Citrus Sinensis ID: 001577

Local Sequence Feature Prediction

Prediction and (Method)	Result

Residue Number Marker

Protein Sequence

Secondary Structure (PSIPRED)

Secondary Structure Prediction (SSPRO)

Coil and Loop (DISEMBL)

Flexible Loop (DISEMBL)

Low Complexity Region (SEG)

Disordered region (IsUnstruct)

Disordered Region (DISOPRED)

Disordered Region (DISEMBL)

Disordered Region (DISPRO)

Transmembrane Helix (TMHMM)

Transmembrane Helix (HMMTOP)

Transmembrane Helix (MEMSAT)

TM Helix, Signal Peptide (MEMSAT_SVM)

TM Helix, Signal Peptide (Phobius)

Signal Peptide (SignalP HMM Mode)

Signal Peptide (SignalP NN Mode)

Coiled Coils (COILS)

Positional Conservation

--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050

MLLSHYYHNPILLPKTLTNSSSPFFTFHKTLSLQNPEKPSIFVISCSKTQNPLTQSETRVQNDTTSAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIPLPHRIPKYRVGHTIDDSWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWLAKNSKMNEKEKEVPTLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDETKTHSSGADSAKPSGQSPTNKKVQQTLIHSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSNDSKEEPELGNRHDNSGDNTQDEFGCTNDQKSTMHSEQKERRSAEVAIRRTNIRLSRVLEKKAEAEKLLAELEEERPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQLVKDKEANSLETIDESILPLVKEEIGDMQPAECMRSDTSHEVNVQARGECGADLTSTESNDTGDATIDGPPAIQQDKQTESLTHNDFFAEGVASGTSSCPDNSMQEVMEYNTIVDAEQCSSDNEPRESSIESAKSRSSENEPIEQSFELAKGRSGLSTPIGTGNVWNENNSRAIQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWGAEDESSPRGRQNSRAKPSIVRDVRPWPAVSRELLAAIKLECGLQGQQEQEAPS

cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcHHHHHHHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHcccccccccccccccHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHHHHHHHccEEEEEEccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHccccccEEEEcccccHHHHHHHHHHHHHHccEEEEEEEcccccccHHHHHHHHHHHcccEEEEEcccEEEEEccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHccccEEcccccccHHHHHHHHHHHHHcccEEEEEEccccHHHHHHHHHHHHHHHccEEEEEEEccccEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccEEEcccccHHHHHHHHHHHHHHHcccEEEEEccccccccHHHHHHHHHHHHccEEEEEEccEEEEEccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccHHHcccc

cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccHHcHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHcccEEEEEEcccccHcHHHHHHHHHHHcccEEEEEcccEEEEEEcccccccccccccccccccccHHHHHHccccccHHHHHHHHHcccccccHcccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccEcccccccccccHHHHHHHHHHHccccccEEEcccccHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccEEEEEcccEEEEEEccccccHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHccccccccccccccccccHHHHHHHHHHccEEEEEEEccccHHHHHHHHHHHHHHcccEEEEEEEcccccEEEEEEcccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccHHccHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccccccEEEEcccccccccccccccccccccccccccHHHHHHHHHHHHHHccccEEEEccccHHHHHHHHHHHHHHcccEEEEEEccccccccHHHHHHHHHHHcccEEEEccccEEEEEEcccccccccccccccccccccEEEcccccccccHHHHHHHHHHccccccccccccc

mllshyyhnpillpktltnssspfftfhktlslqnpekpsifviscsktqnpltqsetrvqNDTTSAIQRIADKLRSLgiveqttskddtlnpepetratdnageifiplphripkyrvghtiddswstpenpvpvpgtgAAIVRYNQLNKEVGRQKWLAKNskmnekekevptLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNmkrthdslerktgglvvWRSGSKIilyrgadykypyfladesstdgassddlpnqlvddegldetkthssgadsakpsgqsptnkkVQQTLIHsvgspdklryqlpgeaeLVEEADRLLdglgprftdwwgydpqpvdadllpatvpgyrrpfrllpygvqpkltndemttlrrlgrplpchfalgrnRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLtggtllsrdrEFIVFyrgkdflppaassaieerrkhefstsndskeepelgnrhdnsgdntqdefgctndqkstmhseQKERRSAEVAIRRTNIRLSRVLEKKAEAEKLLAELEEerpeqyevdkegITEEERYMLRKVGLRMKAFLLMGrrgvfdgtvenMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYrgknyerpaclrpktlLTKREAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQLVKDkeansletidesiLPLVkeeigdmqpaecmrsdtshevnvqargecgadltstesndtgdatidgppaiqqdkqteslthndffaegvasgtsscpdnsmqevMEYNTivdaeqcssdnepressiesaksrssenepieqsfelakgrsglstpigtgnvwnennsRAIQLSNRDRLLLRKQALRmkkrpvlavgrsNIVTGVAKAIKAHFEKYPLAIvnvkgrakgTSVQEVVAKLEEAtgavlvsqepskvilyrgwgaedessprgrqnsrakpsivrdvrpwpAVSRELLAAIKLEcglqgqqeqeaps

MLLSHYYHNPILLPKTLTNSSSPFFTFHKTLSLQNPEKPSIFVISCSKtqnpltqsetrvqndtTSAIQRIADKlrslgiveqttskddtlnpepetratdnageifiplphriPKYRVGHTIDDSWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWlaknskmnekekevptlaelklsgkelrrlrtlgiglrkklkigkagitegivngiherwrHAEVVKIVCEDLCRLNMKrthdslerktgglvvwrsgSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDETKThssgadsakpsgqsptnkkVQQTLIhsvgspdklryQLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRllpygvqpkltnDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAvkrgaqntnsEMMAQELKrltggtllsrDREFIVFYRGkdflppaassaieerrkhefstsndskeepelgnrhdnsgdntqdeFGCTndqkstmhseqkerrsaevairrtnirlsrvlekkaEAEKLLaeleeerpeqyevdkegiteeeRYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEartlevesggilvaveRVNKGYAIIlyrgknyerpaclrpktllTKREAMKRSLeaqrrqslklhvlELTRNIEKLKLQlvkdkeansletidesilplvKEEIGDMQPAECMRSDTSHEVNVQARGECGADLTSTESNDTGDATIDGPPAIQQDKQTESLTHNDFFAEGVASGTSSCPDNSMQEVMEYNTIVDAeqcssdnepressiesaksrssenepiEQSFelakgrsglstpIGTGNVWNENNSRAIQLSNRDRLLLRKQalrmkkrpvlavgrsniVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEeatgavlvsqepskvilyrgwgaedessprgrqnsrakpsivrdvrpwPAVSRELLAAIKLECglqgqqeqeaps

MLLSHYYHNPILLPKTLTNSSSPFFTFHKTLSLQNPEKPSIFVISCSKTQNPLTQSETRVQNDTTSAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIPLPHRIPKYRVGHTIDDSWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWLAKNSKMNEKEKEVPTLAELKLSGKElrrlrtlgiglrkklkigkagiTEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDETKTHSSGADSAKPSGQSPTNKKVQQTLIHSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSNDSKEEPELGNRHDNSGDNTQDEFGCTNDQKSTMHSEQKERRSAEVAIRRTNIRLSRVlekkaeaekllaeleeeRPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQLVKDKEANSLETIDESILPLVKEEIGDMQPAECMRSDTSHEVNVQARGECGADLTSTESNDTGDATIDGPPAIQQDKQTESLTHNDFFAEGVASGTSSCPDNSMQEVMEYNTIVDAEQCSSDNEPRessiesaksrsseNEPIEQSFELAKGRSGLSTPIGTGNVWNENNSRAIQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWGAEDESSPRGRQNSRAKPSIVRDVRPWPAVSRELLAAIKlecglqgqqeqeAPS

****HYYHNPILLPKTLTNSSSPFFTFHKTLSL******SIFVISC*********************************************************GEIFIPLPHRIPKYRVGHTIDDSWST****VPVPGTGAAIVRYNQLNKEVGRQKWL**********************GKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLA*********************************************************************AELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRG*************KRLTGGTLLSRDREFIVFYRGKDFL*************************************************************************************************************ERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLL*****************LKLHVLELTRNIEKLKLQLVKD********IDESILPLV**********************************************************************************************************************************************NVWN******IQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWG********************RDVRPWPAVSRELLAAIKLECGL**********

*************************************************************************************************************************************************************************************GKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYK***********************************************************************************RLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGKDFL**********************************************NDQ***********************RLSRVLE*****************************EERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAM***************VLELTRNIEKLKLQL*****************************************************************************************************************************************************************************QLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRA***S*QEVVAKLEEATGAVLVSQEPSKVILYRGW******************************************************

MLLSHYYHNPILLPKTLTNSSSPFFTFHKTLSLQNPEKPSIFVISCSKTQ*************TTSAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIPLPHRIPKYRVGHTIDDSWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWLAKNS**********TLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADE*********DLPNQLVDDEGL**************************QTLIHSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGKDFLPPAASS*************************HDNSGDNTQDEFGCTND****************VAIRRTNIRLSRVLEKKAEAEKLLAELEEERPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQLVKDKEANSLETIDESILPLVKEEIGDMQPAECMRSDTSHEVNVQARGECGADLTSTESNDTGDATIDGPPAIQQDKQTESLTHNDFFAEGVASGTSSCPDNSMQEVMEYNTIVDAEQ****************************FELAKGRSGLSTPIGTGNVWNENNSRAIQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWG******************IVRDVRPWPAVSRELLAAIKLECGL**********

*LLSHYYHNPILLPKTLTNSSSPFFTFHKTL************************************IQRIADKLRSLGIVE********************AGEIFIPLPHRIPKYRVGHTIDDSWST*********************************************LAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDE*KTHSSG********************************QLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSND*************S**N**DEFGCTNDQKSTMHSEQKERRSAEVAIRRTNIRLSRVLEKKAEAEKLLAELEEERPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQLVKD****************************************************************************************************************************************************RSGLSTPIGTGNVWN*NNSRAIQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWGAE****************IVRD*RPWPAVSRELLAAIKLECGLQ*********

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MLLSHYYHNPILLPKTLTNSSSPFFTFHKTLSLQNPEKPSIFVISCSKTQNPLTQSETRVQNDTTSAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIPLPHRIPKYRVGHTIDDSWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWLAKNSKMNEKEKEVPTLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDETKTHSSGADSAKPSGQSPTNKKVQQTLIHSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSNDSKEEPELGNRHDNSGDNTQDEFGCTNDQKSTMHSEQKERRSAEVAxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKxxxxxxxxxxxxxxxxxxxxxSGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRxxxxxxxxxxxxxxxxxxxxxxxxxxxxNSLETIDESILPLVKEEIGDMQPAECMRSDTSHEVNVQARGECGADLTSTESNDTGDATIDGPPAIQQDKQTESLTHNDFFAEGVASGTSSCPDNSMQEVMEYNTIVDAEQCSSDNEPRESSIESAKSRSSENEPIEQSFELAKGRSGLSTPIGTGNVWNENNSRAIQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWGAEDESSPRGRQNSRAKPSIVRDVRPWPAVSRELLAAIKLECGLQGQQEQEAPS

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
Query		1050	2.2.26 [Sep-21-2011]
Q6YYA3		725	Chloroplastic group IIA i	no	no	0.518	0.750	0.412	1e-108
Q9FYT6		715	Chloroplastic group IIA i	N/A	no	0.499	0.732	0.415	1e-107
Q9LF10		720	Chloroplastic group IIA i	no	no	0.357	0.520	0.432	2e-87
Q67XL4		444	Uncharacterized CRM domai	no	no	0.16	0.378	0.289	1e-14
Q9SL79		701	CRS2-associated factor 1,	no	no	0.080	0.121	0.344	3e-12
Q84N49		674	CRS2-associated factor 1,	N/A	no	0.081	0.127	0.333	2e-10
Q5VMQ5		701	CRS2-associated factor 1,	no	no	0.075	0.112	0.333	2e-10
Q657G7		607	CRS2-associated factor 2,	no	no	0.112	0.194	0.346	3e-10
Q84N48		611	CRS2-associated factor 2,	N/A	no	0.089	0.153	0.35	4e-10
Q6Z4U2		428	CRS2-associated factor 1,	no	no	0.064	0.158	0.375	5e-10

>sp\|Q6YYA3\|CRS1_ORYSJ Chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic OS=Oryza sativa subsp. japonica GN=Os08g0360100 PE=2 SV=1	Back alignment and function desciption

 Score =  392 bits (1007), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 242/587 (41%), Positives = 330/587 (56%), Gaps = 43/587 (7%)

Query: 167 EKEKEVPTLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERW-RHAEVVK 225
           EK+  VPT AE +L   EL RLR    G  +  +  KAGIT+ +V  +  +W +  E+  
Sbjct: 142 EKKTRVPTRAETELEAGELERLRRAARGKERWARAKKAGITDEVVEEVRGQWAKGQELAG 201

Query: 226 IVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSD 285
           +   +  R  M R  + LE KTGGLVVW  G    +YRG+ Y            +     
Sbjct: 202 VRIVEPLRRCMDRAREILEIKTGGLVVWTRGGIHFVYRGSSY----------LENAKRHR 251

Query: 286 DLPNQLVDDEGLDETKTHSSGADSAKPSGQSPTNKKVQQTLIHSVGSPDKLRYQLPGEAE 345
           D  N    +E L       S   S  P+ Q     K  +TL +        +   P +  
Sbjct: 252 DFVNY---NEEL-------SPVTSNNPTSQGKYWSK-DETLTNDNDE-ADDKDDKPIKGT 299

Query: 346 LVE-EADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEM 404
           L E E +RLLD LGPRF DWW   P PVDADLLP  VP ++ PFR  P GV+P L ++E+
Sbjct: 300 LYEREVNRLLDSLGPRFIDWWWNTPLPVDADLLPEVVPDFKTPFRQCPPGVRPALADEEL 359

Query: 405 TTLRRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELK 464
           T LR+  RPLP HF LGRN  LQGLAAAI+KLWEK  IAK+AVK G QNTN E MA+ LK
Sbjct: 360 TYLRKHARPLPTHFVLGRNTKLQGLAAAILKLWEKSLIAKVAVKVGIQNTNHEQMARNLK 419

Query: 465 RLTGGTLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSNDSKEEPEL-------- 516
           RLTGGT++ R++++I+ YRGKDFLP   + ++ E R+ +       +EE  L        
Sbjct: 420 RLTGGTVILRNKDYIIIYRGKDFLPGGVAESVIE-RESQVHDQQAKEEEARLKMADSLQM 478

Query: 517 --GNRHDNSGDNTQDEFGCTNDQKSTMHSEQKERRSAEVAIRR-------TNIRLSRVLE 567
             G   + S   T  E+   +D  +   +E   R   E    R          RLS + +
Sbjct: 479 IVGLSSERSYVGTFREYQDFHDSHARRTTENNFRIQLEAKKHRLEKELKDQEWRLSMLTK 538

Query: 568 KKAEAEKLLAELEEE-RPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVE 626
           K   + ++LA+L     P + + D+E +TEEER + RK+GL+M   +L+GRRGVF+G +E
Sbjct: 539 KIERSNQVLAKLHSSWSPSKKDGDRELLTEEERRIFRKIGLKMDEHVLLGRRGVFEGVIE 598

Query: 627 NMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYE 686
            +H HWKH+E+VK+I+KQ +       +  LEVE+GG L+A+ER    +AIILYRGKNY 
Sbjct: 599 EIHQHWKHKEVVKVITKQNQASQITYTSMMLEVETGGTLIAIERFTTSHAIILYRGKNYR 658

Query: 687 RPACLRPKTLLTKREAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQL 733
           RP    P  LLTKREA++RS+E QRR S+K    E  ++I++LK +L
Sbjct: 659 RPTKSAPSNLLTKREALQRSIEVQRRGSMKYFAQERKKSIDELKREL 705

Required for the splicing of group IIA introns in chloroplasts, by regulating the intron folding. Forms splicing particles with RNA. Also involved in chloroplast protein translation.
Oryza sativa subsp. japonica (taxid: 39947)

>sp\|Q9FYT6\|CRS1_MAIZE Chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic OS=Zea mays GN=CRS1 PE=1 SV=1	Back alignment and function description

>sp\|Q9LF10\|CRS1_ARATH Chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic OS=Arabidopsis thaliana GN=At5g16180 PE=2 SV=2	Back alignment and function description

>sp\|Q67XL4\|Y3544_ARATH Uncharacterized CRM domain-containing protein At3g25440, chloroplastic OS=Arabidopsis thaliana GN=At3g25440 PE=2 SV=1	Back alignment and function description

>sp\|Q9SL79\|CAF1P_ARATH CRS2-associated factor 1, chloroplastic OS=Arabidopsis thaliana GN=At2g20020 PE=1 SV=2	Back alignment and function description

>sp\|Q84N49\|CAF1P_MAIZE CRS2-associated factor 1, chloroplastic OS=Zea mays GN=CAF1 PE=1 SV=1	Back alignment and function description

>sp\|Q5VMQ5\|CAF1P_ORYSJ CRS2-associated factor 1, chloroplastic OS=Oryza sativa subsp. japonica GN=Os01g0495900 PE=2 SV=1	Back alignment and function description

>sp\|Q657G7\|CAF2P_ORYSJ CRS2-associated factor 2, chloroplastic OS=Oryza sativa subsp. japonica GN=Os01g0323300 PE=2 SV=1	Back alignment and function description

>sp\|Q84N48\|CAF2P_MAIZE CRS2-associated factor 2, chloroplastic OS=Zea mays GN=CAF2 PE=1 SV=1	Back alignment and function description

>sp\|Q6Z4U2\|CAF1M_ORYSJ CRS2-associated factor 1, mitochondrial OS=Oryza sativa subsp. japonica GN=Os08g0174900 PE=2 SV=1	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
Query		1050
225452572		1044	PREDICTED: chloroplastic group IIA intro	0.942	0.948	0.586	0.0
255552728		1009	conserved hypothetical protein [Ricinus	0.915	0.952	0.580	0.0
224059986		1012	predicted protein [Populus trichocarpa]	0.917	0.951	0.584	0.0
296087726		1028	unnamed protein product [Vitis vinifera]	0.905	0.925	0.591	0.0
30678323		1011	CRM family member 2 [Arabidopsis thalian	0.929	0.965	0.534	0.0
6692258		1020	unknown protein [Arabidopsis thaliana]	0.929	0.956	0.530	0.0
449459492		1032	PREDICTED: chloroplastic group IIA intro	0.926	0.942	0.533	0.0
449515235		1053	PREDICTED: LOW QUALITY PROTEIN: chloropl	0.941	0.939	0.527	0.0
357496109		1096	Chloroplastic group IIA intron splicing	0.896	0.858	0.532	0.0
356573410		1028	PREDICTED: chloroplastic group IIA intro	0.860	0.879	0.522	0.0

>gi\|225452572\|ref\|XP_002275511.1\| PREDICTED: chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic-like [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1130 bits (2922), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 635/1083 (58%), Positives = 762/1083 (70%), Gaps = 93/1083 (8%)

Query: 2    LLSHYYHNPILLPKTLTNSSSPF------FTFHK------TLSLQNPEKPSIFVISCSKT 49
            L+  Y  NP+LL  TL    SPF      FT         T    NP KPS F++  S  
Sbjct: 16   LILFYSPNPMLL--TLCRHHSPFPSPTPTFTSSPPSISPSTFKTLNP-KPSKFILRAS-- 70

Query: 50   QNPLTQSETRVQNDTTSAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIP 109
             NP  Q+  +      +AIQRIA+KLRSLG V+   S+    + +P   A  +AGEIF+P
Sbjct: 71   -NPDAQTLPK------TAIQRIAEKLRSLGYVDGDESRKVLSSDKP---ANGSAGEIFVP 120

Query: 110  LPHRIPKYRVGHTIDDSWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWLAKNSKMNEKE 169
            LP+++PK+RVGHTID SWS PENPVP PGTG  I R+++L KEV R+K L +     +++
Sbjct: 121  LPNQLPKHRVGHTIDQSWSLPENPVPEPGTGGVITRFHELRKEVKREKKLVR-----KED 175

Query: 170  KEVPTLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCE 229
            +  PTLAEL L  +ELRRL+ +GI +RKKLK+GKAGITEGIVNGIHERWR AEVVKI CE
Sbjct: 176  ERAPTLAELTLPEEELRRLKGIGIQIRKKLKVGKAGITEGIVNGIHERWRRAEVVKIRCE 235

Query: 230  DLCRLNMKRTHDSLERKTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPN 289
            D+C+LNMKRTHD LERKTGGLV+WRSGS IILYRGA+YKYPYFL+D +  + +S D   +
Sbjct: 236  DICKLNMKRTHDILERKTGGLVIWRSGSYIILYRGANYKYPYFLSDNNLPNDSSHDASSD 295

Query: 290  QLVDDEGLDETKTHSSGADSAKPSGQSPTNKKVQQTLIHSVGSPDKLRYQLPGEAELVEE 349
              +++E  D  +  SSG    K +G  P NK    +LI  VG P ++R+QLPGEA+L EE
Sbjct: 296  SQMNNEEHDGKEVCSSGKGDVKSAGPMPANKIAPLSLIQGVGYPTRVRFQLPGEAQLEEE 355

Query: 350  ADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRR 409
            ADRLLDGLGPRFTDWWGYDP P+DADLLPA VPGYRRPFRLLPYG++PKLTNDEMT LRR
Sbjct: 356  ADRLLDGLGPRFTDWWGYDPLPIDADLLPAVVPGYRRPFRLLPYGLKPKLTNDEMTVLRR 415

Query: 410  LGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGG 469
            LGRPLPCHFALGRNR LQGLAA+++KLWEKCEIAKIAVKRG QNTNSEMMA+ELK LTGG
Sbjct: 416  LGRPLPCHFALGRNRKLQGLAASMIKLWEKCEIAKIAVKRGVQNTNSEMMAEELKNLTGG 475

Query: 470  TLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSND---------SKEEPELGNRH 520
            TLLSRDREFIVFYRGKDFLPPA SSAIE RRK+                + EE ELG   
Sbjct: 476  TLLSRDREFIVFYRGKDFLPPAVSSAIEARRKYGIHRGKQKIDHHRLAINAEESELGT-S 534

Query: 521  DNSGDNTQDEFGCTNDQKSTMHSEQKERRSAEVAIRRTNIRLSRVLEKKAEAEKLLAELE 580
            +++ D   D    T+DQK+   S+++  RSAE  + RTNI+LS  LEKK  AEKLLAELE
Sbjct: 535  EHASDKDCD---GTDDQKTNSLSKRRMLRSAEAVVERTNIKLSMALEKKERAEKLLAELE 591

Query: 581  EER-PEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVK 639
            E + P+Q E+DKEGITEEERYMLRKVGLRMK FLL+GRRG+FDGTVENMHLHWK+RELVK
Sbjct: 592  EAQIPQQPEIDKEGITEEERYMLRKVGLRMKPFLLLGRRGIFDGTVENMHLHWKYRELVK 651

Query: 640  IISKQRKIEAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTK 699
            IIS  R IE     ARTLE ESGGILVAVERV+KGYAII+YRGKNY+RPA LRP+TLL K
Sbjct: 652  IISNGRSIEDIHGVARTLEAESGGILVAVERVSKGYAIIMYRGKNYKRPASLRPQTLLNK 711

Query: 700  REAMKRSLEAQRRQSLKLHVLELTRNIEKLKLQLV---KDKEANSLETIDESILPLVKEE 756
            REA+KRSLEAQRR+SLKLHVL LTRNI++LK QLV   KDKE NS + +D+S L L    
Sbjct: 712  REALKRSLEAQRRESLKLHVLRLTRNIDELKHQLVSRIKDKETNSKQLVDKSRLHL---- 767

Query: 757  IGDMQPAECMRSDTSHEVNVQARGECGADLTSTESNDTGDATIDGPPAIQQDKQTESLTH 816
                                 AR   GAD+    S+D  D++ D       DK+      
Sbjct: 768  ---------------------ARERYGADVILIHSSDGMDSSRDSLQTSHNDKRI----- 801

Query: 817  NDFFAEGVASGTSSCPDNSMQEVM---EYNTIVDAE---QCSSDNEPRESSIE-SAKSRS 869
             DF +   +    + P+ S + V+   E N + D     +C++ +E   S  E S  +  
Sbjct: 802  -DFPSMCDSDTDEANPEPSSESVLKEIETNVLTDMNEEGECTTCSEDLVSQGETSCYAIV 860

Query: 870  SENEPIEQSFELAKG--RSGLSTPIGTGNVWNENNSRAIQLSNRDRLLLRKQALRMKKRP 927
            +  E +E S + +K   +  +  P+ T +  NE   RA  LSNR+RLLLRKQALRMKKRP
Sbjct: 861  NHEETMESSVKSSKNEFKPPVQRPVDTRS--NEMPFRAAPLSNRERLLLRKQALRMKKRP 918

Query: 928  VLAVGRSNIVTGVAKAIKAHFEKYPLAIVNVKGRAKGTSVQEVVAKLEEATGAVLVSQEP 987
            V+AVGRSNIVTGVAK IKAHF+K+PLAIVNVKGRAKGTSVQEV+ KLE+ATGAVLVSQEP
Sbjct: 919  VIAVGRSNIVTGVAKTIKAHFQKHPLAIVNVKGRAKGTSVQEVIFKLEQATGAVLVSQEP 978

Query: 988  SKVILYRGWGAEDES--SPRGRQNSRAKPSIVRDVRPWPAVSRELLAAIKLECGLQGQQE 1045
            SKVILYRGWGA +E+  S R  ++   K S  R+  P P VS EL AAI+LECGL+  Q+
Sbjct: 979  SKVILYRGWGAREENGRSYRMNRSDARKTSAGREGGPRPTVSPELRAAIRLECGLKSNQD 1038

Query: 1046 QEA 1048
            + A
Sbjct: 1039 KGA 1041

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|255552728\|ref\|XP_002517407.1\| conserved hypothetical protein [Ricinus communis] gi\|223543418\|gb\|EEF44949.1\| conserved hypothetical protein [Ricinus communis]	Back alignment and taxonomy information

>gi\|224059986\|ref\|XP_002300024.1\| predicted protein [Populus trichocarpa] gi\|222847282\|gb\|EEE84829.1\| predicted protein [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|296087726\|emb\|CBI34982.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|30678323\|ref\|NP_186786.2\| CRM family member 2 [Arabidopsis thaliana] gi\|22531018\|gb\|AAM97013.1\| unknown protein [Arabidopsis thaliana] gi\|37202002\|gb\|AAQ89616.1\| At3g01370 [Arabidopsis thaliana] gi\|332640136\|gb\|AEE73657.1\| CRM family member 2 [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|6692258\|gb\|AAF24608.1\|AC010870_1 unknown protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|449459492\|ref\|XP_004147480.1\| PREDICTED: chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449515235\|ref\|XP_004164655.1\| PREDICTED: LOW QUALITY PROTEIN: chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|357496109\|ref\|XP_003618343.1\| Chloroplastic group IIA intron splicing facilitator CRS1 [Medicago truncatula] gi\|355493358\|gb\|AES74561.1\| Chloroplastic group IIA intron splicing facilitator CRS1 [Medicago truncatula]	Back alignment and taxonomy information

>gi\|356573410\|ref\|XP_003554854.1\| PREDICTED: chloroplastic group IIA intron splicing facilitator CRS1, chloroplastic-like [Glycine max]	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
Query		1050
TAIR\|locus:2096662		1011	CFM2 "CRM family member 2" [Ar	0.892	0.926	0.524	3.4e-244
TAIR\|locus:2094997		848	EMB1865 "embryo defective 1865	0.467	0.579	0.437	1.6e-117
TAIR\|locus:2094558		881	CFM3A "CRM family member 3A" [	0.162	0.194	0.563	6.7e-90
TAIR\|locus:2181372		720	CRS1 "ortholog of maize chloro	0.356	0.519	0.415	1.3e-82
TAIR\|locus:2123276		343	AT4G13070 [Arabidopsis thalian	0.125	0.384	0.421	2.9e-19
TAIR\|locus:2056558		372	AT2G28480 [Arabidopsis thalian	0.281	0.795	0.261	7.5e-17
TAIR\|locus:2094438		444	LOH1 "LAG One Homologue 1" [Ar	0.213	0.504	0.240	9.6e-15
TAIR\|locus:2091458		491	AT3G27550 [Arabidopsis thalian	0.130	0.279	0.328	1.8e-14
TAIR\|locus:2061604		701	CAF1 [Arabidopsis thaliana (ta	0.06	0.089	0.365	8.6e-12
TAIR\|locus:2126694		405	AT4G31010 [Arabidopsis thalian	0.058	0.150	0.377	1.5e-08

TAIR\|locus:2096662 CFM2 "CRM family member 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2353 (833.4 bits), Expect = 3.4e-244, P = 3.4e-244
 Identities = 515/982 (52%), Positives = 642/982 (65%)

Query:    66 SAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIPLPHRIPKYRVGHTIDD 125
             SAIQRIA+KLRSLG VE+      T     E    ++ GEIF+PLP ++P +RVGHTID 
Sbjct:    58 SAIQRIAEKLRSLGFVEEKHDSP-TRRITGEESGKNSPGEIFVPLPKQLPIHRVGHTIDT 116

Query:   126 SWSTPENPVPVPGTGAAIVRYNQLNKEVGRQKWLAKNSKMNEKEKEVPTLAELKLSGKEX 185
             SWSTP  PVP PG+G AI RY++L K V    W  +     +KE++VP+LAEL L   E 
Sbjct:   117 SWSTPSYPVPKPGSGTAISRYHEL-KRV----WKKETEMERKKEEKVPSLAELTLPPAEL 171

Query:   186 XXXXXXXXXXXXXXXXXXXXXTEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLER 245
                                  TEGIVNGIHERWR  EVVKI CED+ R+NMKRTHD LE 
Sbjct:   172 RRLRTVGIRLTKKLKIGKAGITEGIVNGIHERWRTTEVVKIFCEDISRMNMKRTHDVLET 231

Query:   246 KTGGLVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDETKTHSS 305
             KTGGLV+WRSGSKI+LYRG +Y+YPYF++D      A+S    + +  D+G+ +++   S
Sbjct:   232 KTGGLVIWRSGSKILLYRGVNYQYPYFVSDRDLAHEAASG--ASSM--DQGVVDSREKQS 287

Query:   306 GADSAKPSGQSPTNKKVQQTLIHSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDWW 365
              A+S+ PS    TNK V+  L   VGSPDK+R+QLPGE +LVEEADRLL+GLGPRFTDWW
Sbjct:   288 IAESSAPS---ITNKMVKPMLTQGVGSPDKVRFQLPGEVQLVEEADRLLEGLGPRFTDWW 344

Query:   366 GYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTLRRLGRPLPCHFALGRNRN 425
              YDP PVD DLLPA VP YRRPFRLLPYGV PKLT+DEMTT+RRLGRPLPCHFALGRNRN
Sbjct:   345 AYDPLPVDGDLLPAVVPDYRRPFRLLPYGVSPKLTDDEMTTIRRLGRPLPCHFALGRNRN 404

Query:   426 LQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQELKRLTGGTLLSRDREFIVFYRGK 485
             LQGLA AIVKLWEKCE+AKIAVKRG QNTNSE+MA+ELK LTGGTL+SRD++FIV YRGK
Sbjct:   405 LQGLAVAIVKLWEKCELAKIAVKRGVQNTNSELMAEELKWLTGGTLISRDKDFIVLYRGK 464

Query:   486 DFLPPAASSAIEERRKHEFSTSNDSKEEPELG-NRHDNSGDNTQDEFGC-TNDQKSTMHS 543
             DFLP A SSAIEERR+      N S    +L  N  +      +++      DQK  + +
Sbjct:   465 DFLPSAVSSAIEERRRQTMIMENSSVHGNKLTENEEEIKPRAVKEDIELEAKDQKDHIQT 524

Query:   544 EQ---KERRSAEVAIRRTNIRLSRVXXXXXXXXXXXXXXXXXR-PEQYEVDKEGITEEER 599
              Q   ++R S E  + +T+++LS                     P+  ++DKEGIT +E+
Sbjct:   525 HQMKSRQRNSPEAILEKTSMKLSMALEKKANAEKVLADLENRESPQLSDIDKEGITNDEK 584

Query:   600 YMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEV 659
             YMLRK+GL+MK FLL+GRRGVFDGT+ENMHLHWK+RELVKII  +  IEAA + A  LE 
Sbjct:   585 YMLRKIGLKMKPFLLLGRRGVFDGTIENMHLHWKYRELVKIICNEYSIEAAHKVAEILEA 644

Query:   660 ESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRRQSLKLHV 719
             ESGGILVAVE V+KGYAII+YRGKNYERP CLRP+TLL+KREA+KRS+EAQRR+SLKLHV
Sbjct:   645 ESGGILVAVEMVSKGYAIIVYRGKNYERPQCLRPQTLLSKREALKRSVEAQRRKSLKLHV 704

Query:   720 LELTRNIEKLKLQLVKDKEANSLETIDESILPLVKEEIGDMQPAECMRSDTSHEVNVQAR 779
             L+L+ NIE+L  QLV+D   N   +  ES   +V+EE  + Q  E  ++    E+   + 
Sbjct:   705 LKLSNNIEELNRQLVEDSATNETWSDGESSNMMVEEET-ENQHTEPEKAREKIELGYSS- 762

Query:   780 GECGADLTSTES-NDTGDATIDGPPAIQQDKQTESLTHNDFFAEGVASGTSSCPDNSMQE 838
              +     +  E+  D  +  +D      Q+ Q +         E  ++ +     NS+  
Sbjct:   763 -DLSVPSSGEENWEDDSEGEVDPLTTSSQEYQED---------ESESASSQRHEGNSLDS 812

Query:   839 VMEYNTIVDAEQCSSDNEPRXXXXXXXXXXXXXNEPIEQSFELAKGRSGLSTPIGT-GNV 897
                 N  V AE  S++                 N  +  + +L    +G  + I      
Sbjct:   813 TA--NLSVFAETGSAN------ASSFHDRSLPHNSFLNANRKLPGSSTGSGSQISALRER 864

Query:   898 WNENNSRAIQLSNRDRLLLRKQALRMKKRPVLAVGRSNIVTGVAKAIKAHFEKYPLAIVN 957
              +EN+     LSNR+RL+LRKQAL+MKKRP  AVGRSN+VTG+A+ +K HF+K PLAIVN
Sbjct:   865 KSENDGLVTDLSNRERLILRKQALKMKKRPPFAVGRSNVVTGLARTLKMHFQKNPLAIVN 924

Query:   958 VKGRAKGTSVQEVVAKLEEATGAVLVSQEPSKVILYRGWGAEDESS---PRGRQNSRAK- 1013
             VKGRA GTSVQEV+AKL+E TGA+LVSQEPSKVILYRGWGAE+E     P     S    
Sbjct:   925 VKGRANGTSVQEVIAKLKEETGALLVSQEPSKVILYRGWGAEEEMKSFYPNNNVKSSINL 984

Query:  1014 PSIVRDVRPWPAVSRELLAAIK 1035
             PS    V   P VS  L+ AI+
Sbjct:   985 PSTRSFVDDPPHVSPALIEAIR 1006

GO:0003723 "RNA binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;RCA

GO:0000372 "Group I intron splicing" evidence=IMP

GO:0000373 "Group II intron splicing" evidence=IMP

TAIR\|locus:2094997 EMB1865 "embryo defective 1865" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2094558 CFM3A "CRM family member 3A" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2181372 CRS1 "ortholog of maize chloroplast splicing factor CRS1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2123276 AT4G13070 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2056558 AT2G28480 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2094438 LOH1 "LAG One Homologue 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2091458 AT3G27550 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2061604 CAF1 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2126694 AT4G31010 [Arabidopsis thaliana (taxid:3702)]	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

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
Query		1050
smart01103		84	smart01103, CRS1_YhbY, Escherichia coli YhbY is as	7e-25
pfam01985		84	pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	2e-23
smart01103		84	smart01103, CRS1_YhbY, Escherichia coli YhbY is as	2e-18
smart01103		84	smart01103, CRS1_YhbY, Escherichia coli YhbY is as	3e-18
pfam01985		84	pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	2e-17
pfam01985		84	pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	5e-16
smart01103		84	smart01103, CRS1_YhbY, Escherichia coli YhbY is as	6e-15
pfam01985		84	pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	1e-14
COG1534		97	COG1534, COG1534, Predicted RNA-binding protein co	6e-08
TIGR00253		95	TIGR00253, RNA_bind_YhbY, putative RNA-binding pro	8e-05
PRK10343		97	PRK10343, PRK10343, RNA-binding protein YhbY; Prov	5e-04

>gnl\|CDD\|198171 smart01103, CRS1_YhbY, Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly	Back alignment and domain information

 Score = 98.7 bits (247), Expect = 7e-25
 Identities = 30/84 (35%), Positives = 47/84 (55%)

Query: 180 LSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRT 239
           L+GK+ R LR+L   L+  ++IGK G+TEG++  I E     E++K+      R + K  
Sbjct: 1   LTGKQKRYLRSLAHHLKPVVQIGKNGLTEGVLEEIDEALEKHELIKVKVLGNDREDRKEI 60

Query: 240 HDSLERKTGGLVVWRSGSKIILYR 263
            + L  +TG  +V   G  I+LYR
Sbjct: 61  AEELAEETGAELVQVIGKTIVLYR 84

GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome. Length = 84

>gnl\|CDD\|190184 pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	Back alignment and domain information

>gnl\|CDD\|198171 smart01103, CRS1_YhbY, Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly	Back alignment and domain information

>gnl\|CDD\|198171 smart01103, CRS1_YhbY, Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly	Back alignment and domain information

>gnl\|CDD\|190184 pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	Back alignment and domain information

>gnl\|CDD\|190184 pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	Back alignment and domain information

>gnl\|CDD\|198171 smart01103, CRS1_YhbY, Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly	Back alignment and domain information

>gnl\|CDD\|190184 pfam01985, CRS1_YhbY, CRS1 / YhbY (CRM) domain	Back alignment and domain information

>gnl\|CDD\|224451 COG1534, COG1534, Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|129355 TIGR00253, RNA_bind_YhbY, putative RNA-binding protein, YhbY family	Back alignment and domain information

>gnl\|CDD\|182393 PRK10343, PRK10343, RNA-binding protein YhbY; Provisional	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1050
KOG1990		564	consensus Poly(A)-specific exoribonuclease PARN [R	100.0
PRK10343		97	RNA-binding protein YhbY; Provisional	99.91
TIGR00253		95	RNA_bind_YhbY putative RNA-binding protein, YhbY f	99.91
PF01985		84	CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR	99.9
COG1534		97	Predicted RNA-binding protein containing KH domain	99.89
PF01985		84	CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR	99.89
PRK10343		97	RNA-binding protein YhbY; Provisional	99.89
TIGR00253		95	RNA_bind_YhbY putative RNA-binding protein, YhbY f	99.88
COG1534		97	Predicted RNA-binding protein containing KH domain	99.83
KOG1990		564	consensus Poly(A)-specific exoribonuclease PARN [R	99.77

>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=1.3e-63  Score=576.09  Aligned_cols=512  Identities=43%  Similarity=0.637  Sum_probs=444.8

Q ss_pred             ccCCCchhhccCCHHHHHHHHhhccCCCCcEEeCCCCCCHHHHHHHHHHHHhCCeEEEEecCCchhhHHHHHHHHHHHhC
Q 001577          169 EKEVPTLAELKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTG  248 (1050)
Q Consensus       169 ~~~~PtlAEl~Lt~kErr~LRklA~~Lkp~V~IGK~GLTq~VVeeI~~~Wkk~ELVKIKv~g~~~~dmke~aE~LEekTG  248 (1050)
                      ... |++|++++...++.+||..|..+....  +++|+|+.+++.|+..|+.+|+++++|......+|.+++++++..||
T Consensus         4 ~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~~~~~~~~~y~k~k~~~~~~~~~q~~~~~~~~~~~~~~~~~~~   80 (564)
T KOG1990|consen    4 FES-LSLAELTVDEADLRRLRLVATGMTSAP--WKAGSTFDTVEAIYLKWKDNEEVYLKFQFGLCLFMKRSHEALEMSTG   80 (564)
T ss_pred             ccc-hhHHHhhcCHHHHHHHhhhhccceecc--cccccchhhhHHHHHHHHhhhhhheeeccccchhHHHhhhHhhccCC
Confidence            445 999999999999999999999998887  99999999999999999999999999997777799999999999999


Q ss_pred             C-EEEEEECcEEEEEecCCCCCCccccCCCCCCCCCCCCCCCcccccccccccccccCCCCCCCCCCCCCCchhhhhhhc
Q 001577          249 G-LVVWRSGSKIILYRGADYKYPYFLADESSTDGASSDDLPNQLVDDEGLDETKTHSSGADSAKPSGQSPTNKKVQQTLI  327 (1050)
Q Consensus       249 G-~VV~riG~tiVLYRGknY~~P~~~~~~~~~~e~~~~~~~~~~~d~e~~~~~~~~~ss~~~~~~~g~~~e~~~~~~~l~  327 (1050)
                      | -+||+.|.....|++..|..|..-..+.              ++                           .....| 
T Consensus        81 ~n~~~~~~g~~~s~~~~~~~~~~~~~~~~~--------------~~---------------------------~~~~~~-  118 (564)
T KOG1990|consen   81 GNFVVWSRGDSISSPEFLCQRSPVDFVARQ--------------QE---------------------------NQAGKW-  118 (564)
T ss_pred             CceeeeecCccccCCccceeecchhhhhhh--------------ch---------------------------hhhhhh-
Confidence            9 9999999999999888887764322210              00                           000000 


Q ss_pred             cccCCCCccccCCcchhhhHHHHHHhhhccCCCccCCCCCCCCccCCCCCCcccCCCCCCcccCCCCCCCCCCHHHHHHH
Q 001577          328 HSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDWWGYDPQPVDADLLPATVPGYRRPFRLLPYGVQPKLTNDEMTTL  407 (1050)
Q Consensus       328 ~~~~~~~~~~~~~p~E~~~e~E~~~LLd~LGPRF~dW~g~~PlPVDAdLLP~vVpgyk~PfR~lP~gvr~~LT~eErt~L  407 (1050)
                                     ...++.+.+.+++++||+|.+||+.+|+|+|+|++|++||+|.+|||.+|+|++++||..|.+++
T Consensus       119 ---------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dl~~~~i~~~~~p~r~l~~~~~~~l~~~~~~~~  183 (564)
T KOG1990|consen  119 ---------------PSELEKEKNELLDSLGPELSDWGGSDRLSVDADLLPEKIPDYMRPFRTLPVGSPPLLTSIESTLL  183 (564)
T ss_pred             ---------------HHHHHHHHHHHhhccCcccccCCCCCCccchhhhchhhhhcccChhccCCCCChhhhhhHHHHHH
Confidence                           13456789999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHcCCCCCceeEeccCcchHHHHHHHHHHhhcCcceEEEecCCCCcchHHHHHHHH--HhhhCCEEEEeeCCEEEEEcCC
Q 001577          408 RRLGRPLPCHFALGRNRNLQGLAAAIVKLWEKCEIAKIAVKRGAQNTNSEMMAQEL--KRLTGGTLLSRDREFIVFYRGK  485 (1050)
Q Consensus       408 Rklar~lpph~~LGRngv~~GLa~aI~k~we~~ELVKI~~K~gv~~td~e~ma~~L--k~lTGGvLVsr~k~~IIlYRGK  485 (1050)
                      |++|..+||||++|+++..+|++.+|+.+|++|+++++.+++|+..+..+.+|..|  ...||++||++|+.++|+|||+
T Consensus       184 r~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~k~~~~k~~~~rg~~~~~~~~~a~~l~~~~~tg~~lv~hN~~~dv~y~~~  263 (564)
T KOG1990|consen  184 RRLGYKLPPHFALGRSRKLQGLAVAMVSFWEKHEFAKILIKRGVLETRKERMADELQELLLTGKVLVLHNKLLDVMYRYK  263 (564)
T ss_pred             HHhcccccccceehhccccccchhHHHHHHHHHHHHHHHHHhcchhhhccchHHHHHHHHhcCCeEEeeccceeeeeehh
Confidence            99999999999999999999999999999999999999999999999999999999  9999999999999999999999


Q ss_pred             CCCChhhhhHHHHHHhhhccccCCCCCccccCCC--CCCCCCCCccccc---cccccccc------hhhHHHHHHHHHHH
Q 001577          486 DFLPPAASSAIEERRKHEFSTSNDSKEEPELGNR--HDNSGDNTQDEFG---CTNDQKST------MHSEQKERRSAEVA  554 (1050)
Q Consensus       486 dflp~~V~~~L~eR~~l~~s~~~~~~~~~e~~~~--~~~s~~~t~~~~~---~~~~~~~~------~~~~~~~~~~~~~~  554 (1050)
                      +|++ .+..+|.++++.....+............  ++....+|..++.   +.++..-.      ....+......++.
T Consensus       264 ~Fl~-~lp~~l~~f~~~~~~fp~~~~~~~~~~~~~~~~~~~~~t~~e~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~  342 (564)
T KOG1990|consen  264 NFLS-PLPSTLEEFTDSSSMFPNIEDTKRLAKLSEYQKLNLKATLLELARAKAKKEKEIERRSISSRLKLEFEKASSEKL  342 (564)
T ss_pred             hccc-ccchhHHHhhhhhhhhhhhHHHHHhhccccccchhhhhhHHHHHHHhcccccCcccccccchhhhhhhccchhhH
Confidence            9999 89999999988632222221100000100  1112233333321   11111000      01222334566778


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhcc-cCCCCcccCcCCCCHHHHHHHHhcccCCCceEEeccCCCCHHHHHHHHHHHh
Q 001577          555 IRRTNIRLSRVLEKKAEAEKLLAELEE-ERPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWK  633 (1050)
Q Consensus       555 ~k~~e~kL~~~~~K~~kae~ll~kle~-~~P~~~~~d~E~LT~eERk~LRkiGhkmkPvV~IGK~GVtdgVIeeIh~ALk  633 (1050)
                      .+.+++++..+..|...++..+++++. ..|.+..+|+|.+|.+++.+++++|.+|++++.+|++|+|+|++.+||+||+
T Consensus       343 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~e~~t~ee~~~~~k~g~k~~~~~~~~rrg~f~g~i~n~~l~wk  422 (564)
T KOG1990|consen  343 TEAIFHKLEKAKKKLASANRILAKLEDPKIPAELRYDPESITEEERLMLRKVGLKMKRRLLSGRRGVFDGVIENMHLHWK  422 (564)
T ss_pred             HHHHHHHHhhhhhhccchhhhhhcccccccccccccchhhcChHHHHHHHHHHHhhccccccCCcccccceeecchhhhh
Confidence            899999999999999999999999998 8899998999999999999999999999999999999999999999999999


Q ss_pred             ccceEEEEecCCCH-HHHHHHHHHHHHHhCCEEEEeeecccCcEEEEEccCCCCCCCcCCccccccHHHHHHHhHHHHHH
Q 001577          634 HRELVKIISKQRKI-EAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTLLTKREAMKRSLEAQRR  712 (1050)
Q Consensus       634 ~rELIKVkv~~n~~-ed~keiA~~Le~~SGgeLVqv~k~~IG~~IILYRgKNY~rP~~l~P~~lLtKrkAl~rs~e~qr~  712 (1050)
                      +||++|++|+.... .++++.|..++.++|+++|+++++..|++|+.||++||.+|..++|.++|+|++|+.+++++|++
T Consensus       423 ~~e~~k~i~~~~~~~~~~~~~a~~le~esg~~~v~~~~~~~~~ai~~yr~k~y~~p~~l~P~~~l~~~k~~~~~~~~~~~  502 (564)
T KOG1990|consen  423 SRELVKVICKEKNLPSQVKQYASALERESGGILVSIDKNPKGYAIIAYRGKNYDRPTSLRPRNLLSRRKALERSLEEQRK  502 (564)
T ss_pred             hcccceeeeccccccHHHHHHHHHHHHHhCCceeeeccCCchhhHHHhhhhhccCCcccCchhhhcccCCccccHHHHHH
Confidence            99999999999877 99999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhhhccc
Q 001577          713 QSLKLHVLELTRNIEKLKLQLVKDKEANS  741 (1050)
Q Consensus       713 ~sl~~~i~~l~~~i~~l~~~l~~~~~~~~  741 (1050)
                      ++++.||..+..++++++.++..+...+.
T Consensus       503 ~a~~~~i~~~~~~~e~~~~~~~~~~~~~~  531 (564)
T KOG1990|consen  503 EALKSHISDLEQEIEQLQASVEAMPAINK  531 (564)
T ss_pred             HHHhhhcchhhhhHHHhhcchhccccccc
Confidence            99999999999999999999877766665

>PRK10343 RNA-binding protein YhbY; Provisional	Back alignment and domain information

>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family	Back alignment and domain information

>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain	Back alignment and domain information

>COG1534 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain	Back alignment and domain information

>PRK10343 RNA-binding protein YhbY; Provisional	Back alignment and domain information

>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family	Back alignment and domain information

>COG1534 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1990 consensus Poly(A)-specific exoribonuclease PARN [Replication, recombination and repair]	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		1050
1rq8_A		104	Conserved hypothetical protein; structural genomic	2e-18
1rq8_A		104	Conserved hypothetical protein; structural genomic	3e-12
1rq8_A		104	Conserved hypothetical protein; structural genomic	3e-10
1jo0_A		98	Hypothetical protein HI1333; structural genomics,	4e-18
1jo0_A		98	Hypothetical protein HI1333; structural genomics,	7e-13
1jo0_A		98	Hypothetical protein HI1333; structural genomics,	9e-10
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-07

>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1 Length = 104	Back alignment and structure

 Score = 80.4 bits (199), Expect = 2e-18
 Identities = 25/84 (29%), Positives = 43/84 (51%)

Query: 180 LSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRT 239
           L+GK+ R LR+L   +    +IGK GI E ++  I +   + E++K+        + K  
Sbjct: 2   LTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKEL 61

Query: 240 HDSLERKTGGLVVWRSGSKIILYR 263
            ++L   T   +V   GS I++YR
Sbjct: 62  AETLSEATRSELVQVIGSMIVIYR 85

PyMOL of 1rq8

>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1 Length = 104	Back alignment and structure

>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1 Length = 104	Back alignment and structure

>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A Length = 98	Back alignment and structure

>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A Length = 98	Back alignment and structure

>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A Length = 98	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

 Score = 52.5 bits (125), Expect = 6e-07
 Identities = 68/560 (12%), Positives = 135/560 (24%), Gaps = 183/560 (32%)

Query: 266 DYKY--------PYFLADESSTDGASSDDLPNQLVDDEGLDETKTHSSGADSAKPSGQSP 317
            Y+Y          F+ +    D     D+P  ++  E +D                 S 
Sbjct: 15  QYQYKDILSVFEDAFVDN---FDCKDVQDMPKSILSKEEIDHII-------------MSK 58

Query: 318 TNKKVQQTLIHSVGSPDKLRYQLPGEAELVEEADRLLDGLGPRFTDW-WGYDP---QPVD 373
                   L  ++     L  Q     + VEE  R          ++ +   P   +   
Sbjct: 59  DAVSGTLRLFWTL-----LSKQEEMVQKFVEEVLR---------INYKFLMSPIKTEQRQ 104

Query: 374 ADLLPATVPGYR-------RPFRLLPYGVQ-PKLTNDEMTTLRRLGRPLPCHFALGRNRN 425
             ++       R       + F    Y V   +        L  L RP        +N  
Sbjct: 105 PSMMTRMYIEQRDRLYNDNQVFA--KYNVSRLQPYLKLRQALLEL-RP-------AKNVL 154

Query: 426 LQG--------LAAAIVK------------LWEKCEIAKIAVKRGAQNTNSEMMA--QEL 463
           + G        +A  +               W         +     N+   ++   Q+L
Sbjct: 155 IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW---------LNLKNCNSPETVLEMLQKL 205

Query: 464 KRLTGGTLLSRDREFIVFYRGKDFLPPAASSAIEERRKHEFSTSNDSKEEPELGNRHDNS 523
                    SR                    +I+   +    +             ++N 
Sbjct: 206 LYQIDPNWTSRSD--------HSSNIKLRIHSIQAELRRLLKS-----------KPYENC 246

Query: 524 ---GDNTQD-------EFGC-----TNDQKSTMHSEQKERRSAEVAIRRTNIRLSRVLEK 568
                N Q+          C     T  ++ T      +  SA      +    S  L  
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVT------DFLSAATTTHISLDHHSMTLTP 300

Query: 569 KAEAEKLLAELEEERPEQYEVDKEGITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENM 628
             E + LL +  + RP+                L +  L      L     +   ++ + 
Sbjct: 301 -DEVKSLLLKYLDCRPQD---------------LPREVLTTNPRRL----SIIAESIRDG 340

Query: 629 HLHWKHRELVKIISKQRKIEAALQEARTLEV----ESGGILVAVERVNKGYAI------I 678
              W + + V        IE++L      E     +   +       +    I      +
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF--PPSAH----IPTILLSL 394

Query: 679 LYRGKNYERP----ACLRPKTLLTKREAMKR--------SLEAQRRQSLKLHVLELTRNI 726
           ++              L   +L+ K+              L+ +      LH       +
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH----RSIV 450

Query: 727 EKLKLQLVKDKEANSLETID 746
           +   +    D +      +D
Sbjct: 451 DHYNIPKTFDSDDLIPPYLD 470

PyMOL of 1vt4

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		1050
d1rq8a_		96	d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphy	2e-23
d1rq8a_		96	d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphy	2e-18
d1rq8a_		96	d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphy	1e-16
d1rq8a_		96	d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphy	8e-16
d1jo0a_		97	d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus i	8e-23
d1jo0a_		97	d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus i	3e-18
d1jo0a_		97	d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus i	7e-16
d1jo0a_		97	d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus i	6e-15

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]} Length = 96	Back information, alignment and structure


class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: YhbY-like
family: YhbY-like
domain: Hypothetical protein SAV1595
species: Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]

 Score = 93.6 bits (233), Expect = 2e-23
 Identities = 25/89 (28%), Positives = 44/89 (49%)

Query: 180 LSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRT 239
           L+GK+ R LR+L   +    +IGK GI E ++  I +   + E++K+        + K  
Sbjct: 2   LTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKEL 61

Query: 240 HDSLERKTGGLVVWRSGSKIILYRGADYK 268
            ++L   T   +V   GS I++YR +   
Sbjct: 62  AETLSEATRSELVQVIGSMIVIYRESKEN 90

PyMOL of d1rq8a_

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]} Length = 96	Back information, alignment and structure

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]} Length = 96	Back information, alignment and structure

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]} Length = 96	Back information, alignment and structure

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]} Length = 97	Back information, alignment and structure

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]} Length = 97	Back information, alignment and structure

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]} Length = 97	Back information, alignment and structure

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]} Length = 97	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
Query		1050
d1rq8a_		96	Hypothetical protein SAV1595 {Staphylococcus aureu	99.91
d1jo0a_		97	YhbY homologue HI1333 {Haemophilus influenzae [Tax	99.9
d1jo0a_		97	YhbY homologue HI1333 {Haemophilus influenzae [Tax	99.9
d1rq8a_		96	Hypothetical protein SAV1595 {Staphylococcus aureu	99.9

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]}	Back information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: IF3-like
superfamily: YhbY-like
family: YhbY-like
domain: Hypothetical protein SAV1595
species: Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]

Probab=99.91  E-value=7.7e-24  Score=174.65  Aligned_cols=89  Identities=22%  Similarity=0.384  Sum_probs=50.6

Q ss_pred             CCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEEECC
Q ss_conf             99999999999612477746870567878779999999985055287992589999999999999989399899732226
Q 001577          593 GITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVN  672 (1050)
Q Consensus       593 ~LT~eER~~LRkiGlklkpiV~IGKrGVtdgVIe~Ih~Alk~rELVKV~v~~~~~ed~keiA~~Le~~SGgiLVqv~k~~  672 (1050)
                      |||++||++||++||+++|+|+||++|||++|+.+++.||+.||||||+|.+++.+++++++..|++.++|++||+    
T Consensus         1 mLt~kqr~~LR~~ah~l~p~v~IGk~Glt~~vi~ei~~~l~~~ELIKvk~~~~~~~~~~~~~~~l~~~t~a~~V~~----   76 (96)
T d1rq8a_           1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQV----   76 (96)
T ss_dssp             CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEE----
T ss_pred             CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEE----
T ss_conf             9698999999997668999899889987899999999999759715999657998999999999999869999999----


Q ss_pred             CCCEEEEECCCCC
Q ss_conf             5739999716899
Q 001577          673 KGYAIILYRGKNY  685 (1050)
Q Consensus       673 IG~tIILYRgKNY  685 (1050)
                      ||+++||||++++
T Consensus        77 iG~~~vlyR~~~~   89 (96)
T d1rq8a_          77 IGSMIVIYRESKE   89 (96)
T ss_dssp             ETTEEEEEECCCS
T ss_pred             ECCEEEEEECCCC
T ss_conf             8999999957988

PyMOL of d1rq8a_

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]}	Back information, alignment and structure

>d1jo0a_ d.68.4.1 (A:) YhbY homologue HI1333 {Haemophilus influenzae [TaxId: 727]}	Back information, alignment and structure

>d1rq8a_ d.68.4.1 (A:) Hypothetical protein SAV1595 {Staphylococcus aureus, (strain Mu50 / ATCC 700699) [TaxId: 1280]}	Back information, alignment and structure