-090715-1 upf2 "UPF2 regulator of nonsense transcripts homolog (yeast)" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|E2RL95 UPF2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|E2RLB0 UPF2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|F1MQ83 UPF2 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E1C0M6 UPF2 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|Q9HAU5 UPF2 "Regulator of nonsense transcripts 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
ASPGD|ASPL0000002256 nmdA [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
FB|FBgn0029992 Upf2 "Upf2" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0281623 upf2 "eukaryotic initiation factor 4 gamma, middle domain-containing protein" [Dictyostelium discoideum (taxid:44689)] 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
OsI_08170
Os02g0631500 (1190 aa)
(Oryza sativa Indica)
Predicted Functional Partners:
OsI_26082
Putative uncharacterized protein (1252 aa)
   •••• 0.936
OsI_11548
Putative uncharacterized protein (855 aa)
     •• 0.439
OsI_18397
Os05g0140500 (195 aa)
    ••• 0.439
OsI_13912
40S ribosomal protein S15 (362 aa)
    ••  0.417

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 ?
Query723
smart00543200 smart00543, MIF4G, Middle domain of eukaryotic ini 5e-36
pfam02854198 pfam02854, MIF4G, MIF4G domain 3e-34
pfam02854 198 pfam02854, MIF4G, MIF4G domain 3e-08
smart00543 200 smart00543, MIF4G, Middle domain of eukaryotic ini 1e-07
pfam08208193 pfam08208, RNA_polI_A34, DNA-directed RNA polymera 2e-06
PRK14718467 PRK14718, PRK14718, ribonuclease III; Provisional 2e-05
pfam10243506 pfam10243, MIP-T3, Microtubule-binding protein MIP 2e-05
pfam10243506 pfam10243, MIP-T3, Microtubule-binding protein MIP 4e-05
pfam10243506 pfam10243, MIP-T3, Microtubule-binding protein MIP 4e-05
PRK04195482 PRK04195, PRK04195, replication factor C large sub 4e-05
pfam10243506 pfam10243, MIP-T3, Microtubule-binding protein MIP 1e-04
PRK04195482 PRK04195, PRK04195, replication factor C large sub 2e-04
PTZ001212084 PTZ00121, PTZ00121, MAEBL; Provisional 2e-04
pfam08208193 pfam08208, RNA_polI_A34, DNA-directed RNA polymera 4e-04
pfam07423214 pfam07423, DUF1510, Protein of unknown function (D 4e-04
TIGR02794346 TIGR02794, tolA_full, TolA protein 4e-04
PRK13108460 PRK13108, PRK13108, prolipoprotein diacylglyceryl 4e-04
pfam07423214 pfam07423, DUF1510, Protein of unknown function (D 5e-04
PRK04195482 PRK04195, PRK04195, replication factor C large sub 6e-04
pfam07423214 pfam07423, DUF1510, Protein of unknown function (D 6e-04
pfam08208193 pfam08208, RNA_polI_A34, DNA-directed RNA polymera 0.001
PRK04195482 PRK04195, PRK04195, replication factor C large sub 0.001
PRK04195482 PRK04195, PRK04195, replication factor C large sub 0.001
pfam08432182 pfam08432, DUF1742, Fungal protein of unknown func 0.001
pfam10243506 pfam10243, MIP-T3, Microtubule-binding protein MIP 0.002
PTZ00121 2084 PTZ00121, PTZ00121, MAEBL; Provisional 0.002
pfam08432182 pfam08432, DUF1742, Fungal protein of unknown func 0.002
pfam14181155 pfam14181, YqfQ, YqfQ-like protein 0.002
smart00543200 smart00543, MIF4G, Middle domain of eukaryotic ini 0.003
pfam10243506 pfam10243, MIP-T3, Microtubule-binding protein MIP 0.003
COG4499434 COG4499, COG4499, Predicted membrane protein [Func 0.003
>gnl|CDD|214713 smart00543, MIF4G, Middle domain of eukaryotic initiation factor 4G (eIF4G) Back     alignment and domain information 
 Score =  134 bits (339), Expect = 5e-36
 Identities = 48/198 (24%), Positives = 92/198 (46%), Gaps = 13/198 (6%)

Query: 445 LQRLPGCVSRDLIDQLTVEFCYLN--SKSNRKRLVRALFNVPRTSLELLPYYSRMVATLS 502
           ++ L   +S    + +  E   LN   K+ RK ++  +F         +P Y+R+ A L+
Sbjct: 4   VKGLINKLSPSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCALLN 63

Query: 503 TCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKA 562
               D  S+L++ L+EEF   +  +++ + + ++  +RF+GEL  F++  + ++   LK 
Sbjct: 64  AKNPDFGSLLLERLQEEFEKGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKE 123

Query: 563 CLDDFT-------HHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVK---NL 612
            L+D T         +++   +LL TCG+ L R  ++   +  +LE L      K    L
Sbjct: 124 LLNDLTKLDPPRSDFSVECLLSLLPTCGKDLER-EKSPKLLDEILERLQDYLLKKDKTEL 182

Query: 613 DPRHVTLVENAYYLCKPP 630
             R   ++E    L K  
Sbjct: 183 SSRLRFMLELLIELRKNK 200

Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press). Length = 200
>gnl|CDD|217253 pfam02854, MIF4G, MIF4G domain Back     alignment and domain information
>gnl|CDD|217253 pfam02854, MIF4G, MIF4G domain Back     alignment and domain information
>gnl|CDD|214713 smart00543, MIF4G, Middle domain of eukaryotic initiation factor 4G (eIF4G) Back     alignment and domain information
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34 Back     alignment and domain information
>gnl|CDD|173181 PRK14718, PRK14718, ribonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3 Back     alignment and domain information
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3 Back     alignment and domain information
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3 Back     alignment and domain information
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional Back     alignment and domain information
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3 Back     alignment and domain information
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional Back     alignment and domain information
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional Back     alignment and domain information
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34 Back     alignment and domain information
>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510) Back     alignment and domain information
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein Back     alignment and domain information
>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase; Reviewed Back     alignment and domain information
>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510) Back     alignment and domain information
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional Back     alignment and domain information
>gnl|CDD|219408 pfam07423, DUF1510, Protein of unknown function (DUF1510) Back     alignment and domain information
>gnl|CDD|219746 pfam08208, RNA_polI_A34, DNA-directed RNA polymerase I subunit RPA34 Back     alignment and domain information
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional Back     alignment and domain information
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit; Provisional Back     alignment and domain information
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742) Back     alignment and domain information
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3 Back     alignment and domain information
>gnl|CDD|173412 PTZ00121, PTZ00121, MAEBL; Provisional Back     alignment and domain information
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742) Back     alignment and domain information
>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein Back     alignment and domain information
>gnl|CDD|214713 smart00543, MIF4G, Middle domain of eukaryotic initiation factor 4G (eIF4G) Back     alignment and domain information
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3 Back     alignment and domain information
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 723
KOG2051 1128 consensus Nonsense-mediated mRNA decay 2 protein [ 100.0
smart00543200 MIF4G Middle domain of eukaryotic initiation facto 99.84
PF02854209 MIF4G: MIF4G domain; InterPro: IPR003890 This entr 99.72
PF02854209 MIF4G: MIF4G domain; InterPro: IPR003890 This entr 98.22
smart00543200 MIF4G Middle domain of eukaryotic initiation facto 98.15
KOG2140 739 consensus Uncharacterized conserved protein [Gener 98.12
KOG2051 1128 consensus Nonsense-mediated mRNA decay 2 protein [ 98.02
KOG2141 822 consensus Protein involved in high osmolarity sign 97.71
KOG0401 970 consensus Translation initiation factor 4F, riboso 93.71
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification] Back     alignment and domain information 
Probab=100.00  E-value=2.4e-147  Score=1263.21  Aligned_cols=657  Identities=44%  Similarity=0.682  Sum_probs=541.6

Q ss_pred             eeecCCCCchhhhhhhhhhhHhhhHHHHHHHHHHHhhcccccHHHHHHHHHHHhccccCchHHHHHHHHhhcCCCCCCCc
Q 004927           15 ILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGED   94 (723)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~l~ky~~ei~~~~~e~~~~~~~DI~aaVeI~S~LHQRy~~Ft~~Ll~~l~~~~~~~~~~~~   94 (723)
                      .|++.++++|+++|++||  |+|||+||++|++||++| .+||+|||++||++||||++|+++|+.+|+++|. .+.   
T Consensus        44 ~~t~~~~dsli~els~ln--LsKyi~Ei~a~ivE~klK-~~dv~~~v~l~s~~h~~y~~Fs~~~lg~~~k~l~-~~~---  116 (1128)
T KOG2051|consen   44 LLTAEQYDSLIKELSTLN--LSKYISEITAAIVEAKLK-CSDVPAAVELCSILHARYARFSTAFLGAFLKALE-CKK---  116 (1128)
T ss_pred             HHhhhhhHHHHHHHHhcc--HHHHHHHHHHHHHHHHHh-ccchHHHHHHHHHHHHHhccccHHHHHHHHHhcC-Ccc---
Confidence            478999999999999999  999999999999999999 8999999999999999999999999999999994 332   


Q ss_pred             hhhhhhhhhhhhhhhHHHHHHhhhhhcccChhH---HHHHHHhhhhhccccCcCCcCcchHHHHHHHhh-ccccccCCCC
Q 004927           95 LDADRNLKAMKKRSTLKLLLELYFIGIIEDSSI---FINIIKDLTSIEHLKDRDTTQTNLTLLASFARQ-GRIFLGLPLS  170 (723)
Q Consensus        95 ~ekee~~r~~k~R~~LRll~EL~lvGV~~~~~~---l~~~lk~l~~~~~~~dk~~~~~~l~ll~sF~K~-g~~~lG~~~~  170 (723)
                        .|+..|++|.|++||+++||++||||.+.+.   +.++|+.+..+   .  +.+|++++++.||||| |+++.|++|.
T Consensus       117 --~~k~~n~~klr~dlrl~aEL~~vGVf~~ke~l~~l~~~L~~li~~---~--~~~~~~v~~~~s~~r~~g~~~a~~~~~  189 (1128)
T KOG2051|consen  117 --YDKIGNITKLRSDLRLFAELYLVGVFDDKEGLSPLRKVLSILIQL---K--DIDHVNVSLIISFYRHCGGSTASIVPQ  189 (1128)
T ss_pred             --ccccccchhhhhhhHHHhhhhhheeeeccchhhhHHHHHHHHHhc---c--cCCccchhHHHHHhhhccccccccchH
Confidence              2688999999999999999999999987654   45555555442   2  3369999999999999 9999999886


Q ss_pred             CCCh--hh-hHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCChhhHHHHHHHHHH
Q 004927          171 GPGQ--EI-YEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSYEKLRKS  247 (723)
Q Consensus       171 ~~~~--~~-~~~~~~~~~i~~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~~~~Gel~eE~~~~ye~l~k~  247 (723)
                      .-..  +. ..+...+..|++++|+.|+.+|+.||+++++|+.++|+.+++++|+|+++++++|++++++.+.|++++..
T Consensus       190 ~~k~~a~~~~~~~p~~d~i~~dk~kt~~~l~k~y~~sL~~~~~~e~~~l~~~ek~~~r~~~~kgel~~er~~~~e~l~~~  269 (1128)
T KOG2051|consen  190 FRKMAAELFNGEVPSSDLISNDKKKTFQVLFKDYYDSLMSHLGKEHRELNDMEKENRRALFSKGELSDERTEGYEELQSG  269 (1128)
T ss_pred             HHHHHHHHhcccCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence            4110  00 01122234589999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHcCCCCCCCCCCccccccccCCCC-CCCCCCCCCCCCCCCCChhhhccccccccccccchhhhhhhh
Q 004927          248 YDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTSGEDA-SPASGKDSSVPEPVWDDEETRAFYECLPDLRAFVPAVLLGEA  326 (723)
Q Consensus       248 yEkL~~~~~sLAe~L~~~~P~Lp~~~~~~~~~~g~~~-~~~~~~~~~~~~~~WeDEEtR~FYE~LpDL~~~vPa~Ll~~~  326 (723)
                      |+||+.++++|+++||++||+|+++.  ++...|... .++.....+. .++|+||+||+|||+||||+++|||.+.+.+
T Consensus       270 ~dkL~~naisl~e~l~~~~p~l~e~s--~~~~~~~~~~~~~~~~s~~i-~~~wsDedtrafye~l~Dlr~~vpa~~~~~n  346 (1128)
T KOG2051|consen  270 LDKLLANAISLSELLGELMPELEEES--DEADPGEEASQMGKNGSLSI-EDLWSDEDTRAFYENLIDLRDFVPATNEGFN  346 (1128)
T ss_pred             HHHHHHHHHhHHHHhccccccccccc--ccCCccccccccccccccCc-ccccccHHHHHHHHhhhHHHHhcccccccch
Confidence            99999999999999999999999875  222334332 2222222233 3499999999999999999999998776654


Q ss_pred             ccccCCCCCCCCCCCCCCCCCCccchhhhhhhhhhhcccCCCCCCCccccccchhHHhhhhcCCCccccCCCCChhhhhh
Q 004927          327 EHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAEVSADLGASPEGKSVEKGKDKEEKEKEKAKDPDKEKGKGKDKEEKDK  406 (723)
Q Consensus       327 ~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ee~e~~~~~~~~~~~~~~~~~~e~~~  406 (723)
                      +.+..++         ++..+.........++.++++++.. .++...+   ..++..++.+         |+..++..+
T Consensus       347 ~~~e~e~---------esn~~~~~~~~~~~~~~e~~~~~~~-~e~~~~~---~~~~~~~~~~---------~~~~~~~~~  404 (1128)
T KOG2051|consen  347 KSKEVEK---------ESNSEAAMVWDDREQTTEVSSPSNF-MEGSIAE---MKEDLKESKG---------EDEKEELGK  404 (1128)
T ss_pred             hhhhhhh---------hhhhhHHhhhcccccceeecCCCcc-ccchhhh---hhhhhhhhhc---------cchhhhcch
Confidence            3222111         1111000000000112222222111 1111100   0111111111         111111111


Q ss_pred             hhcCCCccccCcccchhhhhhhhHhhhcCCcchhHHHHHHhCCCCCChhHHHHHHHHHhc-cCChhhHHHHHHHhhccCC
Q 004927          407 EKAKDPDKEKGKEKDTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCY-LNSKSNRKRLVRALFNVPR  485 (723)
Q Consensus       407 ~~~~d~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~fl~~Lp~~~nre~ID~~aveF~~-lN~Ka~RkrL~k~l~~v~r  485 (723)
                      ++.            ....-+.+.....+...++++.|+.+||+|+||+.||++|++||. +|||++||||+|+||.+||
T Consensus       405 ~~~------------~~~~~~~~~~~~~~~~~~~~d~Fl~~L~~~vsrdliD~~a~ef~~nlNtKa~RkrLvKal~~vpr  472 (1128)
T KOG2051|consen  405 NKQ------------EQDLLESEGDLNTSQVVSNVDCFLLDLPNCVSRDLIDQAAIEFCSNLNTKANRKRLVKALFVVPR  472 (1128)
T ss_pred             hhh------------HHHHhhhhhhcchhhHHHHHHHHHccCcchHHHHHHHHHHHHHHHHhccHHHHHHHHHhhhcccc
Confidence            100            000011111222233456899999999999999999999999996 9999999999999999999


Q ss_pred             CCCCchhHHHHHHHHhcccchhhHHHHHHHHHHHHHHhhhhcccccchhccceeEeeeecccccccChhhHHHHHHHHhh
Q 004927          486 TSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLD  565 (723)
Q Consensus       486 ~r~dlLP~YaR~vAtl~~~~~Dv~~~l~~~L~~~Fr~~~~kk~~~~~e~k~knirfi~EL~KF~l~p~~~if~~lk~ll~  565 (723)
                      +|+|+||||+||||||++|||||+++||++|.++||+++|+|+|+++++|+|+|||||||+||+++|+++||||||+||+
T Consensus       473 t~ldllPyYsRlVAtl~~~M~dvat~lv~~L~~eFr~~~hkK~q~~ietk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~  552 (1128)
T KOG2051|consen  473 TRLDLLPYYSRLVATLSKCMPDVATELVTMLRKEFRSHLHKKAQINIETKLKIVRFISELCKFQLVPKFEIFSCLKMLLN  552 (1128)
T ss_pred             hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHhhhhhCccChHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCchHHHHHHHHhhhcccccCCchhhHHHHHHHHHHHHHhhhcCCChHHHHHHHhhchhcCCCccccccccCCCcHHH
Q 004927          566 DFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQ  645 (723)
Q Consensus       566 df~~~nIe~~c~llE~cGrfL~r~pet~~rm~~~Le~m~rkk~~~~L~~r~~~~ieNa~y~~~Pp~~~~~~~k~r~p~~~  645 (723)
                      ||+||||||+|+|||+|||||||+||||.||..|||+|||+|++++||+|+.++||||||+|+||+++++..|+|||+|+
T Consensus       553 dF~~hnIEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~~~PPe~~~~~~k~r~p~~e  632 (1128)
T KOG2051|consen  553 DFTHHNIEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYLCNPPERSKRLSKKRPPMQE  632 (1128)
T ss_pred             hcccccHHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHhccChhhcccccccCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999988999999999


Q ss_pred             HHHHHHHhhcCcccHHHHHHHHHcCCCCChh--HHHHHHhhcccccccCcHHHHHHHHHHHhccccccceeeecccccc
Q 004927          646 YIRKLLFSDLDKSSIEHVLRQLRKLPWSDCE--SYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVCFC  722 (723)
Q Consensus       646 fir~Li~~~L~~~~~~~v~k~lrKl~W~d~~--~~l~k~~~~~~~~ky~nI~~lA~ll~~L~~~~~~~~v~vVD~vl~~  722 (723)
                      |||+|||.+|++.|++.++++||||||+|++  .|+++||++||+++|+||+++|++|+||++|||+|||+|||.|||-
T Consensus       633 fiR~Li~~dL~k~tvd~~lkllRkl~W~D~e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fvi~VID~vlE~  711 (1128)
T KOG2051|consen  633 FIRYLIRSDLSKDTVDRVLKLLRKLDWSDPEVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFVIHVIDHVLED  711 (1128)
T ss_pred             HHHHHHHHHhccccHHHHHHHHHhcccccHHHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhhhhhHHHHHHH
Confidence            9999999999999999999999999999975  8999999999999999999999999999999999999999999983

>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G) Back     alignment and domain information
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain Back     alignment and domain information
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain Back     alignment and domain information
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G) Back     alignment and domain information
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only] Back     alignment and domain information
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification] Back     alignment and domain information
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms] Back     alignment and domain information
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis] 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 ?
Query723
1uw4_B 248 The Structural Basis Of The Interaction Between Non 8e-17
>pdb|1UW4|B Chain B, The Structural Basis Of The Interaction Between Nonsense Mediated Decay Factors Upf2 And Upf3 Length = 248 Back     alignment and structure 
Iteration: 1

 Score = 85.9 bits (211), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 40/82 (48%), Positives = 54/82 (65%), Gaps = 2/82 (2%)
Query: 640 RPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCE--SYLLKCFMKVHKGKYGQIHLI 697
           RPPL +Y+RKLL+ DL K + E VLRQ+RKLPW D E   Y++ C + +   KY  IH +
Sbjct: 1   RPPLQEYVRKLLYKDLSKVTTEKVLRQMRKLPWQDQEVKDYVICCMINIWNVKYNSIHCV 60
Query: 698 ASLTAGLSRYHDEFAVAVVDEV 719
           A+L AGL  Y ++  + VVD V
Sbjct: 61  ANLLAGLVLYQEDVGIHVVDGV 82

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query723
1uw4_B 248 UPF2, regulator of nonsense transcripts 2; nonsens 1e-29
1uw4_B248 UPF2, regulator of nonsense transcripts 2; nonsens 7e-06
1hu3_A260 EIF4GII; heat repeat, translation; 2.37A {Homo sap 7e-12
2vso_E284 Eukaryotic initiation factor 4F subunit P150; acet 1e-08
3rk6_A234 Polyadenylate-binding protein-interacting protein; 4e-07
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 7e-06
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-05
3lvg_D190 LCB, clathrin light chain B; SELF assembly, coated 4e-04
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: a.118.1.14 Length = 248 Back     alignment and structure
 Score =  116 bits (293), Expect = 1e-29
 Identities = 39/82 (47%), Positives = 54/82 (65%), Gaps = 2/82 (2%)

Query: 640 RPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSD--CESYLLKCFMKVHKGKYGQIHLI 697
           RPPL +Y+RKLL+ DL K + E VLRQ+RKLPW D   + Y++ C + +   KY  IH +
Sbjct: 1   RPPLQEYVRKLLYKDLSKVTTEKVLRQMRKLPWQDQEVKDYVICCMINIWNVKYNSIHCV 60

Query: 698 ASLTAGLSRYHDEFAVAVVDEV 719
           A+L AGL  Y ++  + VVD V
Sbjct: 61  ANLLAGLVLYQEDVGIHVVDGV 82
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: a.118.1.14 Length = 248 Back     alignment and structure
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP: a.118.1.14 Length = 260 Back     alignment and structure
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation, ATP-binding, phosphoprotein, protein biosynthesis, translation regulation; HET: AMP; 2.6A {Saccharomyces cerevisiae} PDB: 2vsx_E* Length = 284 Back     alignment and structure
>3rk6_A Polyadenylate-binding protein-interacting protein; heat fold, PABP, EIF4A, EIF3, translation regulator; 2.00A {Homo sapiens} Length = 234 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} Length = 190 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query723
1uw4_B 248 UPF2, regulator of nonsense transcripts 2; nonsens 99.88
1hu3_A260 EIF4GII; heat repeat, translation; 2.37A {Homo sap 99.64
2vso_E284 Eukaryotic initiation factor 4F subunit P150; acet 99.47
1uw4_B248 UPF2, regulator of nonsense transcripts 2; nonsens 99.46
3rk6_A234 Polyadenylate-binding protein-interacting protein; 98.88
2i2o_A224 EIF4G-like protein; protein structure initiative, 98.34
1h2v_C 771 80 kDa nuclear CAP binding protein; CAP-binding-co 96.55
1hu3_A260 EIF4GII; heat repeat, translation; 2.37A {Homo sap 91.45
2vso_E284 Eukaryotic initiation factor 4F subunit P150; acet 89.09
2i2o_A224 EIF4G-like protein; protein structure initiative, 82.75
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: a.118.1.14 Back     alignment and structure
Probab=99.88  E-value=7.4e-24  Score=218.21  Aligned_cols=83  Identities=48%  Similarity=0.886  Sum_probs=81.1

Q ss_pred             CCcHHHHHHHHHHhhcCcccHHHHHHHHHcCCCCChh--HHHHHHhhcccccccCcHHHHHHHHHHHhccccccceeeec
Q 004927          640 RPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCE--SYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVD  717 (723)
Q Consensus       640 r~p~~~fir~Li~~~L~~~~~~~v~k~lrKl~W~d~~--~~l~k~~~~~~~~ky~nI~~lA~ll~~L~~~~~~~~v~vVD  717 (723)
                      |||||+|||||||.+|++.++++|+++|||+||+|++  .|+++||++||+++|+|||+||+||++|++|||+|+|+|||
T Consensus         1 r~P~~~fir~Li~~~L~~~~~~~vlk~lrKl~W~D~e~~~~l~k~l~~~~~~ky~nI~~lA~ll~~L~~~~~~~~i~vVD   80 (248)
T 1uw4_B            1 RPPLQEYVRKLLYKDLSKVTTEKVLRQMRKLPWQDQEVKDYVICCMINIWNVKYNSIHCVANLLAGLVLYQEDVGIHVVD   80 (248)
T ss_dssp             CCHHHHHHHHHHHTTCSTTSHHHHHHHHHTSCTTSHHHHHHHHHHHHCGGGSCGGGHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHcccccHHHHHHHHHcCCCCcHHHHHHHHHHhcchhhcccchHHHHHHHHHHHHhhChHHhhhhHH
Confidence            7999999999999999999999999999999999986  89999999999999999999999999999999999999999


Q ss_pred             ccccc
Q 004927          718 EVCFC  722 (723)
Q Consensus       718 ~vl~~  722 (723)
                      +|+|.
T Consensus        81 ~vlE~   85 (248)
T 1uw4_B           81 GVLED   85 (248)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99984
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP: a.118.1.14 Back     alignment and structure
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation, ATP-binding, phosphoprotein, protein biosynthesis, translation regulation; HET: AMP; 2.6A {Saccharomyces cerevisiae} PDB: 2vsx_E* Back     alignment and structure
>1uw4_B UPF2, regulator of nonsense transcripts 2; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: a.118.1.14 Back     alignment and structure
>3rk6_A Polyadenylate-binding protein-interacting protein; heat fold, PABP, EIF4A, EIF3, translation regulator; 2.00A {Homo sapiens} Back     alignment and structure
>2i2o_A EIF4G-like protein; protein structure initiative, PSI, cente eukaryotic structural genomics, CESG, structural genomics, function; HET: MSE; 1.92A {Danio rerio} Back     alignment and structure
>1h2v_C 80 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: a.118.1.14 a.118.1.14 a.118.1.14 PDB: 1n52_A* 1n54_A 3fex_A 3fey_A 1h6k_A 1h2t_C* 1h2u_A* Back     alignment and structure
>1hu3_A EIF4GII; heat repeat, translation; 2.37A {Homo sapiens} SCOP: a.118.1.14 Back     alignment and structure
>2vso_E Eukaryotic initiation factor 4F subunit P150; acetylation, ATP-binding, phosphoprotein, protein biosynthesis, translation regulation; HET: AMP; 2.6A {Saccharomyces cerevisiae} PDB: 2vsx_E* Back     alignment and structure
>2i2o_A EIF4G-like protein; protein structure initiative, PSI, cente eukaryotic structural genomics, CESG, structural genomics, function; HET: MSE; 1.92A {Danio rerio} 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 723
d1h2vc1262 a.118.1.14 (C:29-290) CBP80, 80KDa nuclear cap-bin 2e-24
d1uw4b_ 248 a.118.1.14 (B:) Regulator of nonsense transcripts 2e-22
d1uw4b_248 a.118.1.14 (B:) Regulator of nonsense transcripts 2e-20
d1hu3a_243 a.118.1.14 (A:) Eukaryotic initiation factor eIF4G 1e-12
>d1h2vc1 a.118.1.14 (C:29-290) CBP80, 80KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 262 Back     information, alignment and structure

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: CBP80, 80KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  101 bits (252), Expect = 2e-24
 Identities = 41/263 (15%), Positives = 89/263 (33%), Gaps = 33/263 (12%)

Query: 432 KLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELL 491
           K+      +L++ L+ L G +  DL +              + +++R L  V R   E L
Sbjct: 9   KVGEKSACSLESNLEGLAGVLEADLPN-------------YKSKILRLLCTVARLLPEKL 55

Query: 492 PYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNI-RFIGELCKFKI 550
             Y+ +V  L+    +     ++ +  +    +   +      +   + RF+ +L    +
Sbjct: 56  TIYTTLVGLLNARNYNFGGEFVEAMIRQLKESLKANN----YNEAVYLVRFLSDLVNCHV 111

Query: 551 APAGLVFSCLKACL-----DDFTHHNIDVAC-NLLET---CGRFLY-RSPETSIRMANML 600
             A  + +  +  +     +D      D      L +    G+ LY +      R+    
Sbjct: 112 IAAPSMVAMFENFVSVTQEEDVPQVRRDWYVYAFLSSLPWVGKELYEKKDAEMDRIFANT 171

Query: 601 EILM--RLKNVKNLDPRHVTLVENAY--YLCKPPERSARVSKVRPPLHQYIR-KLLFSDL 655
           E  +  R K    +         +    YL     +  ++ K R      +R  L F  +
Sbjct: 172 ESYLKRRQKTHVPMLQVWTADKPHPQEEYLDCLWAQIQKLKKDRWQERHILRPYLAFDSI 231

Query: 656 DKSSIEHVLRQLRKLPWSDCESY 678
              +++H L      P ++   Y
Sbjct: 232 LCEALQHNLPPFTPPPHTEDSVY 254
>d1uw4b_ a.118.1.14 (B:) Regulator of nonsense transcripts 2, UPF2 {Human (Homo sapiens) [TaxId: 9606]} Length = 248 Back     information, alignment and structure
>d1uw4b_ a.118.1.14 (B:) Regulator of nonsense transcripts 2, UPF2 {Human (Homo sapiens) [TaxId: 9606]} Length = 248 Back     information, alignment and structure
>d1hu3a_ a.118.1.14 (A:) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]} Length = 243 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query723
d1uw4b_248 Regulator of nonsense transcripts 2, UPF2 {Human ( 99.84
d1uw4b_ 248 Regulator of nonsense transcripts 2, UPF2 {Human ( 99.47
d1hu3a_243 Eukaryotic initiation factor eIF4G {Human (Homo sa 99.46
d1h2vc1262 CBP80, 80KDa nuclear cap-binding protein {Human (H 98.73
d1h2vc1262 CBP80, 80KDa nuclear cap-binding protein {Human (H 93.0
d1hu3a_243 Eukaryotic initiation factor eIF4G {Human (Homo sa 92.51
>d1uw4b_ a.118.1.14 (B:) Regulator of nonsense transcripts 2, UPF2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: MIF4G domain-like
domain: Regulator of nonsense transcripts 2, UPF2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=5.8e-21  Score=194.72  Aligned_cols=188  Identities=14%  Similarity=0.295  Sum_probs=159.1

Q ss_pred             HHHHHHhC-CCCCChhHHHHHHHHH--hccCChhhHHHHHHHhhccCCCCCCchhHHHHHHHHhcccchhhHHHHHHHHH
Q 004927          441 LDALLQRL-PGCVSRDLIDQLTVEF--CYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLE  517 (723)
Q Consensus       441 l~~fl~~L-p~~~nre~ID~~aveF--~~lN~Ka~RkrL~k~l~~v~r~r~dlLP~YaR~vAtl~~~~~Dv~~~l~~~L~  517 (723)
                      ++.|+.+| -+--|+..+|+++.+.  ++.+++..++.|++.+++..+.+.+.+|+||+++|+|++++||++..+++.+.
T Consensus         4 ~~~flr~li~n~Ls~~n~~~i~~~i~kl~~~n~e~~~~li~~i~~~~~~~~~~i~~yA~l~a~L~~~~~~f~~~~id~l~   83 (248)
T d1uw4b_           4 LQEYVRKLLYKDLSKVTTEKVLRQMRKLPWQDQEVKDYVICCMINIWNVKYNSIHCVANLLAGLVLYQEDVGIHVVDGVL   83 (248)
T ss_dssp             HHHHHHHHHHTTCSTTSHHHHHHHHHTSCTTSHHHHHHHHHHHHCGGGSCGGGHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhCCHhHHHHHHHHHHHCCCCCHHHHHHHHHHHhhhhcCchhHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            45566555 2333567799999988  47899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhcccccchhccceeEeeeecccccccChhhHHHHHHHHhhcCCCch--------------HHHHHHHHhhhc
Q 004927          518 EEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHN--------------IDVACNLLETCG  583 (723)
Q Consensus       518 ~~Fr~~~~kk~~~~~e~k~knirfi~EL~KF~l~p~~~if~~lk~ll~df~~~n--------------Ie~~c~llE~cG  583 (723)
                      ++|+..+..++...-..++.||||||||.||+++|...+|+|+..|+...+..+              ||++|.||++||
T Consensus        84 e~f~~~~e~~~~~~~~r~~~~v~figeLy~~~~v~~~~i~~~l~~Ll~~~~~~~~~~~~~d~~~d~~rIe~l~~lL~t~G  163 (248)
T d1uw4b_          84 EDIRLGMEVNQPKFNQRRISSAKFLGELYNYRMVESAVIFRTLYSFTSFGVNPDGSPSSLDPPEHLFRIRLVCTILDTCG  163 (248)
T ss_dssp             HHHHHHHHHCCGGGHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTTCCTTSCCCSSSCTTCCHHHHHHHHHHHHHG
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHccCcHHHHHHHHHHHHhcCCCcccccccCCCCcchhHHHHHHHHHHHHh
Confidence            999999988666556778899999999999999999999999999997644332              999999999999


Q ss_pred             ccccCCchhhHHHHHHHHHHHHH----h------hhcCCChHHHHHHHhhchhcCC
Q 004927          584 RFLYRSPETSIRMANMLEILMRL----K------NVKNLDPRHVTLVENAYYLCKP  629 (723)
Q Consensus       584 rfL~r~pet~~rm~~~Le~m~rk----k------~~~~L~~r~~~~ieNa~y~~~P  629 (723)
                      ++| .++..+.+|..++..+++.    +      +..+++.|-+.||++.+-.-+|
T Consensus       164 ~~l-~~~~~~~~l~~~~~~fq~y~~~~~~~~~~~~~~~lp~ri~f~i~dll~lr~~  218 (248)
T d1uw4b_         164 QYF-DRGSSKRKLDCFLVYFQRYVWWKKSLEVWTKDHPFPIDIDYMISDTLELLRP  218 (248)
T ss_dssp             GGC-SSHHHHHHHHHHHHHHHHHHHHHHTSTTCCSSSCCCHHHHHHHHHHHHHHCT
T ss_pred             HHh-cCccchhhHHHHHHHHHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhC
Confidence            986 4566777888877666552    1      2456999999999999987776
>d1uw4b_ a.118.1.14 (B:) Regulator of nonsense transcripts 2, UPF2 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1hu3a_ a.118.1.14 (A:) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1h2vc1 a.118.1.14 (C:29-290) CBP80, 80KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1h2vc1 a.118.1.14 (C:29-290) CBP80, 80KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1hu3a_ a.118.1.14 (A:) Eukaryotic initiation factor eIF4G {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure